Query 003821
Match_columns 793
No_of_seqs 595 out of 3682
Neff 9.7
Searched_HMMs 46136
Date Thu Mar 28 12:39:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003821.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003821hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 8.4E-89 1.8E-93 692.9 37.4 658 4-719 88-842 (897)
2 KOG4440 NMDA selective glutama 100.0 3.7E-78 8.1E-83 617.7 28.4 632 20-725 114-860 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 8.3E-71 1.8E-75 584.4 47.7 658 2-722 96-857 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 3.3E-60 7.1E-65 550.7 51.8 544 131-719 5-620 (656)
5 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1E-39 2.2E-44 348.9 29.5 277 4-301 54-363 (364)
6 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3.3E-38 7.2E-43 340.0 29.7 283 4-302 55-369 (370)
7 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 5.9E-38 1.3E-42 334.1 29.9 279 4-301 61-371 (372)
8 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 2E-37 4.3E-42 333.0 30.0 278 4-302 61-370 (371)
9 cd06392 PBP1_iGluR_delta_1 N-t 100.0 2.5E-37 5.4E-42 330.0 28.5 287 4-302 60-399 (400)
10 cd06393 PBP1_iGluR_Kainate_Glu 100.0 4.7E-37 1E-41 334.6 29.4 282 5-302 71-382 (384)
11 cd06380 PBP1_iGluR_AMPA N-term 100.0 7.9E-37 1.7E-41 333.7 30.1 282 4-301 60-381 (382)
12 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 5.2E-36 1.1E-40 326.3 29.3 254 4-298 78-364 (377)
13 cd06367 PBP1_iGluR_NMDA N-term 100.0 3E-36 6.5E-41 326.7 26.2 266 2-297 59-351 (362)
14 cd06386 PBP1_NPR_C_like Ligand 100.0 1.4E-35 3E-40 322.9 30.6 279 4-297 65-378 (387)
15 cd06391 PBP1_iGluR_delta_2 N-t 100.0 3.9E-35 8.4E-40 317.0 30.1 287 4-302 60-399 (400)
16 cd06361 PBP1_GPC6A_like Ligand 100.0 4.9E-35 1.1E-39 318.4 29.2 267 5-300 102-396 (403)
17 cd06376 PBP1_mGluR_groupIII Li 100.0 2.6E-34 5.7E-39 320.5 30.7 281 5-297 102-452 (463)
18 cd06365 PBP1_Pheromone_recepto 100.0 3.1E-34 6.6E-39 318.9 29.4 282 5-298 102-453 (469)
19 cd06374 PBP1_mGluR_groupI Liga 100.0 2.9E-34 6.3E-39 320.7 29.3 282 4-297 115-464 (472)
20 cd06362 PBP1_mGluR Ligand bind 100.0 8E-34 1.7E-38 316.9 29.5 285 5-301 102-450 (452)
21 cd06375 PBP1_mGluR_groupII Lig 100.0 2.3E-33 5E-38 310.6 30.9 279 4-297 103-454 (458)
22 cd06364 PBP1_CaSR Ligand-bindi 100.0 4.9E-33 1.1E-37 311.1 31.5 282 5-298 117-494 (510)
23 cd06394 PBP1_iGluR_Kainate_KA1 100.0 6.4E-34 1.4E-38 298.5 20.4 256 4-302 63-332 (333)
24 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.1E-32 2.4E-37 303.2 28.8 281 4-299 72-392 (405)
25 cd06372 PBP1_GC_G_like Ligand- 100.0 3.2E-32 6.8E-37 298.3 29.8 286 2-299 64-387 (391)
26 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.1E-32 2.5E-37 294.1 25.1 266 1-298 57-351 (362)
27 cd06366 PBP1_GABAb_receptor Li 100.0 2.1E-32 4.5E-37 295.6 27.4 267 1-302 61-347 (350)
28 cd06363 PBP1_Taste_receptor Li 100.0 3.8E-32 8.3E-37 298.8 29.3 263 4-298 105-396 (410)
29 cd06373 PBP1_NPR_like Ligand b 100.0 2.4E-32 5.3E-37 299.7 27.5 286 2-299 69-390 (396)
30 cd06384 PBP1_NPR_B Ligand-bind 100.0 4.8E-32 1E-36 297.1 29.7 280 5-299 72-393 (399)
31 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.3E-31 5E-36 288.9 27.5 270 4-294 64-368 (382)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 6.8E-32 1.5E-36 288.5 22.8 252 1-301 59-326 (327)
33 cd06381 PBP1_iGluR_delta_like 100.0 1.1E-30 2.5E-35 279.1 28.5 269 1-301 58-362 (363)
34 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.6E-30 3.4E-35 285.3 29.5 287 1-300 63-384 (389)
35 cd06370 PBP1_Speract_GC_like L 100.0 9.5E-31 2.1E-35 287.1 27.4 274 4-289 67-386 (404)
36 PF01094 ANF_receptor: Recepto 100.0 1.1E-30 2.4E-35 282.5 22.9 271 4-285 49-348 (348)
37 KOG1056 Glutamate-gated metabo 100.0 3.5E-30 7.5E-35 285.8 23.1 284 5-300 124-474 (878)
38 cd06368 PBP1_iGluR_non_NMDA_li 100.0 8E-30 1.7E-34 272.5 23.6 254 1-301 58-323 (324)
39 cd06383 PBP1_iGluR_AMPA_Like N 100.0 5.1E-29 1.1E-33 267.0 18.6 254 5-280 64-356 (368)
40 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 2.1E-27 4.5E-32 255.2 26.5 258 1-284 62-334 (334)
41 cd06338 PBP1_ABC_ligand_bindin 100.0 4.2E-27 9.1E-32 253.9 25.2 260 1-283 66-344 (345)
42 PRK15404 leucine ABC transport 100.0 1.2E-26 2.6E-31 250.8 26.4 262 1-288 88-363 (369)
43 cd06345 PBP1_ABC_ligand_bindin 100.0 1.1E-26 2.4E-31 250.1 24.3 253 1-276 62-338 (344)
44 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 3.6E-26 7.7E-31 245.0 24.6 245 2-297 59-322 (328)
45 cd06346 PBP1_ABC_ligand_bindin 99.9 4.3E-26 9.4E-31 241.8 22.9 232 1-280 62-309 (312)
46 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 2.4E-25 5.2E-30 233.4 27.5 260 4-298 79-371 (382)
47 cd06350 PBP1_GPCR_family_C_lik 99.9 4.2E-26 9.2E-31 246.4 22.7 233 5-298 90-340 (348)
48 cd06340 PBP1_ABC_ligand_bindin 99.9 1.5E-25 3.2E-30 241.4 23.4 254 1-277 65-342 (347)
49 cd06348 PBP1_ABC_ligand_bindin 99.9 6.7E-25 1.4E-29 236.4 26.3 257 1-281 62-343 (344)
50 cd06344 PBP1_ABC_ligand_bindin 99.9 5.7E-25 1.2E-29 235.5 23.6 249 1-276 61-326 (332)
51 cd06355 PBP1_FmdD_like Peripla 99.9 9.7E-25 2.1E-29 234.8 24.8 269 1-292 62-345 (348)
52 COG0683 LivK ABC-type branched 99.9 1.4E-24 3E-29 234.3 24.0 267 1-287 73-355 (366)
53 cd06360 PBP1_alkylbenzenes_lik 99.9 3.3E-24 7.1E-29 230.5 25.0 255 2-277 61-330 (336)
54 cd06327 PBP1_SBP_like_1 Peripl 99.9 1.5E-24 3.3E-29 232.5 21.8 253 1-275 61-328 (334)
55 cd06347 PBP1_ABC_ligand_bindin 99.9 1.4E-23 3E-28 225.5 27.3 250 1-276 62-328 (334)
56 cd06359 PBP1_Nba_like Type I p 99.9 6.9E-24 1.5E-28 227.2 24.2 257 1-282 60-331 (333)
57 cd06349 PBP1_ABC_ligand_bindin 99.9 2E-23 4.4E-28 224.5 27.7 261 1-288 62-339 (340)
58 cd06336 PBP1_ABC_ligand_bindin 99.9 5E-24 1.1E-28 229.5 22.6 255 1-279 66-344 (347)
59 cd06343 PBP1_ABC_ligand_bindin 99.9 1.2E-23 2.6E-28 228.4 25.3 267 1-289 69-362 (362)
60 cd06331 PBP1_AmiC_like Type I 99.9 7.4E-24 1.6E-28 227.1 22.9 253 1-276 62-327 (333)
61 TIGR03669 urea_ABC_arch urea A 99.9 1.7E-23 3.6E-28 225.7 24.5 272 1-296 63-349 (374)
62 cd06330 PBP1_Arsenic_SBP_like 99.9 1E-23 2.3E-28 227.4 22.1 254 1-275 62-337 (346)
63 cd06328 PBP1_SBP_like_2 Peripl 99.9 2.2E-23 4.7E-28 223.1 22.8 248 1-273 63-324 (333)
64 cd06329 PBP1_SBP_like_3 Peripl 99.9 2.2E-23 4.8E-28 224.1 22.4 247 2-273 63-333 (342)
65 TIGR03407 urea_ABC_UrtA urea A 99.9 6.2E-23 1.4E-27 221.7 24.7 262 1-284 63-337 (359)
66 cd06332 PBP1_aromatic_compound 99.9 1.3E-22 2.8E-27 217.9 24.4 251 2-276 61-326 (333)
67 cd06357 PBP1_AmiC Periplasmic 99.9 3.2E-22 6.9E-27 216.2 26.4 274 1-294 62-348 (360)
68 cd06335 PBP1_ABC_ligand_bindin 99.9 1.6E-22 3.5E-27 217.7 23.8 258 1-273 62-337 (347)
69 cd06337 PBP1_ABC_ligand_bindin 99.9 1.4E-22 3E-27 219.0 23.0 262 1-288 64-356 (357)
70 PF13458 Peripla_BP_6: Peripla 99.9 1.5E-22 3.2E-27 218.4 21.3 263 2-287 65-342 (343)
71 cd06358 PBP1_NHase Type I peri 99.9 5.4E-22 1.2E-26 212.6 23.0 249 1-273 62-324 (333)
72 cd06356 PBP1_Amide_Urea_BP_lik 99.9 8E-22 1.7E-26 211.0 22.4 251 1-274 62-326 (334)
73 cd06269 PBP1_glutamate_recepto 99.9 1E-21 2.3E-26 207.1 18.7 220 4-297 69-291 (298)
74 cd06334 PBP1_ABC_ligand_bindin 99.9 3.7E-21 7.9E-26 206.6 21.5 255 1-273 62-347 (351)
75 cd06339 PBP1_YraM_LppC_lipopro 99.9 4.8E-21 1E-25 204.8 19.9 238 5-274 58-329 (336)
76 TIGR03863 PQQ_ABC_bind ABC tra 99.9 3.9E-21 8.4E-26 204.2 19.0 254 4-284 57-315 (347)
77 KOG1055 GABA-B ion channel rec 99.8 4.4E-21 9.6E-26 206.3 9.8 272 7-300 114-432 (865)
78 cd06326 PBP1_STKc_like Type I 99.8 3E-19 6.6E-24 191.9 23.4 252 2-273 64-329 (336)
79 PRK09495 glnH glutamine ABC tr 99.8 1.6E-19 3.5E-24 184.5 19.5 209 346-671 24-245 (247)
80 PRK10797 glutamate and asparta 99.8 1.7E-19 3.7E-24 188.5 18.4 209 346-671 39-273 (302)
81 PRK11260 cystine transporter s 99.8 9.9E-19 2.1E-23 180.7 17.8 212 345-671 39-263 (266)
82 PF00497 SBP_bac_3: Bacterial 99.8 5.3E-19 1.2E-23 178.1 14.0 211 349-670 1-225 (225)
83 cd06341 PBP1_ABC_ligand_bindin 99.8 4.6E-18 1E-22 183.0 21.0 244 1-264 62-318 (341)
84 PRK15010 ABC transporter lysin 99.8 3.7E-18 8E-23 175.8 18.4 212 346-671 25-256 (260)
85 cd06369 PBP1_GC_C_enterotoxin_ 99.8 2.3E-17 5.1E-22 168.4 23.3 259 5-299 80-366 (380)
86 PRK15007 putative ABC transpor 99.8 8.5E-18 1.9E-22 171.5 18.9 205 346-669 20-242 (243)
87 PRK11917 bifunctional adhesin/ 99.8 7E-18 1.5E-22 172.8 18.2 205 345-668 36-258 (259)
88 PF00060 Lig_chan: Ligand-gate 99.8 6.8E-20 1.5E-24 171.3 2.5 107 450-556 1-115 (148)
89 TIGR01096 3A0103s03R lysine-ar 99.8 2.2E-17 4.8E-22 169.3 17.8 207 347-668 24-250 (250)
90 PRK15437 histidine ABC transpo 99.7 4.4E-17 9.6E-22 167.6 17.8 212 346-671 25-256 (259)
91 cd04509 PBP1_ABC_transporter_G 99.7 6.2E-17 1.3E-21 170.6 18.7 214 2-232 63-290 (299)
92 TIGR02995 ectoine_ehuB ectoine 99.7 7.1E-17 1.5E-21 167.5 16.5 212 345-669 31-261 (275)
93 cd06333 PBP1_ABC-type_HAAT_lik 99.7 2.8E-16 6.1E-21 166.9 21.3 217 1-241 61-298 (312)
94 PF13433 Peripla_BP_5: Peripla 99.7 1.7E-16 3.7E-21 162.8 17.5 249 1-273 63-326 (363)
95 PRK09959 hybrid sensory histid 99.7 5.6E-16 1.2E-20 194.4 20.5 204 346-671 301-522 (1197)
96 PRK10859 membrane-bound lytic 99.7 5.4E-16 1.2E-20 172.8 15.5 212 343-671 39-268 (482)
97 cd06268 PBP1_ABC_transporter_L 99.7 6.9E-15 1.5E-19 154.9 20.7 208 4-234 64-287 (298)
98 TIGR03870 ABC_MoxJ methanol ox 99.6 5E-15 1.1E-19 150.8 15.6 197 348-667 1-241 (246)
99 COG0834 HisJ ABC-type amino ac 99.6 2.5E-14 5.4E-19 149.0 17.0 213 346-671 33-266 (275)
100 TIGR02285 conserved hypothetic 99.6 1E-14 2.2E-19 150.9 13.4 221 346-671 17-263 (268)
101 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 6.1E-14 1.3E-18 142.0 16.5 198 349-669 2-229 (232)
102 smart00062 PBPb Bacterial peri 99.5 2.5E-13 5.4E-18 135.3 16.9 204 348-668 1-219 (219)
103 cd00134 PBPb Bacterial peripla 99.5 3.8E-13 8.1E-18 134.1 17.0 202 349-668 1-218 (218)
104 PRK09959 hybrid sensory histid 99.5 1.3E-13 2.9E-18 173.0 16.2 209 345-671 54-279 (1197)
105 smart00079 PBPe Eukaryotic hom 99.4 1.6E-12 3.4E-17 119.1 11.7 124 545-670 1-134 (134)
106 COG4623 Predicted soluble lyti 99.1 5.3E-10 1.1E-14 111.8 11.1 208 345-671 21-249 (473)
107 cd01391 Periplasmic_Binding_Pr 99.0 1.1E-08 2.5E-13 105.2 17.1 162 4-179 56-219 (269)
108 PF04348 LppC: LppC putative l 98.6 4.6E-07 9.9E-12 101.5 13.4 232 4-273 276-523 (536)
109 TIGR01098 3A0109s03R phosphate 98.5 6.2E-07 1.4E-11 92.0 11.8 186 347-654 32-254 (254)
110 PRK00489 hisG ATP phosphoribos 98.4 1.2E-06 2.7E-11 90.7 9.7 152 401-670 64-220 (287)
111 cd01537 PBP1_Repressors_Sugar_ 98.0 9.2E-05 2E-09 76.0 13.7 154 5-175 54-212 (264)
112 PF10613 Lig_chan-Glu_bd: Liga 97.8 1.2E-05 2.5E-10 61.2 2.1 38 361-400 1-40 (65)
113 cd06267 PBP1_LacI_sugar_bindin 97.6 0.00098 2.1E-08 68.4 14.7 155 4-175 53-211 (264)
114 cd01536 PBP1_ABC_sugar_binding 97.6 0.0017 3.6E-08 66.8 14.9 145 5-166 54-206 (267)
115 cd06282 PBP1_GntR_like_2 Ligan 97.4 0.0023 5E-08 65.8 13.8 152 5-175 54-210 (266)
116 TIGR03431 PhnD phosphonate ABC 97.4 0.0014 3E-08 68.6 12.0 118 545-664 126-259 (288)
117 cd06300 PBP1_ABC_sugar_binding 97.2 0.0064 1.4E-07 62.9 14.0 145 5-168 59-211 (272)
118 cd06320 PBP1_allose_binding Pe 97.1 0.014 2.9E-07 60.5 16.0 146 5-166 56-207 (275)
119 cd06323 PBP1_ribose_binding Pe 97.0 0.017 3.7E-07 59.4 15.1 144 5-165 54-205 (268)
120 cd06325 PBP1_ABC_uncharacteriz 96.8 0.012 2.5E-07 61.2 11.8 144 4-165 58-208 (281)
121 cd01545 PBP1_SalR Ligand-bindi 96.7 0.016 3.5E-07 59.7 12.2 152 4-169 54-207 (270)
122 cd06319 PBP1_ABC_sugar_binding 96.7 0.048 1E-06 56.4 15.3 146 5-166 54-210 (277)
123 cd06271 PBP1_AglR_RafR_like Li 96.6 0.035 7.6E-07 57.0 13.5 158 3-175 56-215 (268)
124 COG3107 LppC Putative lipoprot 96.6 0.024 5.3E-07 60.7 11.8 98 3-108 316-413 (604)
125 cd06273 PBP1_GntR_like_1 This 96.5 0.034 7.3E-07 57.2 13.2 152 5-175 54-212 (268)
126 cd06317 PBP1_ABC_sugar_binding 96.3 0.083 1.8E-06 54.5 14.7 151 5-166 55-212 (275)
127 cd06301 PBP1_rhizopine_binding 96.3 0.1 2.2E-06 53.8 15.0 151 5-169 55-211 (272)
128 cd06309 PBP1_YtfQ_like Peripla 96.3 0.15 3.2E-06 52.6 16.0 159 5-175 54-219 (273)
129 PRK10653 D-ribose transporter 96.1 0.12 2.6E-06 54.1 14.4 146 5-165 81-231 (295)
130 cd06298 PBP1_CcpA_like Ligand- 96.0 0.091 2E-06 53.9 13.1 153 4-175 53-211 (268)
131 cd06289 PBP1_MalI_like Ligand- 95.9 0.1 2.2E-06 53.6 12.9 158 4-175 53-212 (268)
132 cd06312 PBP1_ABC_sugar_binding 95.9 0.19 4.1E-06 51.7 15.0 149 5-166 56-208 (271)
133 cd06310 PBP1_ABC_sugar_binding 95.8 0.39 8.4E-06 49.4 16.7 147 5-166 56-208 (273)
134 TIGR01481 ccpA catabolite cont 95.8 0.15 3.2E-06 54.3 13.8 151 5-174 114-269 (329)
135 PF13407 Peripla_BP_4: Peripla 95.7 0.18 4E-06 51.4 13.8 151 5-168 54-209 (257)
136 cd06305 PBP1_methylthioribose_ 95.6 0.26 5.6E-06 50.7 14.5 147 5-167 54-209 (273)
137 cd01574 PBP1_LacI Ligand-bindi 95.5 0.29 6.3E-06 50.1 14.4 153 4-175 54-208 (264)
138 PF00532 Peripla_BP_1: Peripla 95.5 0.16 3.4E-06 52.7 12.1 154 4-171 54-211 (279)
139 PF12974 Phosphonate-bd: ABC t 95.5 0.056 1.2E-06 54.8 8.6 121 545-667 96-230 (243)
140 cd06308 PBP1_sensor_kinase_lik 95.4 0.5 1.1E-05 48.5 15.8 146 6-166 56-207 (270)
141 cd06278 PBP1_LacI_like_2 Ligan 95.4 0.24 5.1E-06 50.7 13.2 154 5-175 53-209 (266)
142 cd06284 PBP1_LacI_like_6 Ligan 95.4 0.19 4.1E-06 51.5 12.4 154 4-175 53-210 (267)
143 cd06322 PBP1_ABC_sugar_binding 95.3 0.54 1.2E-05 48.1 15.7 151 4-175 53-210 (267)
144 PRK11553 alkanesulfonate trans 95.3 0.093 2E-06 55.5 10.1 111 545-657 120-236 (314)
145 cd06295 PBP1_CelR Ligand bindi 95.3 0.2 4.4E-06 51.6 12.4 155 4-175 62-220 (275)
146 cd01542 PBP1_TreR_like Ligand- 95.3 0.27 5.9E-06 50.1 13.1 153 4-175 53-207 (259)
147 COG1609 PurR Transcriptional r 95.3 0.46 9.9E-06 50.6 15.0 148 4-169 112-265 (333)
148 cd06311 PBP1_ABC_sugar_binding 95.1 0.64 1.4E-05 47.9 15.5 148 5-167 59-211 (274)
149 cd06294 PBP1_ycjW_transcriptio 95.1 0.28 6E-06 50.4 12.6 157 5-175 59-217 (270)
150 cd06288 PBP1_sucrose_transcrip 95.1 0.21 4.5E-06 51.3 11.6 155 5-175 55-211 (269)
151 cd06313 PBP1_ABC_sugar_binding 95.0 1 2.2E-05 46.3 16.6 148 5-165 54-207 (272)
152 cd01575 PBP1_GntR Ligand-bindi 95.0 0.37 8.1E-06 49.3 13.3 154 5-175 54-211 (268)
153 cd06277 PBP1_LacI_like_1 Ligan 94.9 0.35 7.6E-06 49.6 12.8 156 4-175 56-211 (268)
154 PRK10014 DNA-binding transcrip 94.8 0.51 1.1E-05 50.5 14.2 149 5-168 119-270 (342)
155 PRK11303 DNA-binding transcrip 94.8 0.71 1.5E-05 49.1 15.2 155 4-175 115-272 (328)
156 PF07885 Ion_trans_2: Ion chan 94.8 0.15 3.2E-06 41.2 7.6 55 484-538 22-78 (79)
157 cd06293 PBP1_LacI_like_11 Liga 94.8 0.65 1.4E-05 47.6 14.4 157 4-175 53-211 (269)
158 cd06283 PBP1_RegR_EndR_KdgR_li 94.7 0.68 1.5E-05 47.3 14.3 138 24-175 72-212 (267)
159 cd06274 PBP1_FruR Ligand bindi 94.7 0.88 1.9E-05 46.5 15.0 155 5-175 54-212 (264)
160 cd06270 PBP1_GalS_like Ligand 94.7 0.79 1.7E-05 47.0 14.7 156 5-175 54-211 (268)
161 cd06275 PBP1_PurR Ligand-bindi 94.6 0.52 1.1E-05 48.3 13.2 138 24-175 73-212 (269)
162 cd06299 PBP1_LacI_like_13 Liga 94.4 0.92 2E-05 46.3 14.3 157 4-175 53-209 (265)
163 cd06324 PBP1_ABC_sugar_binding 94.3 1.3 2.8E-05 46.5 15.5 159 6-175 58-236 (305)
164 cd06272 PBP1_hexuronate_repres 94.2 0.71 1.5E-05 47.1 12.9 137 24-175 68-206 (261)
165 TIGR02417 fruct_sucro_rep D-fr 94.1 0.89 1.9E-05 48.3 13.9 153 5-175 115-271 (327)
166 cd06281 PBP1_LacI_like_5 Ligan 94.0 0.56 1.2E-05 48.1 11.9 156 4-175 53-210 (269)
167 cd06303 PBP1_LuxPQ_Quorum_Sens 94.0 2.1 4.5E-05 44.3 16.1 151 5-166 59-215 (280)
168 PRK10703 DNA-binding transcrip 93.9 0.81 1.7E-05 48.9 13.2 137 24-175 132-273 (341)
169 cd01539 PBP1_GGBP Periplasmic 93.8 2.9 6.3E-05 43.8 17.0 156 5-168 56-228 (303)
170 cd06296 PBP1_CatR_like Ligand- 93.7 0.8 1.7E-05 46.9 12.3 156 5-175 54-212 (270)
171 cd06287 PBP1_LacI_like_8 Ligan 93.7 2.1 4.6E-05 43.9 15.4 154 3-174 53-211 (269)
172 cd06321 PBP1_ABC_sugar_binding 93.7 2.1 4.5E-05 43.9 15.3 143 5-165 56-205 (271)
173 PRK09526 lacI lac repressor; R 93.6 1.7 3.6E-05 46.5 15.0 151 5-175 119-274 (342)
174 PRK10727 DNA-binding transcrip 93.6 1.4 3.1E-05 47.0 14.4 132 30-175 137-271 (343)
175 cd01544 PBP1_GalR Ligand-bindi 93.5 2.1 4.5E-05 43.9 15.1 136 23-175 67-213 (270)
176 cd06285 PBP1_LacI_like_7 Ligan 93.5 1.1 2.4E-05 45.7 13.0 147 5-169 54-203 (265)
177 cd06316 PBP1_ABC_sugar_binding 93.4 3.3 7.2E-05 43.1 16.5 151 5-165 55-210 (294)
178 PRK10423 transcriptional repre 93.2 2 4.3E-05 45.5 14.8 131 29-175 135-269 (327)
179 cd06297 PBP1_LacI_like_12 Liga 93.2 1.3 2.9E-05 45.4 12.9 136 21-175 69-214 (269)
180 cd06306 PBP1_TorT-like TorT-li 93.1 2.8 6.1E-05 42.9 15.3 144 5-165 56-207 (268)
181 cd01540 PBP1_arabinose_binding 93.1 4.1 8.8E-05 42.2 16.7 158 5-169 53-222 (289)
182 cd06292 PBP1_LacI_like_10 Liga 93.1 1.9 4.1E-05 44.2 14.0 139 24-175 77-215 (273)
183 cd06279 PBP1_LacI_like_3 Ligan 93.0 1.5 3.2E-05 45.4 13.1 157 4-175 54-229 (283)
184 cd06290 PBP1_LacI_like_9 Ligan 92.9 1.8 3.9E-05 44.2 13.4 133 29-175 76-210 (265)
185 cd06307 PBP1_uncharacterized_s 92.8 4.6 0.0001 41.4 16.4 147 6-166 58-210 (275)
186 cd01538 PBP1_ABC_xylose_bindin 92.8 2.7 5.9E-05 43.6 14.7 149 5-167 54-216 (288)
187 PRK09701 D-allose transporter 92.8 5.6 0.00012 41.8 17.2 152 5-166 81-241 (311)
188 cd01541 PBP1_AraR Ligand-bindi 92.5 1.4 3E-05 45.3 11.9 155 5-175 54-217 (273)
189 cd01543 PBP1_XylR Ligand-bindi 92.3 3.5 7.6E-05 42.1 14.5 156 4-175 48-205 (265)
190 PRK10936 TMAO reductase system 92.2 4.8 0.0001 43.0 16.0 152 5-175 103-262 (343)
191 COG1879 RbsB ABC-type sugar tr 92.2 5.7 0.00012 42.0 16.4 159 5-175 90-251 (322)
192 cd06286 PBP1_CcpB_like Ligand- 92.0 3.7 8.1E-05 41.6 14.3 151 5-175 54-209 (260)
193 cd06314 PBP1_tmGBP Periplasmic 91.9 8.2 0.00018 39.5 16.8 145 5-166 54-204 (271)
194 PRK10401 DNA-binding transcrip 91.8 3.6 7.7E-05 44.1 14.5 114 56-175 156-271 (346)
195 cd06291 PBP1_Qymf_like Ligand 91.8 2.7 5.8E-05 42.9 13.1 135 25-175 70-207 (265)
196 PRK14987 gluconate operon tran 91.7 4.8 0.0001 42.7 15.2 154 4-175 117-273 (331)
197 cd06354 PBP1_BmpA_PnrA_like Pe 91.5 2.9 6.4E-05 42.8 12.9 147 4-164 55-206 (265)
198 COG2984 ABC-type uncharacteriz 91.4 6.5 0.00014 40.4 14.5 143 6-165 88-240 (322)
199 cd06302 PBP1_LsrB_Quorum_Sensi 91.3 7.4 0.00016 40.6 16.0 150 5-166 55-210 (298)
200 cd06280 PBP1_LacI_like_4 Ligan 91.0 3.4 7.3E-05 42.1 12.9 130 27-175 74-206 (263)
201 TIGR01729 taurine_ABC_bnd taur 90.7 0.78 1.7E-05 48.1 7.8 69 545-616 91-164 (300)
202 PRK09492 treR trehalose repres 90.5 2.8 6.1E-05 44.1 12.0 138 4-165 116-256 (315)
203 cd06318 PBP1_ABC_sugar_binding 90.0 10 0.00022 38.9 15.5 149 5-166 54-215 (282)
204 PRK10339 DNA-binding transcrip 89.4 8.1 0.00018 40.9 14.5 137 24-175 130-268 (327)
205 TIGR02955 TMAO_TorT TMAO reduc 89.2 12 0.00026 38.9 15.3 150 5-175 56-215 (295)
206 PF13379 NMT1_2: NMT1-like fam 89.0 0.65 1.4E-05 47.2 5.5 73 545-618 105-189 (252)
207 TIGR02990 ectoine_eutA ectoine 88.9 3.2 7E-05 41.5 10.0 139 19-165 60-207 (239)
208 PF13377 Peripla_BP_3: Peripla 88.2 2.7 5.8E-05 39.0 8.7 101 68-175 1-102 (160)
209 PRK15395 methyl-galactoside AB 88.1 18 0.0004 38.3 16.1 153 5-165 80-249 (330)
210 cd06304 PBP1_BmpA_like Peripla 87.0 8.7 0.00019 39.1 12.4 145 5-164 55-202 (260)
211 TIGR02405 trehalos_R_Ecol treh 86.5 7.8 0.00017 40.7 12.0 118 27-165 133-253 (311)
212 COG1454 EutG Alcohol dehydroge 85.9 54 0.0012 35.2 17.6 93 64-162 17-110 (377)
213 TIGR02634 xylF D-xylose ABC tr 85.8 19 0.0004 37.7 14.4 148 5-166 53-209 (302)
214 KOG1419 Voltage-gated K+ chann 85.6 1.5 3.2E-05 47.7 5.6 88 452-539 235-324 (654)
215 PRK15408 autoinducer 2-binding 85.4 22 0.00048 37.9 14.7 149 5-166 79-234 (336)
216 PRK11041 DNA-binding transcrip 84.5 8.7 0.00019 40.1 11.3 114 56-175 132-247 (309)
217 PRK10355 xylF D-xylose transpo 84.4 26 0.00056 37.2 14.8 146 5-166 80-236 (330)
218 PRK09860 putative alcohol dehy 83.9 9.3 0.0002 41.5 11.2 89 64-158 19-108 (383)
219 TIGR02637 RhaS rhamnose ABC tr 83.4 46 0.00099 34.6 16.1 154 5-175 55-217 (302)
220 PF04392 ABC_sub_bind: ABC tra 81.8 16 0.00034 38.1 11.6 124 5-145 58-190 (294)
221 TIGR02122 TRAP_TAXI TRAP trans 81.3 3.4 7.4E-05 43.6 6.6 59 545-606 132-197 (320)
222 PF13531 SBP_bac_11: Bacterial 80.6 5.1 0.00011 39.9 7.2 111 545-657 92-218 (230)
223 cd08192 Fe-ADH7 Iron-containin 80.3 15 0.00034 39.6 11.3 89 65-159 13-102 (370)
224 cd08189 Fe-ADH5 Iron-containin 78.8 18 0.0004 39.1 11.3 90 64-159 14-104 (374)
225 PRK15454 ethanol dehydrogenase 78.3 14 0.0003 40.4 10.1 79 64-148 37-115 (395)
226 PRK10624 L-1,2-propanediol oxi 78.2 19 0.0004 39.2 11.1 88 64-157 18-106 (382)
227 cd06276 PBP1_FucR_like Ligand- 77.5 51 0.0011 33.1 13.5 126 22-175 68-196 (247)
228 cd08190 HOT Hydroxyacid-oxoaci 77.5 11 0.00024 41.4 9.1 79 64-148 11-89 (414)
229 cd08551 Fe-ADH iron-containing 77.2 20 0.00043 38.8 11.0 90 64-159 11-101 (370)
230 cd06315 PBP1_ABC_sugar_binding 76.3 65 0.0014 33.0 14.3 135 24-168 75-216 (280)
231 PF13685 Fe-ADH_2: Iron-contai 74.8 12 0.00027 37.6 7.9 91 66-165 9-100 (250)
232 TIGR02638 lactal_redase lactal 74.8 25 0.00053 38.2 10.9 79 64-148 17-95 (379)
233 cd08193 HVD 5-hydroxyvalerate 74.5 21 0.00045 38.8 10.2 77 65-147 15-91 (376)
234 COG3221 PhnD ABC-type phosphat 74.4 18 0.00039 37.5 9.2 115 540-656 130-260 (299)
235 COG3473 Maleate cis-trans isom 73.4 90 0.002 30.1 12.7 132 18-161 55-200 (238)
236 PF13407 Peripla_BP_4: Peripla 73.0 10 0.00023 38.3 7.2 79 79-165 1-81 (257)
237 TIGR01256 modA molybdenum ABC 72.7 21 0.00045 35.1 9.0 70 585-656 135-205 (216)
238 PLN03192 Voltage-dependent pot 72.1 8.8 0.00019 46.5 7.3 53 487-539 251-305 (823)
239 cd08194 Fe-ADH6 Iron-containin 71.9 26 0.00056 38.0 10.2 79 64-148 11-89 (375)
240 PF03401 TctC: Tripartite tric 71.8 53 0.0011 33.8 12.0 121 545-666 89-241 (274)
241 cd08185 Fe-ADH1 Iron-containin 70.3 39 0.00084 36.7 11.1 87 65-158 15-103 (380)
242 COG0725 ModA ABC-type molybdat 69.5 66 0.0014 32.7 11.7 105 546-652 124-241 (258)
243 PF00465 Fe-ADH: Iron-containi 68.9 17 0.00038 39.2 8.1 89 65-162 12-102 (366)
244 KOG3857 Alcohol dehydrogenase, 68.6 38 0.00082 35.1 9.5 92 49-146 39-134 (465)
245 PF00625 Guanylate_kin: Guanyl 67.4 38 0.00082 32.3 9.3 94 5-111 2-99 (183)
246 TIGR00035 asp_race aspartate r 66.9 25 0.00054 35.0 8.2 42 64-110 105-146 (229)
247 PRK15408 autoinducer 2-binding 66.5 23 0.00051 37.6 8.3 83 75-165 22-106 (336)
248 cd08191 HHD 6-hydroxyhexanoate 66.5 42 0.00091 36.5 10.5 87 65-158 12-99 (386)
249 cd06305 PBP1_methylthioribose_ 66.4 23 0.00049 36.1 8.1 79 78-165 1-81 (273)
250 cd08188 Fe-ADH4 Iron-containin 66.0 42 0.00091 36.4 10.3 79 64-148 16-94 (377)
251 cd08181 PPD-like 1,3-propanedi 64.8 35 0.00075 36.7 9.3 78 65-148 15-92 (357)
252 PRK14737 gmk guanylate kinase; 63.6 73 0.0016 30.5 10.3 95 4-110 3-99 (186)
253 cd08170 GlyDH Glycerol dehydro 62.2 26 0.00056 37.6 7.8 73 65-146 12-84 (351)
254 cd06353 PBP1_BmpA_Med_like Per 61.9 58 0.0013 33.1 9.9 83 78-175 1-87 (258)
255 cd08176 LPO Lactadehyde:propan 61.7 47 0.001 36.0 9.7 79 64-148 16-94 (377)
256 TIGR03427 ABC_peri_uca ABC tra 61.5 19 0.0004 38.2 6.3 69 546-616 98-170 (328)
257 PF12727 PBP_like: PBP superfa 61.1 52 0.0011 31.8 8.8 111 537-654 74-192 (193)
258 PF14503 YhfZ_C: YhfZ C-termin 60.9 8.8 0.00019 37.8 3.4 88 556-648 114-208 (232)
259 cd06301 PBP1_rhizopine_binding 60.7 27 0.00059 35.5 7.4 79 78-165 1-82 (272)
260 PF03466 LysR_substrate: LysR 60.6 98 0.0021 29.3 11.1 105 547-656 96-206 (209)
261 PRK10537 voltage-gated potassi 60.5 18 0.0004 39.2 6.2 55 482-536 164-220 (393)
262 PF12273 RCR: Chitin synthesis 60.4 7.6 0.00017 34.7 2.7 25 696-720 4-28 (130)
263 cd06312 PBP1_ABC_sugar_binding 60.3 31 0.00067 35.1 7.8 80 78-165 1-83 (271)
264 cd08187 BDH Butanol dehydrogen 59.6 58 0.0013 35.4 10.0 77 65-148 18-95 (382)
265 PF03808 Glyco_tran_WecB: Glyc 59.0 1.1E+02 0.0024 28.9 10.5 97 62-175 35-133 (172)
266 TIGR01728 SsuA_fam ABC transpo 58.4 36 0.00079 34.9 8.0 71 543-616 90-165 (288)
267 COG0563 Adk Adenylate kinase a 58.4 18 0.00039 34.4 5.1 29 8-36 3-31 (178)
268 cd08171 GlyDH-like2 Glycerol d 57.9 37 0.00079 36.3 7.9 86 65-158 12-98 (345)
269 COG1794 RacX Aspartate racemas 57.1 37 0.0008 33.1 6.8 85 64-166 105-190 (230)
270 TIGR00363 lipoprotein, YaeC fa 56.6 75 0.0016 32.3 9.5 124 542-667 104-250 (258)
271 PF09084 NMT1: NMT1/THI5 like; 56.6 15 0.00032 36.1 4.4 60 543-604 82-145 (216)
272 cd08186 Fe-ADH8 Iron-containin 56.4 92 0.002 33.8 10.8 89 65-158 12-104 (383)
273 PRK10200 putative racemase; Pr 55.3 45 0.00097 33.3 7.5 39 66-109 107-146 (230)
274 cd06302 PBP1_LsrB_Quorum_Sensi 55.0 44 0.00096 34.7 7.9 79 79-165 2-82 (298)
275 cd07766 DHQ_Fe-ADH Dehydroquin 54.8 1.2E+02 0.0027 32.1 11.4 88 65-160 12-100 (332)
276 cd01536 PBP1_ABC_sugar_binding 54.8 46 0.001 33.4 7.9 79 78-165 1-81 (267)
277 cd01538 PBP1_ABC_xylose_bindin 54.3 55 0.0012 33.7 8.5 78 79-165 2-81 (288)
278 cd06533 Glyco_transf_WecG_TagA 54.0 1.2E+02 0.0025 28.6 9.8 89 62-164 33-123 (171)
279 PRK09423 gldA glycerol dehydro 53.5 52 0.0011 35.5 8.3 74 65-147 19-92 (366)
280 cd08182 HEPD Hydroxyethylphosp 53.3 1.1E+02 0.0023 33.1 10.6 86 65-159 12-98 (367)
281 PF02602 HEM4: Uroporphyrinoge 52.8 46 0.00099 33.0 7.3 93 57-163 97-190 (231)
282 cd06316 PBP1_ABC_sugar_binding 52.4 44 0.00095 34.5 7.4 80 78-165 1-82 (294)
283 cd06310 PBP1_ABC_sugar_binding 52.3 52 0.0011 33.4 7.8 81 78-165 1-83 (273)
284 cd01540 PBP1_arabinose_binding 52.3 39 0.00085 34.7 7.0 78 78-165 1-80 (289)
285 cd06267 PBP1_LacI_sugar_bindin 51.0 42 0.0009 33.6 6.9 76 79-165 2-79 (264)
286 cd06300 PBP1_ABC_sugar_binding 50.5 73 0.0016 32.3 8.6 81 78-165 1-86 (272)
287 cd06322 PBP1_ABC_sugar_binding 50.0 58 0.0013 32.9 7.8 78 79-165 2-81 (267)
288 PF07287 DUF1446: Protein of u 50.0 1.1E+02 0.0023 32.8 9.6 85 2-87 19-111 (362)
289 cd01537 PBP1_Repressors_Sugar_ 49.9 48 0.001 33.1 7.1 78 78-165 1-80 (264)
290 PRK10936 TMAO reductase system 49.6 73 0.0016 33.9 8.7 82 76-165 46-129 (343)
291 cd06318 PBP1_ABC_sugar_binding 49.2 54 0.0012 33.4 7.5 78 79-165 2-81 (282)
292 cd06277 PBP1_LacI_like_1 Ligan 48.6 75 0.0016 32.1 8.4 75 79-165 2-81 (268)
293 cd06306 PBP1_TorT-like TorT-li 48.1 60 0.0013 33.0 7.5 80 78-165 1-82 (268)
294 TIGR00787 dctP tripartite ATP- 47.6 68 0.0015 32.5 7.7 103 544-655 126-231 (257)
295 cd08550 GlyDH-like Glycerol_de 46.8 97 0.0021 33.1 9.0 74 65-147 12-85 (349)
296 TIGR02637 RhaS rhamnose ABC tr 46.5 64 0.0014 33.4 7.6 68 92-165 14-82 (302)
297 cd06314 PBP1_tmGBP Periplasmic 45.7 65 0.0014 32.7 7.4 78 79-165 2-80 (271)
298 COG1126 GlnQ ABC-type polar am 44.8 3.2E+02 0.0069 26.9 10.9 145 3-166 26-188 (240)
299 PRK05452 anaerobic nitric oxid 44.4 3.1E+02 0.0068 30.8 12.8 133 10-169 198-339 (479)
300 COG1910 Periplasmic molybdate- 44.1 1.4E+02 0.003 29.1 8.3 108 544-659 87-202 (223)
301 cd06303 PBP1_LuxPQ_Quorum_Sens 44.1 74 0.0016 32.5 7.5 82 78-165 1-85 (280)
302 cd08178 AAD_C C-terminal alcoh 43.9 1.3E+02 0.0028 32.9 9.5 79 74-158 19-98 (398)
303 PF02608 Bmp: Basic membrane p 43.9 83 0.0018 32.9 7.8 85 77-175 2-91 (306)
304 cd06289 PBP1_MalI_like Ligand- 43.8 76 0.0016 31.9 7.5 77 79-165 2-80 (268)
305 PF01745 IPT: Isopentenyl tran 43.2 15 0.00033 35.6 1.8 33 6-38 2-34 (233)
306 cd06320 PBP1_allose_binding Pe 43.1 1E+02 0.0022 31.2 8.4 80 78-165 1-83 (275)
307 PRK11480 tauA taurine transpor 42.9 34 0.00075 36.1 4.8 64 545-611 113-181 (320)
308 cd01545 PBP1_SalR Ligand-bindi 42.4 82 0.0018 31.8 7.5 78 79-165 2-81 (270)
309 cd01539 PBP1_GGBP Periplasmic 42.1 1E+02 0.0022 32.1 8.2 79 78-165 1-83 (303)
310 PRK09701 D-allose transporter 42.0 1.1E+02 0.0025 31.9 8.6 85 74-165 22-108 (311)
311 PF00072 Response_reg: Respons 41.6 2E+02 0.0044 23.9 8.9 59 92-164 8-69 (112)
312 PF13207 AAA_17: AAA domain; P 41.5 17 0.00037 31.7 1.9 32 7-38 1-32 (121)
313 TIGR02667 moaB_proteo molybden 41.0 1.7E+02 0.0037 27.3 8.6 67 76-149 4-72 (163)
314 cd08183 Fe-ADH2 Iron-containin 41.0 1.2E+02 0.0027 32.7 8.8 73 65-148 12-84 (374)
315 cd06315 PBP1_ABC_sugar_binding 40.8 1.3E+02 0.0028 30.7 8.7 80 77-165 1-82 (280)
316 cd08177 MAR Maleylacetate redu 40.7 74 0.0016 33.8 6.9 86 64-158 11-97 (337)
317 PRK10653 D-ribose transporter 40.6 1.6E+02 0.0034 30.4 9.4 80 76-165 26-108 (295)
318 cd01569 PBEF_like pre-B-cell c 40.4 1.4E+02 0.003 32.4 8.7 133 26-175 212-362 (407)
319 COG1587 HemD Uroporphyrinogen- 40.4 1.6E+02 0.0034 29.7 9.0 92 61-165 106-199 (248)
320 cd06282 PBP1_GntR_like_2 Ligan 40.1 90 0.0019 31.3 7.3 77 79-165 2-80 (266)
321 cd05466 PBP2_LTTR_substrate Th 40.0 2.9E+02 0.0063 25.1 13.5 66 582-651 127-194 (197)
322 cd06307 PBP1_uncharacterized_s 39.8 1.1E+02 0.0024 31.0 8.0 82 78-165 1-84 (275)
323 PRK07239 bifunctional uroporph 39.8 2E+02 0.0044 31.1 10.3 98 62-165 126-225 (381)
324 cd06353 PBP1_BmpA_Med_like Per 39.6 3.4E+02 0.0073 27.5 11.3 146 4-165 55-201 (258)
325 PF06506 PrpR_N: Propionate ca 39.5 1.5E+02 0.0032 28.0 8.1 108 33-166 38-145 (176)
326 PRK09189 uroporphyrinogen-III 39.5 1.3E+02 0.0028 30.1 8.2 88 62-162 102-191 (240)
327 smart00072 GuKc Guanylate kina 39.4 3.4E+02 0.0073 25.7 12.4 24 6-29 3-26 (184)
328 cd08197 DOIS 2-deoxy-scyllo-in 39.0 2.6E+02 0.0056 30.0 10.7 103 65-175 12-118 (355)
329 cd01391 Periplasmic_Binding_Pr 38.8 1E+02 0.0022 30.5 7.5 78 78-165 1-83 (269)
330 TIGR00644 recJ single-stranded 38.6 2E+02 0.0043 33.0 10.3 111 43-165 26-136 (539)
331 cd06317 PBP1_ABC_sugar_binding 38.5 1.1E+02 0.0024 30.9 7.7 78 79-165 2-82 (275)
332 cd08175 G1PDH Glycerol-1-phosp 38.4 1.2E+02 0.0026 32.5 8.1 88 65-158 12-100 (348)
333 TIGR00696 wecB_tagA_cpsF bacte 38.3 3.2E+02 0.007 25.9 10.0 86 61-161 34-121 (177)
334 PF15179 Myc_target_1: Myc tar 37.9 54 0.0012 30.5 4.4 30 685-714 13-43 (197)
335 KOG0025 Zn2+-binding dehydroge 37.7 1.7E+02 0.0037 29.9 8.2 95 51-165 162-258 (354)
336 PRK11233 nitrogen assimilation 37.3 4.6E+02 0.01 27.1 12.3 72 583-655 217-288 (305)
337 PF12273 RCR: Chitin synthesis 37.1 22 0.00048 31.8 1.9 24 701-724 5-29 (130)
338 cd03364 TOPRIM_DnaG_primases T 37.0 50 0.0011 26.3 3.8 40 68-110 36-75 (79)
339 cd00886 MogA_MoaB MogA_MoaB fa 36.6 2.1E+02 0.0045 26.3 8.4 65 78-149 2-70 (152)
340 PRK00002 aroB 3-dehydroquinate 36.6 3.1E+02 0.0067 29.4 11.0 106 51-164 9-118 (358)
341 PRK03692 putative UDP-N-acetyl 36.4 2.9E+02 0.0064 27.7 9.9 88 61-162 91-179 (243)
342 cd06323 PBP1_ribose_binding Pe 36.1 1.1E+02 0.0024 30.6 7.3 77 79-165 2-81 (268)
343 PRK00843 egsA NAD(P)-dependent 36.0 2.6E+02 0.0057 29.9 10.2 84 65-158 22-107 (350)
344 PRK10355 xylF D-xylose transpo 36.0 1.8E+02 0.0039 30.7 9.0 80 76-165 25-107 (330)
345 PRK11063 metQ DL-methionine tr 35.8 2.8E+02 0.0062 28.3 10.0 122 542-666 117-262 (271)
346 cd08173 Gro1PDH Sn-glycerol-1- 35.8 2.8E+02 0.006 29.5 10.3 83 66-158 14-98 (339)
347 TIGR02634 xylF D-xylose ABC tr 35.8 1.4E+02 0.003 31.0 8.1 71 86-165 10-80 (302)
348 cd00758 MoCF_BD MoCF_BD: molyb 35.3 1.3E+02 0.0029 26.8 6.7 46 93-145 19-64 (133)
349 cd06299 PBP1_LacI_like_13 Liga 34.9 1.3E+02 0.0029 30.1 7.6 76 79-165 2-79 (265)
350 cd01324 cbb3_Oxidase_CcoQ Cyto 34.7 51 0.0011 23.5 3.0 26 452-477 12-37 (48)
351 cd06319 PBP1_ABC_sugar_binding 34.3 1.4E+02 0.0029 30.3 7.6 79 78-165 1-81 (277)
352 TIGR01359 UMP_CMP_kin_fam UMP- 33.8 32 0.0007 32.6 2.6 31 7-37 1-31 (183)
353 cd06321 PBP1_ABC_sugar_binding 33.7 1.8E+02 0.0039 29.3 8.4 77 79-165 2-83 (271)
354 COG3181 Uncharacterized protei 33.6 2.7E+02 0.0059 29.1 9.3 126 540-666 128-284 (319)
355 PF15050 SCIMP: SCIMP protein 32.6 3.3E+02 0.0072 23.6 8.0 16 699-714 16-31 (133)
356 PF12683 DUF3798: Protein of u 32.6 3.2E+02 0.007 27.7 9.2 160 2-165 58-224 (275)
357 PRK10014 DNA-binding transcrip 32.2 1.9E+02 0.0042 30.4 8.6 79 77-165 65-145 (342)
358 cd06324 PBP1_ABC_sugar_binding 32.2 1.4E+02 0.003 31.0 7.3 77 79-165 2-83 (305)
359 COG1102 Cmk Cytidylate kinase 32.0 36 0.00079 31.5 2.4 31 7-37 2-32 (179)
360 PF06716 DUF1201: Protein of u 31.8 82 0.0018 21.9 3.4 20 694-713 5-24 (54)
361 cd06296 PBP1_CatR_like Ligand- 31.7 1.3E+02 0.0029 30.2 7.0 76 79-165 2-79 (270)
362 PRK11303 DNA-binding transcrip 31.7 2.1E+02 0.0046 29.9 8.7 80 76-165 61-142 (328)
363 cd06295 PBP1_CelR Ligand bindi 31.6 1.5E+02 0.0033 30.0 7.4 78 75-165 2-88 (275)
364 PRK15395 methyl-galactoside AB 31.6 2.3E+02 0.0049 29.9 8.9 83 74-165 22-107 (330)
365 PF00731 AIRC: AIR carboxylase 31.2 2.3E+02 0.0049 26.1 7.3 64 78-149 2-65 (150)
366 KOG3684 Ca2+-activated K+ chan 31.2 1.1E+02 0.0023 33.3 5.9 51 483-537 284-336 (489)
367 cd01542 PBP1_TreR_like Ligand- 30.6 1.4E+02 0.003 29.8 6.9 76 79-165 2-79 (259)
368 PF06305 DUF1049: Protein of u 30.2 1.1E+02 0.0024 23.5 4.6 22 696-717 24-45 (68)
369 COG0299 PurN Folate-dependent 29.9 3.9E+02 0.0084 25.7 8.8 76 63-153 13-92 (200)
370 COG1879 RbsB ABC-type sugar tr 29.6 2.1E+02 0.0045 30.0 8.2 82 77-165 34-117 (322)
371 PTZ00088 adenylate kinase 1; P 29.6 42 0.0009 33.4 2.6 31 8-38 9-39 (229)
372 cd08549 G1PDH_related Glycerol 29.5 2.1E+02 0.0046 30.3 8.1 87 65-158 12-100 (332)
373 cd02071 MM_CoA_mut_B12_BD meth 29.5 3.8E+02 0.0083 23.4 9.5 64 92-166 13-80 (122)
374 TIGR00177 molyb_syn molybdenum 29.3 2.3E+02 0.0049 25.8 7.2 48 94-149 28-75 (144)
375 cd06308 PBP1_sensor_kinase_lik 29.1 2E+02 0.0043 29.0 7.8 78 79-165 2-82 (270)
376 COG2358 Imp TRAP-type uncharac 29.1 91 0.002 32.6 5.0 83 539-624 122-213 (321)
377 PF13380 CoA_binding_2: CoA bi 28.9 1E+02 0.0022 26.8 4.7 87 77-175 1-87 (116)
378 PRK00865 glutamate racemase; P 28.7 4.7E+02 0.01 26.6 10.2 32 4-35 65-96 (261)
379 PRK05928 hemD uroporphyrinogen 28.6 2.2E+02 0.0048 28.3 7.9 78 75-165 124-201 (249)
380 PF03480 SBP_bac_7: Bacterial 28.6 1.4E+02 0.003 30.8 6.5 89 543-640 125-214 (286)
381 cd06304 PBP1_BmpA_like Peripla 28.5 1.6E+02 0.0035 29.6 7.0 58 78-145 1-62 (260)
382 COG0194 Gmk Guanylate kinase [ 28.4 5.4E+02 0.012 24.7 12.7 132 5-164 4-136 (191)
383 cd06281 PBP1_LacI_like_5 Ligan 28.4 2.1E+02 0.0045 28.9 7.7 77 79-165 2-80 (269)
384 COG3439 Uncharacterized conser 28.2 1.4E+02 0.0031 26.9 5.4 70 92-175 22-93 (137)
385 KOG3713 Voltage-gated K+ chann 27.9 70 0.0015 35.0 4.1 61 463-527 358-420 (477)
386 KOG0498 K+-channel ERG and rel 27.5 77 0.0017 37.2 4.5 53 487-539 295-349 (727)
387 PRK01215 competence damage-ind 27.5 3.8E+02 0.0082 27.3 9.1 77 77-160 4-83 (264)
388 COG0715 TauA ABC-type nitrate/ 27.4 91 0.002 32.9 5.0 77 539-617 121-202 (335)
389 PF13671 AAA_33: AAA domain; P 27.4 34 0.00074 30.8 1.5 32 7-38 1-32 (143)
390 PRK06975 bifunctional uroporph 27.4 3.6E+02 0.0078 31.7 10.1 93 59-162 118-214 (656)
391 PRK09861 cytoplasmic membrane 27.3 4.5E+02 0.0097 27.0 9.7 123 542-667 118-264 (272)
392 PRK00945 acetyl-CoA decarbonyl 27.3 1.8E+02 0.0038 27.4 6.1 67 4-79 34-103 (171)
393 cd06309 PBP1_YtfQ_like Peripla 27.1 1.4E+02 0.003 30.2 6.2 71 86-165 11-81 (273)
394 cd06273 PBP1_GntR_like_1 This 27.1 1.8E+02 0.004 29.1 7.1 76 79-165 2-79 (268)
395 TIGR00315 cdhB CO dehydrogenas 27.0 1.8E+02 0.004 27.1 6.1 35 4-38 27-63 (162)
396 cd06354 PBP1_BmpA_PnrA_like Pe 27.0 2.1E+02 0.0045 29.0 7.4 58 78-145 1-63 (265)
397 PRK14527 adenylate kinase; Pro 26.5 49 0.0011 31.8 2.5 34 3-36 4-37 (191)
398 cd06578 HemD Uroporphyrinogen- 26.2 3.3E+02 0.0071 26.7 8.6 121 28-164 76-196 (239)
399 PRK13010 purU formyltetrahydro 26.2 7.5E+02 0.016 25.6 14.3 91 7-107 11-119 (289)
400 PRK12684 transcriptional regul 26.2 7.5E+02 0.016 25.6 15.3 115 547-669 184-305 (313)
401 cd06292 PBP1_LacI_like_10 Liga 26.1 2.5E+02 0.0054 28.3 7.9 78 79-165 2-84 (273)
402 PF04971 Lysis_S: Lysis protei 26.0 68 0.0015 24.7 2.5 31 695-725 33-63 (68)
403 TIGR01351 adk adenylate kinase 26.0 52 0.0011 32.2 2.6 30 8-37 2-31 (210)
404 PRK11921 metallo-beta-lactamas 25.9 8.4E+02 0.018 26.5 12.2 132 10-168 194-334 (394)
405 COG1880 CdhB CO dehydrogenase/ 25.7 5.1E+02 0.011 23.9 8.3 119 5-136 36-168 (170)
406 cd06274 PBP1_FruR Ligand bindi 25.7 2.6E+02 0.0056 28.0 7.9 76 79-165 2-79 (264)
407 PF10954 DUF2755: Protein of u 25.5 1.8E+02 0.0038 23.6 4.8 55 654-718 45-99 (100)
408 PRK11151 DNA-binding transcrip 25.5 7.5E+02 0.016 25.4 14.6 71 583-656 219-291 (305)
409 cd02020 CMPK Cytidine monophos 25.4 52 0.0011 29.6 2.4 31 7-37 1-31 (147)
410 PF00448 SRP54: SRP54-type pro 25.3 2.6E+02 0.0056 27.0 7.2 72 67-149 21-92 (196)
411 TIGR02417 fruct_sucro_rep D-fr 25.3 3.4E+02 0.0075 28.3 9.0 80 76-165 60-141 (327)
412 cd06285 PBP1_LacI_like_7 Ligan 25.2 2.4E+02 0.0051 28.3 7.5 76 79-165 2-79 (265)
413 PF13362 Toprim_3: Toprim doma 24.9 1.9E+02 0.0041 23.9 5.5 51 75-134 40-92 (96)
414 CHL00180 rbcR LysR transcripti 24.9 7.7E+02 0.017 25.3 15.8 70 583-655 229-300 (305)
415 cd06270 PBP1_GalS_like Ligand 24.9 2.8E+02 0.006 27.8 8.0 76 79-165 2-79 (268)
416 cd06313 PBP1_ABC_sugar_binding 24.8 2.3E+02 0.005 28.7 7.4 66 92-165 15-81 (272)
417 cd00885 cinA Competence-damage 24.8 2.5E+02 0.0055 26.4 6.8 45 94-145 20-64 (170)
418 PF14316 DUF4381: Domain of un 24.7 2E+02 0.0042 26.3 6.0 37 683-719 9-45 (146)
419 cd08180 PDD 1,3-propanediol de 24.6 1.6E+02 0.0036 31.1 6.3 79 72-157 18-97 (332)
420 cd08172 GlyDH-like1 Glycerol d 24.5 2.2E+02 0.0047 30.4 7.2 83 65-158 13-96 (347)
421 PRK09273 hypothetical protein; 24.4 4.5E+02 0.0097 25.6 8.3 76 78-155 2-78 (211)
422 PRK03537 molybdate ABC transpo 24.4 6.2E+02 0.013 24.0 11.0 54 589-642 102-158 (188)
423 PRK10677 modA molybdate transp 24.3 4.1E+02 0.0088 26.9 8.8 56 585-642 173-229 (257)
424 cd06298 PBP1_CcpA_like Ligand- 24.3 2.1E+02 0.0046 28.6 7.0 76 79-165 2-79 (268)
425 PHA02650 hypothetical protein; 24.3 1.3E+02 0.0028 23.8 3.8 24 446-469 44-67 (81)
426 TIGR02370 pyl_corrinoid methyl 24.0 6.5E+02 0.014 24.2 10.1 86 77-175 85-174 (197)
427 KOG4175 Tryptophan synthase al 23.8 2.8E+02 0.0061 26.5 6.6 37 129-165 113-149 (268)
428 PRK03427 cell division protein 23.8 76 0.0017 33.1 3.3 31 690-720 2-32 (333)
429 PF01007 IRK: Inward rectifier 23.7 2.9E+02 0.0062 29.4 7.6 59 485-543 83-145 (336)
430 PRK14987 gluconate operon tran 23.7 3.4E+02 0.0074 28.4 8.6 78 77-165 64-143 (331)
431 cd06278 PBP1_LacI_like_2 Ligan 23.6 2.3E+02 0.0051 28.2 7.1 75 79-165 2-78 (266)
432 PF13155 Toprim_2: Toprim-like 23.6 1.5E+02 0.0033 24.4 4.6 42 63-106 34-75 (96)
433 PRK11914 diacylglycerol kinase 23.5 3.4E+02 0.0073 28.3 8.3 81 72-161 4-85 (306)
434 TIGR03061 pip_yhgE_Nterm YhgE/ 23.5 2.8E+02 0.0061 25.7 7.0 26 587-612 84-110 (164)
435 cd08179 NADPH_BDH NADPH-depend 23.5 2.1E+02 0.0045 31.0 6.8 69 75-148 22-90 (375)
436 PRK08118 topology modulation p 23.4 61 0.0013 30.4 2.4 31 7-37 3-33 (167)
437 COG0371 GldA Glycerol dehydrog 23.1 3.8E+02 0.0083 28.7 8.3 88 67-165 21-109 (360)
438 cd03770 SR_TndX_transposase Se 23.0 5.5E+02 0.012 23.0 10.1 20 61-80 21-40 (140)
439 cd01575 PBP1_GntR Ligand-bindi 23.0 2.5E+02 0.0055 28.0 7.2 76 79-165 2-79 (268)
440 PF06679 DUF1180: Protein of u 22.9 1.1E+02 0.0025 28.4 3.9 29 691-719 92-120 (163)
441 COG1219 ClpX ATP-dependent pro 22.9 77 0.0017 32.9 3.0 66 8-85 100-169 (408)
442 cd08462 PBP2_NodD The C-termin 22.9 6.1E+02 0.013 23.5 12.9 69 583-654 127-197 (200)
443 COG0324 MiaA tRNA delta(2)-iso 22.8 79 0.0017 32.9 3.2 34 5-38 3-36 (308)
444 COG1058 CinA Predicted nucleot 22.8 4.1E+02 0.0089 26.9 8.1 61 78-145 3-66 (255)
445 cd01574 PBP1_LacI Ligand-bindi 22.8 3.2E+02 0.0069 27.2 7.9 59 79-145 2-62 (264)
446 PF03180 Lipoprotein_9: NLPA l 22.7 1.9E+02 0.004 29.0 5.8 81 580-661 28-123 (237)
447 cd08459 PBP2_DntR_NahR_LinR_li 22.7 6.1E+02 0.013 23.4 12.2 103 547-653 89-196 (201)
448 PRK14722 flhF flagellar biosyn 22.6 4.2E+02 0.009 28.6 8.7 32 74-108 165-196 (374)
449 cd06286 PBP1_CcpB_like Ligand- 22.5 2.5E+02 0.0055 27.9 7.0 58 79-145 2-61 (260)
450 PF14981 FAM165: FAM165 family 22.4 1.5E+02 0.0032 20.7 3.3 31 690-720 3-34 (51)
451 COG0503 Apt Adenine/guanine ph 22.3 1.5E+02 0.0032 28.2 4.8 103 3-115 50-152 (179)
452 cd06271 PBP1_AglR_RafR_like Li 22.3 2.2E+02 0.0049 28.4 6.7 75 79-165 2-83 (268)
453 COG3172 NadR Predicted ATPase/ 22.2 56 0.0012 30.2 1.7 29 6-34 9-37 (187)
454 PF00406 ADK: Adenylate kinase 22.1 39 0.00085 30.9 0.8 29 10-38 1-29 (151)
455 cd02008 TPP_IOR_alpha Thiamine 21.9 2.1E+02 0.0047 27.0 5.9 36 4-39 69-105 (178)
456 cd00578 L-fuc_L-ara-isomerases 21.8 3E+02 0.0066 30.6 8.0 74 93-174 23-96 (452)
457 cd08169 DHQ-like Dehydroquinat 21.8 7.1E+02 0.015 26.5 10.4 93 65-164 12-109 (344)
458 PRK14529 adenylate kinase; Pro 21.7 2.7E+02 0.0059 27.5 6.7 30 8-37 3-32 (223)
459 PRK10586 putative oxidoreducta 21.7 4E+02 0.0086 28.7 8.5 71 64-145 22-92 (362)
460 PF09651 Cas_APE2256: CRISPR-a 21.7 5.9E+02 0.013 22.8 9.4 97 62-163 5-115 (136)
461 cd06283 PBP1_RegR_EndR_KdgR_li 21.6 2.8E+02 0.006 27.7 7.2 76 79-165 2-79 (267)
462 PRK05752 uroporphyrinogen-III 21.4 2.8E+02 0.006 28.0 7.0 60 95-160 142-201 (255)
463 PRK13054 lipid kinase; Reviewe 21.4 4.9E+02 0.011 27.0 9.0 76 77-163 4-79 (300)
464 PHA02594 nadV nicotinamide pho 21.0 1.2E+03 0.025 26.1 11.8 149 11-175 202-370 (470)
465 TIGR00854 pts-sorbose PTS syst 20.9 5.6E+02 0.012 23.5 8.1 81 63-158 13-93 (151)
466 PLN02674 adenylate kinase 20.9 75 0.0016 31.9 2.6 33 6-38 32-64 (244)
467 PRK14723 flhF flagellar biosyn 20.9 8E+02 0.017 29.4 11.1 25 5-29 185-209 (767)
468 PF00532 Peripla_BP_1: Peripla 20.9 1.9E+02 0.0042 29.6 5.8 65 77-152 2-68 (279)
469 cd06268 PBP1_ABC_transporter_L 20.7 4.7E+02 0.01 26.2 8.8 80 78-165 1-91 (298)
470 cd03522 MoeA_like MoeA_like. T 20.6 4.7E+02 0.01 27.5 8.4 69 74-149 157-228 (312)
471 COG0541 Ffh Signal recognition 20.4 6E+02 0.013 27.9 9.1 104 48-162 97-206 (451)
472 PF09002 DUF1887: Domain of un 20.3 3.4E+02 0.0073 29.5 7.6 89 67-165 17-111 (381)
473 PRK01184 hypothetical protein; 20.3 81 0.0018 29.9 2.7 31 6-37 2-32 (184)
474 TIGR01481 ccpA catabolite cont 20.3 4.4E+02 0.0094 27.5 8.6 79 76-165 59-139 (329)
475 PRK09756 PTS system N-acetylga 20.3 6.1E+02 0.013 23.5 8.2 80 63-158 17-97 (158)
476 cd00001 PTS_IIB_man PTS_IIB, P 20.3 5.8E+02 0.012 23.4 8.0 81 63-158 12-92 (151)
477 PRK14530 adenylate kinase; Pro 20.1 90 0.002 30.6 3.0 32 6-37 4-35 (215)
478 PF08114 PMP1_2: ATPase proteo 20.0 1.2E+02 0.0026 20.7 2.4 24 696-719 13-36 (43)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=8.4e-89 Score=692.90 Aligned_cols=658 Identities=20% Similarity=0.327 Sum_probs=549.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++||.||+|-+.-.....+-.+|+..++|+|+++.. ++...+|.+++.|+ ...++++++.||+|.+++++|
T Consensus 88 s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsfp------~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly 158 (897)
T KOG1054|consen 88 SRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSFP------TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY 158 (897)
T ss_pred hhhHhhheecccccchhhhhhhccceeeeeecccCC------cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE
Confidence 368999999999999999999999999999998764 24556899999998 678999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
+.|. | ...++.+-+.+.++++.|... .+.... ....+..+++.+...+.+-+++ +|..+....++.|+.+.
T Consensus 159 D~~r-g--~s~Lqai~~~a~~~nw~VtA~-~v~~~~----d~~~yr~~f~~l~~r~e~rv~i-Dce~~~~~~il~q~i~~ 229 (897)
T KOG1054|consen 159 DTDR-G--LSILQAIMEAAAQNNWQVTAI-NVGNIN----DVKEYRMLFEMLDRRQENRVLI-DCESERRNRILLQVIEL 229 (897)
T ss_pred cccc-h--HHHHHHHHHHHHhcCceEEEE-EcCCcc----cHHHHHHHHHHHhccccceEEE-EcccHHHHHHHHHHHHH
Confidence 9887 6 778888888898999988755 343322 2244888888888777777777 99999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHH
Q 003821 164 GLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSIT 231 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~ 231 (793)
+-..++|||++.+-++.+ +.|+.. .+..+|..++|.++|++.-..++++..+..+.+.++++|||+.
T Consensus 230 ~k~~~~YHYvlaNl~f~d~dl~~f~~g~aNitgFqi-vn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDail 308 (897)
T KOG1054|consen 230 GKHVKGYHYVLANLGFTDIDLERFQHGGANITGFQI-VNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAIL 308 (897)
T ss_pred hhhccceEEEEeeCCCchhhHHHHhcCCcceeEEEE-ecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHH
Confidence 998899999999544433 444443 3445588899999999887778888777888999999999999
Q ss_pred HHHHHHhhccC--------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEE
Q 003821 232 VVAKSIDGMTS--------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKE 291 (793)
Q Consensus 232 ~la~Al~~~~~--------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~ 291 (793)
++++|++.+.. .|..|..+.++++++.++|+||+|+||..|+|.+.+.+|+++..++.++
T Consensus 309 V~~eaf~~~~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk 388 (897)
T KOG1054|consen 309 VMAEAFRSLRRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRK 388 (897)
T ss_pred HHHHHHHHHHHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcce
Confidence 99999987743 2467889999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCCccccccccccCCCcccCcccCCcceeecCCCCccCCCccccCCCCCcEEEEecCCCCccceEEeccCCC-
Q 003821 292 IDFWLPKFGLSKTLKMEEDKNSSKVGDIRNGLIGAVIWPGDLKRDPKGRAMPTDAKPLIIGVPARTTFDKFVKLISSDN- 370 (793)
Q Consensus 292 VG~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~v~Wp~~~~~~P~~~~~~~~~~~lrv~~~~~~~~~p~~~~~~~~~- 370 (793)
+|+|+...|+......... .++ .. ..+.++..|.+.... ||++...+..
T Consensus 389 ~~~W~e~~~fv~~~t~a~~-~~d-----~~---------------------~~~n~tvvvttiL~s---pyvm~kkn~~~ 438 (897)
T KOG1054|consen 389 VGYWNEGEGFVPGSTVAQS-RND-----QA---------------------SKENRTVVVTTILES---PYVMLKKNHEQ 438 (897)
T ss_pred eeeecccCceeeccccccc-ccc-----cc---------------------ccccceEEEEEecCC---chhHHHhhHHH
Confidence 9999999887643321110 000 00 012344555555443 4555554433
Q ss_pred -CCcceeeeeeHHHHHHHHHHCCCccceeEE---------------------------EEeEEEecEEEecccccceeec
Q 003821 371 -PHKIIYDGYCIELFYKVLQVLKYDLPYEFS---------------------------DYDAAIGDITILVNRTRFVEFS 422 (793)
Q Consensus 371 -~~~~~~~G~~~dll~~ia~~ln~~~~~~~~---------------------------~~Di~~~~~~~t~~R~~~~dfs 422 (793)
.|+++|+|||+||+.+||++.+.+ |++. ++|+++++++||.+|++++|||
T Consensus 439 ~egn~ryEGyCvdLa~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFS 516 (897)
T KOG1054|consen 439 LEGNERYEGYCVDLAAEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFS 516 (897)
T ss_pred hcCCcccceeHHHHHHHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccc
Confidence 456699999999999999999998 7655 9999999999999999999999
Q ss_pred ccccccceEEEEecCCC--CCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCC------CCc-------cccc
Q 003821 423 QPYTESGLSMVVPAKAE--QSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFN------GPW-------NIQI 487 (793)
Q Consensus 423 ~p~~~~~~~~~v~~~~~--~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~------~~~-------~~~~ 487 (793)
.|||..|++|++++|++ .+.++|+.|+..++|+|++...+.+++++++..|+++.||+ |+. ..++
T Consensus 517 KPfMslGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgi 596 (897)
T KOG1054|consen 517 KPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGI 596 (897)
T ss_pred cchhhcCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchh
Confidence 99999999999988874 34899999999999999999999999999999999987654 222 2358
Q ss_pred hhHHHHHHHHHhhccccc-cccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHh-hhCCCcccccCch
Q 003821 488 GTALWFTFSSLFFAHRER-IYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWL-KASNLNVGFDGDS 565 (793)
Q Consensus 488 ~~~~~~~~~~l~~~~~~~-~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL-~~~~~~~g~~~~~ 565 (793)
.|++||++++++|||++. ||+.|+|++.++||||+|||+++|||||+||||++++.+||.|.||| +|+.+.+|+.++.
T Consensus 597 fNsLWFsLgAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~G 676 (897)
T KOG1054|consen 597 FNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSG 676 (897)
T ss_pred hHHHHHHHHHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCC
Confidence 899999999999999875 79999999999999999999999999999999999999999999999 5899999997776
Q ss_pred HHHHHHHhhcCCCCccccccC----------------CHHHHHHHhh-cCceEEEEechhhHHHHHhc-cCCceEEeCcc
Q 003821 566 FVRNYLENVLGFKPENILKVD----------------HEYKYITDFE-SNRIAAAFLELSYERAFLSQ-HCKEYTATIPT 627 (793)
Q Consensus 566 ~~~~~l~~~~~~~~~~~~~~~----------------~~~~~~~~l~-~g~~~a~~~~~~~~~~~~~~-~c~~~~~~~~~ 627 (793)
...+++++. ++..|+ +..|++.+++ +++-+|+++|.+..+|.-++ .|+ .+.++..
T Consensus 677 STkeFFr~S------kiavy~kMW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCD-TMKVGgN 749 (897)
T KOG1054|consen 677 STKEFFRRS------KIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCD-TMKVGGN 749 (897)
T ss_pred chHHHHhhh------hHHHHHHHHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCcc-ceecccc
Confidence 677776653 333333 4455556665 33458999999999987655 788 5667888
Q ss_pred ccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcCCCCCCCCCcccCCCccccccccchhHHHHHHHHHHHHH
Q 003821 628 YRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFAPSPECSGSAEVNNNKTECLSLQDFWGLFLISGTTSTIC 707 (793)
Q Consensus 628 ~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~~~~~c~~~~~~~~~~~~~L~l~~l~g~f~il~~g~~ls 707 (793)
+.+.+||+|.||||.|+..+|.++++|.|.|+++++++|||.++++|.....+..+..++|++.++.|+||||..|++||
T Consensus 750 Lds~GYGiATp~Gsslr~~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~la 829 (897)
T KOG1054|consen 750 LDSKGYGIATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLA 829 (897)
T ss_pred cCCcceeecCCCCcccccchhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHH
Confidence 99999999999999999999999999999999999999999999999988655666778999999999999999999999
Q ss_pred HHHHHHH-Hhhhc
Q 003821 708 ALVFLVR-NYTSR 719 (793)
Q Consensus 708 ~lvf~~E-~~~~~ 719 (793)
.++.++| .|+.+
T Consensus 830 MlvALiEF~yksr 842 (897)
T KOG1054|consen 830 MLVALIEFCYKSR 842 (897)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999 45544
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.7e-78 Score=617.74 Aligned_cols=632 Identities=21% Similarity=0.351 Sum_probs=529.2
Q ss_pred HHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHH
Q 003821 20 TMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALL 98 (793)
Q Consensus 20 ~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l 98 (793)
.+++-.++.++||+|..+.. +..+++ .-++.|+|+.|+.+.|+.....++.+|.|++|.++.+||.-| +....++
T Consensus 114 ~~vSYT~gFY~iPV~G~~~R--da~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g--ra~~~r~ 189 (993)
T KOG4440|consen 114 TPVSYTAGFYRIPVLGLTTR--DAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG--RAAQKRL 189 (993)
T ss_pred ccceeeccceeeeeeeeeeh--hhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc--hhHHhHH
Confidence 45566778899999999988 677775 457899999999999999999999999999999999999988 8888899
Q ss_pred HHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEeCCc
Q 003821 99 SEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIASDT 178 (793)
Q Consensus 99 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 178 (793)
+..+++...++.....++|+. .++...|...|..++||+++ ..+.++|..+++.|-+++|+|++|+||++ +.
T Consensus 190 qt~~e~~~~~~e~v~~f~p~~------~~~t~~l~~~k~~~~rv~~~-~as~dDA~~ifr~Ag~lnmTG~G~VWiV~-E~ 261 (993)
T KOG4440|consen 190 QTLLEERESKAEKVLQFDPGT------KNVTALLMEAKELEARVIIL-SASEDDAATIFRAAGMLNMTGSGYVWIVG-ER 261 (993)
T ss_pred HHHHHHHhhhhhhheecCccc------chHHHHHhhhhhhhheeEEe-ecccchHHHHHHhhhhhcccCceEEEEEe-cc
Confidence 999998888877778888877 67889999999999999998 99999999999999999999999999999 33
Q ss_pred ccc-------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHHHHHHhhccCC--------
Q 003821 179 ITS-------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVVAKSIDGMTSD-------- 243 (793)
Q Consensus 179 ~~~-------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~~~-------- 243 (793)
... ++|.+..... ...+..-|+|.++|.|++++.+.
T Consensus 262 a~~~nn~PdG~LGlqL~~~~-----------------------------~~~~hirDsv~vlasAv~e~~~~e~I~~~P~ 312 (993)
T KOG4440|consen 262 AISGNNLPDGILGLQLINGK-----------------------------NESAHIRDSVGVLASAVHELLEKENITDPPR 312 (993)
T ss_pred ccccCCCCCceeeeEeecCc-----------------------------cccceehhhHHHHHHHHHHHHhhccCCCCCC
Confidence 221 2333221111 12456789999999999988541
Q ss_pred --------CCChhhHHHhhhhcc-cccceeeEEEeCCCcCCCCcEEEEEee-cceeEEEEEecCCCCCccccccccccCC
Q 003821 244 --------NSSSKISLGYILSSN-FTGLSGPISFRGGKLLNSPILRIINMV-GKKYKEIDFWLPKFGLSKTLKMEEDKNS 313 (793)
Q Consensus 244 --------~~~g~~l~~~l~~~~-f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~~~~~VG~w~~~~g~~~~~~~~~~~~~ 313 (793)
|..|..+.+.++..+ -.|.||++.||++|+|....|+|+|+. ++..+.+|.++... .. .
T Consensus 313 ~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r-----~~--~---- 381 (993)
T KOG4440|consen 313 GCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTR-----VI--P---- 381 (993)
T ss_pred cccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcccccee-----ec--c----
Confidence 467888888888766 488999999999999999999999994 45455555554321 10 0
Q ss_pred CcccCcccCCcceeecCCCCccCCCccccCCCCCcEEEEecCCCCccceEEecc---------------C---------C
Q 003821 314 SKVGDIRNGLIGAVIWPGDLKRDPKGRAMPTDAKPLIIGVPARTTFDKFVKLIS---------------S---------D 369 (793)
Q Consensus 314 ~~~~~~~~~~~~~v~Wp~~~~~~P~~~~~~~~~~~lrv~~~~~~~~~p~~~~~~---------------~---------~ 369 (793)
.+.+|+|||+....|+++.+|+ +|||.+...+|| +++.. + +
T Consensus 382 ---------nd~~IiWpGg~~~KP~gi~~pt---hLrivTi~~~PF---VYv~p~~sd~~c~eef~~~~d~~~k~~c~gp 446 (993)
T KOG4440|consen 382 ---------NDRKIIWPGGETEKPRGIQMPT---HLRIVTIHQEPF---VYVKPTLSDGTCKEEFTVNGDPVKKVICTGP 446 (993)
T ss_pred ---------CCceeecCCCCcCCCccccccc---eeEEEEeccCCe---EEEecCCCCcchhhhccccCCcccceeecCC
Confidence 1234999999999999999994 799999888655 44331 0 0
Q ss_pred C---------CCcceeeeeeHHHHHHHHHHCCCccceeEE----------------------------------EEeEEE
Q 003821 370 N---------PHKIIYDGYCIELFYKVLQVLKYDLPYEFS----------------------------------DYDAAI 406 (793)
Q Consensus 370 ~---------~~~~~~~G~~~dll~~ia~~ln~~~~~~~~----------------------------------~~Di~~ 406 (793)
+ +...|+.||||||+-.+++.+||+ |+.. ++||++
T Consensus 447 n~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nft--yd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~ADMiv 524 (993)
T KOG4440|consen 447 NDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFT--YDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQADMIV 524 (993)
T ss_pred CCCCCCCcccCcchhhhHHHHHHHHHHHHhhcce--EEEEEeecccccceeeeecccccccceehhhhhhhhCCccceEe
Confidence 0 124478999999999999999999 5544 999999
Q ss_pred ecEEEecccccceeecccccccceEEEEecCCCCC-CcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCC----
Q 003821 407 GDITILVNRTRFVEFSQPYTESGLSMVVPAKAEQS-PWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNG---- 481 (793)
Q Consensus 407 ~~~~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~-~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~---- 481 (793)
++++|++||.++++||.||...|+.|+.+++.+.+ .-+|++||+.++|+++.+++.+++++++++.|+++.+...
T Consensus 525 aplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk~~ds 604 (993)
T KOG4440|consen 525 APLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFKVNDS 604 (993)
T ss_pred eceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccceeeccC
Confidence 99999999999999999999999999999888765 7899999999999999999999999999999998754211
Q ss_pred ----CccccchhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhh--
Q 003821 482 ----PWNIQIGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLK-- 553 (793)
Q Consensus 482 ----~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~-- 553 (793)
.-.-+++.++||+||.|+..| ++ .|||.|.|++-++|+-|++||+++|||||+|||...+++..++.+.|-+
T Consensus 605 ~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinDpRLR 684 (993)
T KOG4440|consen 605 EEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGINDPRLR 684 (993)
T ss_pred ccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCCCCcccc
Confidence 112359999999999999999 54 6899999999999999999999999999999999999999999998873
Q ss_pred --hCCCcccccCchHHHHHHHhhcCC----CCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCcc
Q 003821 554 --ASNLNVGFDGDSFVRNYLENVLGF----KPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPT 627 (793)
Q Consensus 554 --~~~~~~g~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~ 627 (793)
..++.++++.++.+..|++++... ..-.-..|.+..|+++++++|+.+||+.|+.-++|..+++|+ +...|+.
T Consensus 685 Nps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~AFIWDS~rLEfEAs~~Ce-LvT~GeL 763 (993)
T KOG4440|consen 685 NPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHAFIWDSARLEFEASQKCE-LVTTGEL 763 (993)
T ss_pred CcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCceeEEEeecceeeehhhcccc-eEecccc
Confidence 346788999999999999886432 222235688899999999999999999999999999999999 6777899
Q ss_pred ccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcCCC--CCCCCCcccCCCccccccccchhHHHHHHHHHHH
Q 003821 628 YRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFAPS--PECSGSAEVNNNKTECLSLQDFWGLFLISGTTST 705 (793)
Q Consensus 628 ~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~~~--~~c~~~~~~~~~~~~~L~l~~l~g~f~il~~g~~ 705 (793)
|...+||++++||||+.+.+..+|++++|+|+++++.++|+... ..|... ...+..|+++++.|+|++.+.|++
T Consensus 764 FgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~----~k~PatLgl~NMagvFiLV~~Gia 839 (993)
T KOG4440|consen 764 FGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSR----SKAPATLGLENMAGVFILVAGGIA 839 (993)
T ss_pred ccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhh----ccCcccccccccccEEEEEecchh
Confidence 99999999999999999999999999999999999999999863 245543 456788999999999999999988
Q ss_pred HHHHHHHHH-HhhhccccccC
Q 003821 706 ICALVFLVR-NYTSRQDASEG 725 (793)
Q Consensus 706 ls~lvf~~E-~~~~~~~~~~~ 725 (793)
+++++.++| .|+|++.++++
T Consensus 840 ~GifLifiEv~Ykrh~~~k~k 860 (993)
T KOG4440|consen 840 AGIFLIFIEVAYKRHKDAKRK 860 (993)
T ss_pred heeeEEEEeehhhhhhhhhhH
Confidence 888877788 67766654433
No 3
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=8.3e-71 Score=584.38 Aligned_cols=658 Identities=21% Similarity=0.352 Sum_probs=508.8
Q ss_pred CcccceEEEEcCCCh---hhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCce
Q 003821 2 IKEKEVKVIVGMETW---GAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWR 77 (793)
Q Consensus 2 i~~~~V~aiiGp~~s---~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~ 77 (793)
+...+|.+|+=-..| +++..+--+.....||+|+....+ +..+++ .....|+++.|+.+.|+++|.++|+.|+|.
T Consensus 96 vs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~-a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~ydW~ 174 (1258)
T KOG1053|consen 96 VSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGA-AMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYDWY 174 (1258)
T ss_pred hhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCc-cceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcCcc
Confidence 445678887744444 344444456788999999998862 233443 233468899999999999999999999999
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHh--cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQI--SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
.+++|...-+.- ..+...++..... .|+++.......+.. .|.......+ +|+-++.||++ +|+.+++..
T Consensus 175 ~Fs~vtt~~pg~--~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~--~d~~a~~q~q---Lkki~a~Vill-yC~~eea~~ 246 (1258)
T KOG1053|consen 175 NFSLVTTQFPGN--RTFVSLIRQTNDNSHVGWEMINVLTLDPST--DDLLAKLQAQ---LKKIQAPVILL-YCSREEAER 246 (1258)
T ss_pred eeEEEEeecCch--HHHHHHHHHhhhhccccceeeeeeecCCCC--CchHHHHHHH---HHhcCCcEEEE-EecHHHHHH
Confidence 999999887733 7777777776665 466666665665544 1222233444 44445888887 999999999
Q ss_pred HHHHHHHcCCCCCCeEEEEeCCccccceeecccccCCchh--hhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHH
Q 003821 156 LFREAKEMGLVGPDSVWVIASDTITSALGIKTHFSQDSSS--YKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVV 233 (793)
Q Consensus 156 ~l~~a~~~g~~~~~~~wi~~~~~~~~~~g~~~~~~~~~~~--~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~l 233 (793)
|++.|.++|+++++|+||++ .... |..+ .+..-|. ..--.+.|+ ....+.+-|+|-++
T Consensus 247 IF~~A~q~Gl~g~~y~Wi~p-qlv~---g~~~-~pa~~P~GLisv~~~~w~---------------~~l~~rVrdgvaiv 306 (1258)
T KOG1053|consen 247 IFEEAEQAGLTGPGYVWIVP-QLVE---GLEP-RPAEFPLGLISVSYDTWR---------------YSLEARVRDGVAIV 306 (1258)
T ss_pred HHHHHHhcCCcCCceEEEee-hhcc---CCCC-CCccCccceeeeeccchh---------------hhHHHHHhhhHHHH
Confidence 99999999999999999998 4443 2211 1111000 000001122 12456788999999
Q ss_pred HHHHhhccCC------------------CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec-ceeEEEEE
Q 003821 234 AKSIDGMTSD------------------NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG-KKYKEIDF 294 (793)
Q Consensus 234 a~Al~~~~~~------------------~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~-~~~~~VG~ 294 (793)
|.|...+... ...+..+...|.|+.|+| ++++|+++|-..+++..++.+.+ ..|++||.
T Consensus 307 a~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~ 384 (1258)
T KOG1053|consen 307 ARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNEDGYLVHPNLVVIDLNRDRTWERVGS 384 (1258)
T ss_pred HHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cceeecCCceeeccceEEEecCCCcchheece
Confidence 9999887431 145778999999999999 89999999988888888776654 67999999
Q ss_pred ecCCCCCccccccccccCCCcccCcccCCcceeecCCCCccCCCccccCCCCCcEEEEecCCCCccceEEeccC------
Q 003821 295 WLPKFGLSKTLKMEEDKNSSKVGDIRNGLIGAVIWPGDLKRDPKGRAMPTDAKPLIIGVPARTTFDKFVKLISS------ 368 (793)
Q Consensus 295 w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~v~Wp~~~~~~P~~~~~~~~~~~lrv~~~~~~~~~p~~~~~~~------ 368 (793)
|..+. + .++. .+||... ..+.. . ....||+|.+.++.||.-...+|..
T Consensus 385 We~~~-----L----------------~M~y-~vWPr~~-~~~q~--~-~d~~HL~VvTLeE~PFVive~vDP~t~~C~~ 438 (1258)
T KOG1053|consen 385 WENGT-----L----------------VMKY-PVWPRYH-KFLQP--V-PDKLHLTVVTLEERPFVIVEDVDPLTQTCVR 438 (1258)
T ss_pred ecCCe-----E----------------EEec-ccccccc-CccCC--C-CCcceeEEEEeccCCeEEEecCCCCcCcCCC
Confidence 98754 2 2223 7899421 11111 1 2245899999988655321111110
Q ss_pred -------------------CCCCcceeeeeeHHHHHHHHHHCCCccceeEE-------------------------EEeE
Q 003821 369 -------------------DNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS-------------------------DYDA 404 (793)
Q Consensus 369 -------------------~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~-------------------------~~Di 404 (793)
+.+-+.|+.||||||++.||+.+||+ |+++ +|||
T Consensus 439 ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~M 516 (1258)
T KOG1053|consen 439 NTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YDLYLVTNGKHGKKINGVWNGMIGEVVYQRADM 516 (1258)
T ss_pred CCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eEEEEecCCcccceecCcchhhHHHHHhhhhhe
Confidence 00224589999999999999999999 8877 9999
Q ss_pred EEecEEEecccccceeecccccccceEEEEecCCC-CCCcEEecCCChhHHHHHHHHHHHHH-HHHHhhhcccCCCCC--
Q 003821 405 AIGDITILVNRTRFVEFSQPYTESGLSMVVPAKAE-QSPWIFIKPFTWGMWIVTGAILIYTM-SVVWFLEHRWNPEFN-- 480 (793)
Q Consensus 405 ~~~~~~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~-~~~~~~l~PF~~~vWl~i~~~~i~~~-~~~~~~~~~~~~~~~-- 480 (793)
++++++|++||.+.+|||.||.+++++++|...+. .+..+||.||++.||+++++++++++ +.++++|+.++-.+.
T Consensus 517 AVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~ 596 (1258)
T KOG1053|consen 517 AVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRN 596 (1258)
T ss_pred eeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCccccccc
Confidence 99999999999999999999999999999987764 57899999999999999999988665 566788998854321
Q ss_pred -------CCccccchhHHHHHHHHHhhcc--ccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHH
Q 003821 481 -------GPWNIQIGTALWFTFSSLFFAH--RERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGW 551 (793)
Q Consensus 481 -------~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~d 551 (793)
+....+++.++|..|+.+|+.+ .+.|+++.+|+++.+|.||++|+.++|||||+|||..+.+..+++.+.|
T Consensus 597 l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD 676 (1258)
T KOG1053|consen 597 LANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSD 676 (1258)
T ss_pred ccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCc
Confidence 2234579999999999999998 5678999999999999999999999999999999999999999999988
Q ss_pred hh-----h--CCCcccccCchHHHHHHHhhcCCCCcccccc--CCHHHHHHHhhcCceEEEEechhhHHHHHhc--cCCc
Q 003821 552 LK-----A--SNLNVGFDGDSFVRNYLENVLGFKPENILKV--DHEYKYITDFESNRIAAAFLELSYERAFLSQ--HCKE 620 (793)
Q Consensus 552 L~-----~--~~~~~g~~~~~~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~--~c~~ 620 (793)
=+ + .++++|++.++..+++++++...-..-++.| ...+++++.|++|+.|||++|...++|...+ .|++
T Consensus 677 ~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~gKLDAFIyDaAVLnY~agkDegCKL 756 (1258)
T KOG1053|consen 677 PKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKNGKLDAFIYDAAVLNYMAGKDEGCKL 756 (1258)
T ss_pred ccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhcccchhHHHHHHHHHHhhccCCCceE
Confidence 74 1 2689999888878888777532211222223 5668999999999999999999999999866 6986
Q ss_pred eEEe-CccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcCCCCCCCCCcccCCCccccccccchhHHHHH
Q 003821 621 YTAT-IPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFAPSPECSGSAEVNNNKTECLSLQDFWGLFLI 699 (793)
Q Consensus 621 ~~~~-~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~~~~~c~~~~~~~~~~~~~L~l~~l~g~f~i 699 (793)
+++. ++.|...+||+++|||||++..||.+|++...+|+++.+++.|+.. .|... +.+..+.+|+++++.|+|++
T Consensus 757 vTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wltg--ic~n~--k~evmSsqLdIdnmaGvFym 832 (1258)
T KOG1053|consen 757 VTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLTG--ICHNS--KNEVMSSQLDIDNMAGVFYM 832 (1258)
T ss_pred EEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhhc--ccccc--hhhhhhcccChhhhhhHHHH
Confidence 6654 3889999999999999999999999999999999999999999987 67766 67778899999999999999
Q ss_pred HHHHHHHHHHHHHHH--Hhhhcccc
Q 003821 700 SGTTSTICALVFLVR--NYTSRQDA 722 (793)
Q Consensus 700 l~~g~~ls~lvf~~E--~~~~~~~~ 722 (793)
|++|+++|+++|++| .|++.|..
T Consensus 833 L~~amgLSllvfi~EHlvYw~Lr~~ 857 (1258)
T KOG1053|consen 833 LAVAMGLSLLVFIWEHLVYWKLRHC 857 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 999999999999999 56665543
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.3e-60 Score=550.72 Aligned_cols=544 Identities=31% Similarity=0.513 Sum_probs=448.1
Q ss_pred HHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEeCCccccceeec----------------ccccCCch
Q 003821 131 KLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIASDTITSALGIK----------------THFSQDSS 194 (793)
Q Consensus 131 ~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~g~~----------------~~~~~~~~ 194 (793)
.+.+++....+++++ ++.+..+..++.+|.++||+..+|+|+.+ .++....... .+.+. ..
T Consensus 5 ~~~~~~~~~~~~~v~-~~~~~~~~~~~~~a~~~~~~~~~~~~i~t-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-s~ 81 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVL-HMFPILALAIFSQAEELGMMQFGYVWILT-NLLTDALDLDELYSLIDVMNGVLGLRGHIPR-SE 81 (656)
T ss_pred HHHHhhccCceEEEE-eCCHHHHHHHHHHHHHhCccccCeEEEEE-ecchhhhcccccccchhheeeEEeeccCCCc-cH
Confidence 344555567888888 88899999999999999999999999999 6665522221 11121 13
Q ss_pred hhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHHHHHHhhccC------------CCCChhhHHHhhhhcccc--
Q 003821 195 SYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVVAKSIDGMTS------------DNSSSKISLGYILSSNFT-- 260 (793)
Q Consensus 195 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~~------------~~~~g~~l~~~l~~~~f~-- 260 (793)
..++|..+++.. ......+++.+||++++++.|++.+.. .|.++..+.+.++.....
T Consensus 82 ~~~~~~~~~~~~---------~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (656)
T KOG1052|consen 82 LLQNFVTRWQTS---------NVELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNL 152 (656)
T ss_pred HHHHHHHHHhhc---------cccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcc
Confidence 344455554432 123566799999999999999988762 234566777777765543
Q ss_pred -cceeeEEEeCCCcCCCCcEEEEEeecceeEEEEEecCCCCCccccccccccCCCcccCcccCCcceeecCCCCccCCCc
Q 003821 261 -GLSGPISFRGGKLLNSPILRIINMVGKKYKEIDFWLPKFGLSKTLKMEEDKNSSKVGDIRNGLIGAVIWPGDLKRDPKG 339 (793)
Q Consensus 261 -G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~VG~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~v~Wp~~~~~~P~~ 339 (793)
|.+|.+.++.++.+....++|++..+.+...||.|++..| ..+.||+.....|++
T Consensus 153 ~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~------------------------~~i~~~~~~~~~~~~ 208 (656)
T KOG1052|consen 153 SGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG------------------------ENISWPGKDYFVPKG 208 (656)
T ss_pred ccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC------------------------ceeeccCCcccCcCC
Confidence 4567888888888899999999999988888999999765 128899999999999
Q ss_pred cccCCCCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE-------------------
Q 003821 340 RAMPTDAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------------- 400 (793)
Q Consensus 340 ~~~~~~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------------- 400 (793)
|..+.+++++||+++..+||..++... ...+++.++.|||+||++++++.+||++++..+
T Consensus 209 ~~~~~~~~~l~v~~~~~~P~~~~~~~~-~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~v~~ 287 (656)
T KOG1052|consen 209 WFFPTNGKPLRVGVVTEPPFVDLVEDL-AILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGLVGQ 287 (656)
T ss_pred ccccCCCceEEEEEeccCCceeeeecc-cccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHHHHH
Confidence 999999999999999988765444432 122345589999999999999999999444444
Q ss_pred ----EEeEEEecEEEecccccceeecccccccceEEEEecCCCCC-CcEEecCCChhHHHHHHHHHHHHHHHHHhhhccc
Q 003821 401 ----DYDAAIGDITILVNRTRFVEFSQPYTESGLSMVVPAKAEQS-PWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRW 475 (793)
Q Consensus 401 ----~~Di~~~~~~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~-~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~ 475 (793)
++|++ ++++++++|.+++|||.||+..+++++++++...+ .|.|++||+++||++++++++++++++|+++|+.
T Consensus 288 l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~ 366 (656)
T KOG1052|consen 288 LVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILERLS 366 (656)
T ss_pred HhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 79999 89999999999999999999999999999998755 7999999999999999999999999999999988
Q ss_pred CCCCCCC----ccccchhHHHHHHHHHhhcc-ccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChH
Q 003821 476 NPEFNGP----WNIQIGTALWFTFSSLFFAH-RERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIG 550 (793)
Q Consensus 476 ~~~~~~~----~~~~~~~~~~~~~~~l~~~~-~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~ 550 (793)
+.++..+ ......+++|++++++++|+ ...|++.++|++.++||+++++++++|||+|+|+||.++..++|++++
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~ 446 (656)
T KOG1052|consen 367 PYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLD 446 (656)
T ss_pred cccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHH
Confidence 8887111 11125668899999999999 567899999999999999999999999999999999999999999999
Q ss_pred Hhh-hCCCcccccCchHHHHHHHhh---cCCCCc-cccccCCHHHHHHHhhcCc--eEEEEechhhHHHHHhcc--CCce
Q 003821 551 WLK-ASNLNVGFDGDSFVRNYLENV---LGFKPE-NILKVDHEYKYITDFESNR--IAAAFLELSYERAFLSQH--CKEY 621 (793)
Q Consensus 551 dL~-~~~~~~g~~~~~~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~g~--~~a~~~~~~~~~~~~~~~--c~~~ 621 (793)
||. ++++.+|...+++...|+.+. ...... ....+.+.+++.+++++|. ..+++.+.....+...++ |+ +
T Consensus 447 dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~c~-~ 525 (656)
T KOG1052|consen 447 DLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRDEICD-L 525 (656)
T ss_pred HHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCCCc-e
Confidence 998 699999999999999998877 444444 6778899999999999995 355666555555555443 76 9
Q ss_pred EEeCccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcCCC---CCCCCCcccCCCccccccccchhHHHH
Q 003821 622 TATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFAPS---PECSGSAEVNNNKTECLSLQDFWGLFL 698 (793)
Q Consensus 622 ~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~~~---~~c~~~~~~~~~~~~~L~l~~l~g~f~ 698 (793)
+++++.+...+++ ++||||||++.++.+|++++|.|.+++|+++|+... +.|... + +...|++++++|+|+
T Consensus 526 ~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~----~-~~~~l~~~~~~g~F~ 599 (656)
T KOG1052|consen 526 TEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQT----E-KTKALDLESFWGLFL 599 (656)
T ss_pred EEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCc----c-cccccchhhHHHHHH
Confidence 9999999999999 999999999999999999999999999999999986 455544 1 577899999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 003821 699 ISGTTSTICALVFLVRNYTSR 719 (793)
Q Consensus 699 il~~g~~ls~lvf~~E~~~~~ 719 (793)
++++|+++|+++|++|.+.++
T Consensus 600 i~~~g~~lal~vfi~E~~~~~ 620 (656)
T KOG1052|consen 600 ILLVGYLLALLVFILELLYSR 620 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999944443
No 5
>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=100.00 E-value=1e-39 Score=348.90 Aligned_cols=277 Identities=16% Similarity=0.242 Sum_probs=241.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++||+|||||.++.++..++.+|+..+||+|++++. .. ...+|++|+.|+ +++|+++++++|||++|++||
T Consensus 54 ~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~~----~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIY 124 (364)
T cd06390 54 SKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSFP----VD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIY 124 (364)
T ss_pred hcCceEEEccCChhHHHHHHHhhcCCCCCceecCCC----CC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEE
Confidence 578999999999999999999999999999997543 22 334678999998 899999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
++| || ...++.|.+.+++.|++|.....++... .++..+|+++++.++++||+ +|+++.+..+++++.+.
T Consensus 125 d~d-~g--~~~lq~l~~~~~~~~~~I~~~~~~~~~~------~d~~~~L~~ik~~~~rvIVl-~~~~~~~~~~L~~a~~~ 194 (364)
T cd06390 125 DAD-RG--LSVLQKVLDTAAEKNWQVTAVNILTTTE------EGYRKLFQDLDKKKERLIVV-DCESERLNAILNQIIKL 194 (364)
T ss_pred eCC-cc--HHHHHHHHHhhhccCceeeEEEeecCCh------HHHHHHHHhccccCCeEEEE-ECCHHHHHHHHHHHHHh
Confidence 766 89 9999999999999999998776655333 67999999999999999999 99999999999999999
Q ss_pred CCCCCCeEEEEeCCccc-c------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHH
Q 003821 164 GLVGPDSVWVIASDTIT-S------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSI 230 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~-~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv 230 (793)
+|++.+|+||+| +... + +.|++.+.+.. +.+++|..+|++.....+|......++.+++++||||
T Consensus 195 ~~~~~gy~wI~t-~l~~~~~~~~~~~~~~~nitg~r~~~~~~-~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV 272 (364)
T cd06390 195 EKNGIGYHYILA-NLGFMDIDLTKFRESGANVTGFQLVNYTD-TTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGV 272 (364)
T ss_pred hccCCceEEEec-CCCcccccHHHHhcCCcCceEEEEecCCC-HHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHH
Confidence 999999999999 5322 1 67788776654 7899999999887766666655556789999999999
Q ss_pred HHHHHHHhhccC--------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeE
Q 003821 231 TVVAKSIDGMTS--------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYK 290 (793)
Q Consensus 231 ~~la~Al~~~~~--------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~ 290 (793)
+++|+|++++.. .|..|..|+++|++++|+|+||+++||++|+|.++.++|+++.+.+++
T Consensus 273 ~~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~ 352 (364)
T cd06390 273 RVMAEAFQNLRKQRIDISRRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIR 352 (364)
T ss_pred HHHHHHHHHHHHcCCCcccCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcce
Confidence 999999996421 256789999999999999999999999999999999999999999999
Q ss_pred EEEEecCCCCC
Q 003821 291 EIDFWLPKFGL 301 (793)
Q Consensus 291 ~VG~w~~~~g~ 301 (793)
+||+|++..|+
T Consensus 353 ~vG~W~~~~g~ 363 (364)
T cd06390 353 KIGYWNEDEKL 363 (364)
T ss_pred EEEEECCCCCc
Confidence 99999998875
No 6
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 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=100.00 E-value=3.3e-38 Score=339.96 Aligned_cols=283 Identities=13% Similarity=0.194 Sum_probs=235.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++||.||+||.+|..+.+++++|+.++||+|+++++ . ...++|.+++.|+ .+.++++++++|+|++|++||
T Consensus 55 ~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~--~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailY 125 (370)
T cd06389 55 SRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFP--T----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLY 125 (370)
T ss_pred hcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCC--C----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEe
Confidence 578999999999999999999999999999998665 2 2367888899998 589999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
+ ++|| ...++.+.+.+++.|++|+......... .....|+..+|++|++.++++||+ +|+++++..+++||+++
T Consensus 126 d-sd~g--l~~lq~l~~~~~~~g~~V~~~~~~~i~~--~~~~~d~~~~L~~ik~~~~~~Iil-~~~~~~~~~il~qa~~~ 199 (370)
T cd06389 126 D-SDRG--LSTLQAVLDSAAEKKWQVTAINVGNINN--DRKDEAYRSLFQDLENKKERRVIL-DCERDKVNDIVDQVITI 199 (370)
T ss_pred c-CchH--HHHHHHHHHhhccCCceEEEEEeecCCC--ccchHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHh
Confidence 8 4589 9999999999999998876443111110 012358999999999999999999 99999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHH
Q 003821 164 GLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSIT 231 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~ 231 (793)
||++++|+||+++.+..+ +.|+....+ .++.+++|.++|++.....++......|...++++||||+
T Consensus 200 gm~~~~y~~il~~~~~~~~~l~~~~~~~~nitg~~~~~~-~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~ 278 (370)
T cd06389 200 GKHVKGYHYIIANLGFTDGDLSKIQFGGANVSGFQIVDY-DDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQ 278 (370)
T ss_pred CccccceEEEEccCCccccchhhhccCCcceEEEEEecC-CCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHH
Confidence 999999999999433322 333433222 3578899999998754444544444567889999999999
Q ss_pred HHHHHHhhccC--------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEE
Q 003821 232 VVAKSIDGMTS--------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKE 291 (793)
Q Consensus 232 ~la~Al~~~~~--------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~ 291 (793)
++++|+++++. .|.+|..|.++|++++|+|+||+++||++|+|.++.++|+++.++++++
T Consensus 279 v~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~k 358 (370)
T cd06389 279 VMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRK 358 (370)
T ss_pred HHHHHHHHHHHcCCCcccCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceE
Confidence 99999998732 2458899999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCCc
Q 003821 292 IDFWLPKFGLS 302 (793)
Q Consensus 292 VG~w~~~~g~~ 302 (793)
||+|++..|+.
T Consensus 359 vG~W~~~~~~~ 369 (370)
T cd06389 359 IGYWSEVDKMV 369 (370)
T ss_pred EEEEcCCCCcc
Confidence 99999988764
No 7
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 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=100.00 E-value=5.9e-38 Score=334.13 Aligned_cols=279 Identities=15% Similarity=0.199 Sum_probs=236.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++||+||+||.++..+.++.++|+..+||+|.+... . ....+|.+++.|+ +++|+++++++|+|++|++||
T Consensus 61 ~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~--~----~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY 131 (372)
T cd06387 61 SRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFP--T----DADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY 131 (372)
T ss_pred hcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCC--C----CCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe
Confidence 579999999999999999999999999999987543 2 2445788999998 799999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
|+++| ...++.|.+.++..+..|... .+.+.. ...++...++++++.+.++||+ +|+++.+..++++|.++
T Consensus 132 -d~d~g--l~~Lq~L~~~~~~~~~~V~~~-~v~~~~----~~~~~~~~l~el~~~~~r~iIl-d~s~~~~~~il~~a~e~ 202 (372)
T cd06387 132 -DTERG--FSILQAIMEAAVQNNWQVTAR-SVGNIK----DVQEFRRIIEEMDRRQEKRYLI-DCEVERINTILEQVVIL 202 (372)
T ss_pred -cCchh--HHHHHHHHHhhccCCceEEEE-EeccCC----chHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHc
Confidence 55678 777888888888888887655 333322 1246888999999889999998 99999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHH
Q 003821 164 GLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSIT 231 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~ 231 (793)
||++++|+||+|+-+..+ +.|++.+.+.. +.+++|.++|++.....++......++.+++++||||+
T Consensus 203 gM~~~~y~~ilt~ld~~~~dl~~~~~g~~NItg~rl~~~~~-~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~ 281 (372)
T cd06387 203 GKHSRGYHYMLANLGFTDISLERVMHGGANITGFQIVNNEN-PMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAIL 281 (372)
T ss_pred CccccceEEEEecCCcccccHHHhccCCcceeEEEEecCCC-chHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHH
Confidence 999999999999313222 67777766654 78999999998877766666555566789999999999
Q ss_pred HHHHHHhhccC--------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEE
Q 003821 232 VVAKSIDGMTS--------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKE 291 (793)
Q Consensus 232 ~la~Al~~~~~--------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~ 291 (793)
++|+|++++.. .|..|..|+++|++++|+|+||+++||++|+|.++.++|+|+.++++++
T Consensus 282 ~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~k 361 (372)
T cd06387 282 VIAEAFRYLRRQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRK 361 (372)
T ss_pred HHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCcee
Confidence 99999997521 2567999999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCC
Q 003821 292 IDFWLPKFGL 301 (793)
Q Consensus 292 VG~w~~~~g~ 301 (793)
||+|++..|+
T Consensus 362 IG~W~~~~g~ 371 (372)
T cd06387 362 AGYWNEYERF 371 (372)
T ss_pred EEEECCCCCc
Confidence 9999998875
No 8
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 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=100.00 E-value=2e-37 Score=332.97 Aligned_cols=278 Identities=15% Similarity=0.219 Sum_probs=229.9
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++||+|||||.+|..+.+++++|+.++||+|+++++ . ...+.|.+++.|+ +..++++++++|+|++|++||
T Consensus 61 ~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~--~----~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiY 131 (371)
T cd06388 61 SRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFP--T----EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLY 131 (371)
T ss_pred hCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCcc--c----cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEe
Confidence 578999999999999999999999999999998654 2 2345565666666 568888899999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
++++ | ...++.|.+.+++.|++|+.....+..+ .|+..+|++|++.++++||+ +|+++.+..+++||+++
T Consensus 132 d~~~-~--~~~lq~l~~~~~~~g~~v~~~~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~ 201 (371)
T cd06388 132 DTDR-G--YSILQAIMEKAGQNGWQVSAICVENFND------ASYRRLLEDLDRRQEKKFVI-DCEIERLQNILEQIVSV 201 (371)
T ss_pred cCCc-c--HHHHHHHHHhhHhcCCeeeeEEeccCCc------HHHHHHHHHhcccccEEEEE-ECCHHHHHHHHHHHHhc
Confidence 7554 4 5568899999999999987654333222 58999999999999999999 99999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHH
Q 003821 164 GLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSIT 231 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~ 231 (793)
||+.++|+||+++.++.+ +.|+....+ .++.+++|.++|++.+...+++.. ..|...++++||||+
T Consensus 202 gm~~~~y~~il~~~~~~~~~l~~~~~g~~nitg~~~~~~-~~~~v~~~~~~~~~~~~~~~~~~~-~~~~~~aAl~YDaV~ 279 (371)
T cd06388 202 GKHVKGYHYIIANLGFKDISLERFMHGGANVTGFQLVDF-NTPMVTKLMQRWKKLDQREYPGSE-SPPKYTSALTYDGVL 279 (371)
T ss_pred CccccceEEEEccCccccccHHHHhccCCceEEEEeecC-CChhHHHHHHHHHhcCccccCCCC-CCccchHHHHHHHHH
Confidence 999999999999533322 334444322 347889999999887766665422 357889999999999
Q ss_pred HHHHHHhhcc--------------------CCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEE
Q 003821 232 VVAKSIDGMT--------------------SDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKE 291 (793)
Q Consensus 232 ~la~Al~~~~--------------------~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~ 291 (793)
++++|+++++ ..|..|..|.++|++++|+|+||+++||++|+|.++.++|+++.++++++
T Consensus 280 l~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~k 359 (371)
T cd06388 280 VMAEAFRNLRRQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRK 359 (371)
T ss_pred HHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceE
Confidence 9999999853 02456788999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCCc
Q 003821 292 IDFWLPKFGLS 302 (793)
Q Consensus 292 VG~w~~~~g~~ 302 (793)
||+|++..|+.
T Consensus 360 vG~W~~~~g~~ 370 (371)
T cd06388 360 IGYWNDMDKLV 370 (371)
T ss_pred EEEEcCCCCcc
Confidence 99999988864
No 9
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=2.5e-37 Score=330.03 Aligned_cols=287 Identities=18% Similarity=0.245 Sum_probs=219.2
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCC---------CCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPA---------IAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY 74 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~---------~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~ 74 (793)
++||+|||||.++.++..++++|+.++||+|++++.. .+|.++.. +|.+.+.|+ ..+..|+++++.+|
T Consensus 60 ~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~--~~~~~lrp~-~~~~~Ai~dlV~~~ 136 (400)
T cd06392 60 TQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGE--EYTLAARPP-VRLNDVMLKLVTEL 136 (400)
T ss_pred hcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcC--ceeEEecCc-hHHHHHHHHHHHhC
Confidence 6799999999999999999999999999999986620 02444344 455667776 57888999999999
Q ss_pred CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCC---CCCCChHHHHHHHHHhhcCCceEEEEeccChH
Q 003821 75 NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPIS---YLTDPKQFLQEKLLKLLRTESRVFIILQSSLA 151 (793)
Q Consensus 75 ~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~---~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~ 151 (793)
+|++|++|| |++|| ...++.|.+.+.+.+.+|.... ++... .....++...++|.+++... ++||+ +|+++
T Consensus 137 ~W~~v~~iY-D~d~g--l~~lq~L~~~~~~~~~~I~~~~-v~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv-~~s~~ 210 (400)
T cd06392 137 RWQKFIVFY-DSEYD--IRGLQSFLDQASRLGLDVSLQK-VDRNISRVFTNLFTTMKTEELNRYRDTL-RRAIL-LLSPR 210 (400)
T ss_pred CCcEEEEEE-ECccc--HHHHHHHHHHHhhcCceEEEEE-cccCcchhhhhHHHHHHHhhhhhccccc-eEEEE-EcCcH
Confidence 999999999 67788 8888899999999999887654 22110 00001233455556666555 78888 89999
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEEeCCcccc----------cee----ecccccCCchhhhHHH----HHHHHhhhhcCCC
Q 003821 152 MGIHLFREAKEMGLVGPDSVWVIASDTITS----------ALG----IKTHFSQDSSSYKIFE----DQFRSYFRSEYPE 213 (793)
Q Consensus 152 ~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~----------~~g----~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~ 213 (793)
.+..+++||.++||++.+|+||+| +++.. .+| ++.+.+.. ....+|. .+|++.......
T Consensus 211 ~~~~il~qA~~lgM~~~~y~wI~t-~~~~~~~dl~~~~~g~~~niT~~r~~~~~~-~~~~~~~~~~~~r~~~~~~~~~~- 287 (400)
T cd06392 211 GAQTFINEAVETNLASKDSHWVFV-NEEISDTEILELVHSALGRMTVIRQIFPLS-KDNNQRCIRNNHRISSLLCDPQE- 287 (400)
T ss_pred HHHHHHHHHHHhCcccCCeEEEEe-cCCcccccHHHHhcccccceeeEEEecCCc-HHHHHHHHHHHHHHHhhhccccc-
Confidence 999999999999999999999999 77654 333 55554543 3233343 455433322111
Q ss_pred CCCCCcchhhHhHhHHHHHHHHHHhhcc------------------CCCCChhhHHHhhhhcccccceeeEEEeCCCcCC
Q 003821 214 DDVSEPGIYALRAYDSITVVAKSIDGMT------------------SDNSSSKISLGYILSSNFTGLSGPISFRGGKLLN 275 (793)
Q Consensus 214 ~~~~~~~~~a~~~YDAv~~la~Al~~~~------------------~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~ 275 (793)
.....++.+++++||||+++|+|++++. ..|..|..|+++|++++|+|+||+|+||++|+|.
T Consensus 288 ~~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~ 367 (400)
T cd06392 288 GYLQMLQVSNLYLYDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANP 367 (400)
T ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCc
Confidence 1111467899999999999999999741 1356799999999999999999999999999999
Q ss_pred CCcEEEEEee-----cceeEEEEEecCCCCCc
Q 003821 276 SPILRIINMV-----GKKYKEIDFWLPKFGLS 302 (793)
Q Consensus 276 ~~~~~I~~~~-----~~~~~~VG~w~~~~g~~ 302 (793)
++.++|+|+. +.++++||+|++.+|++
T Consensus 368 ~~~ldIi~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 368 HVQFEILGTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred CCceEEEeccccccCCCCceEeEEecCCCCCC
Confidence 9999999954 66799999999998864
No 10
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=4.7e-37 Score=334.60 Aligned_cols=282 Identities=20% Similarity=0.244 Sum_probs=234.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
++|.|||||.+|..+.+++++|+.++||+|+++++ +|.+++. .+|++|+.|++..++.++++++++|+|++|++||+
T Consensus 71 ~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t--~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~ 147 (384)
T cd06393 71 LGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWK--HHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYD 147 (384)
T ss_pred cCcEEEECCCChHHHHHHHHHHhccCCCeEeccCC--CcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEe
Confidence 68999999999999999999999999999999998 7877753 46888999999999999999999999999999998
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcC
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMG 164 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g 164 (793)
+++ | ...++.+.+.+++.|++|+. ..++..+ .|+..+|++|++.++++||+ .++.+++..+++||+++|
T Consensus 148 ~~~-g--~~~l~~~~~~~~~~g~~v~~-~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~g 216 (384)
T cd06393 148 DST-G--LIRLQELIMAPSRYNIRLKI-RQLPTDS------DDARPLLKEMKRGREFRIIF-DCSHQMAAQILKQAMAMG 216 (384)
T ss_pred Cch-h--HHHHHHHHHhhhccCceEEE-EECCCCc------hHHHHHHHHHhhcCceEEEE-ECCHHHHHHHHHHHHHhc
Confidence 775 6 55566788888889999875 3465544 78999999999999998888 899999999999999999
Q ss_pred CCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHh-hhhcC-CCCCC--CCcchhhHhHh
Q 003821 165 LVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSY-FRSEY-PEDDV--SEPGIYALRAY 227 (793)
Q Consensus 165 ~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~-~~~~~-~~~~~--~~~~~~a~~~Y 227 (793)
|+.+.|+|+++ +.... +.++....+ .++.+++|.++|+++ ++... +.... ..+..+++++|
T Consensus 217 m~~~~~~~~~~-~~~~~~~~~~~~~~~~~~it~~~~~~~-~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~y 294 (384)
T cd06393 217 MMTEYYHFIFT-TLDLYALDLEPYRYSGVNLTGFRILNV-DNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLY 294 (384)
T ss_pred cccCceEEEEc-cCccccccchhhhcCcceEEEEEecCC-CcHHHHHHHHHHHhhhhccccccccccccccccchhHHhh
Confidence 99999999988 43322 233333333 347889999999854 54321 11111 12356899999
Q ss_pred HHHHHHHHHHhhccCC------------CCChhhHHHhhhhcccccceeeEEEeC-CCcCCCCcEEEEEeecceeEEEEE
Q 003821 228 DSITVVAKSIDGMTSD------------NSSSKISLGYILSSNFTGLSGPISFRG-GKLLNSPILRIINMVGKKYKEIDF 294 (793)
Q Consensus 228 DAv~~la~Al~~~~~~------------~~~g~~l~~~l~~~~f~G~tG~i~Fd~-~g~~~~~~~~I~~~~~~~~~~VG~ 294 (793)
|||+++++|+++++.. |..|..|+++|++++|+|+||+++||+ +|.|.++.++|+|+.++++++||+
T Consensus 295 Dav~~~a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~ 374 (384)
T cd06393 295 DAVHMVSVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGV 374 (384)
T ss_pred hhHHHHHHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEE
Confidence 9999999999976432 456789999999999999999999995 788999999999999999999999
Q ss_pred ecCCCCCc
Q 003821 295 WLPKFGLS 302 (793)
Q Consensus 295 w~~~~g~~ 302 (793)
|++..|++
T Consensus 375 W~~~~g~~ 382 (384)
T cd06393 375 WNPNTGLN 382 (384)
T ss_pred EcCCCCcC
Confidence 99999875
No 11
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=7.9e-37 Score=333.75 Aligned_cols=282 Identities=17% Similarity=0.258 Sum_probs=232.3
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+++|+|||||.+|.++.+++++|+.++||+|+++++ .+.+ ...++|+||+.|+. ..++++++++++|++|++||
T Consensus 60 ~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~--~~~l-~~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~ 133 (382)
T cd06380 60 SRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFP--TNDL-DDGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLY 133 (382)
T ss_pred hcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCC--cccC-CCCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEE
Confidence 458999999999999999999999999999999988 7776 45779999999963 46899999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcC--ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISN--SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
++++ | ...++.+.+.+++.| +++... .+.... ...|+..+|++||+.++|+||+ .++.+++..+++||+
T Consensus 134 ~~~~-~--~~~~~~~~~~~~~~g~~i~v~~~-~~~~~~----~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~i~~qa~ 204 (382)
T cd06380 134 DSDR-G--LLRLQQLLDYLREKDNKWQVTAR-RVDNVT----DEEEFLRLLEDLDRRKEKRIVL-DCESERLNKILEQIV 204 (382)
T ss_pred CCCc-c--hHHHHHHHHHHhccCCceEEEEE-EecCCC----cHHHHHHHHHHhhcccceEEEE-ECCHHHHHHHHHHHH
Confidence 8776 5 566777888888888 555432 233211 2368999999999999999998 999999999999999
Q ss_pred HcCCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHH
Q 003821 162 EMGLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDS 229 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDA 229 (793)
++||.+++|+||+++.+..+ +.++....+ ..+..++|.++|++.+...++......|+.+++++|||
T Consensus 205 ~~gm~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDa 283 (382)
T cd06380 205 DVGKNRKGYHYILANLGFDDIDLSKFLFGGVNITGFQLVDN-TNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDA 283 (382)
T ss_pred HhhhcccceEEEEccCCcccccHHHhccCceeeEEEeccCC-CCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHH
Confidence 99999999999998322221 222222222 34788999999998876555443344577899999999
Q ss_pred HHHHHHHHhhccC--------------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEE
Q 003821 230 ITVVAKSIDGMTS--------------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIIN 283 (793)
Q Consensus 230 v~~la~Al~~~~~--------------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~ 283 (793)
|+++++|+++++. .|.+|..|.++|++++|+|++|+++||++|++.+..++|++
T Consensus 284 v~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~ 363 (382)
T cd06380 284 VLVMAEAFRSLRRQRGSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVE 363 (382)
T ss_pred HHHHHHHHHHHHHhccccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEE
Confidence 9999999998853 14578999999999999999999999999999889999999
Q ss_pred eecceeEEEEEecCCCCC
Q 003821 284 MVGKKYKEIDFWLPKFGL 301 (793)
Q Consensus 284 ~~~~~~~~VG~w~~~~g~ 301 (793)
++++++++||+|++..|+
T Consensus 364 ~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 364 LKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred ecCCCceEEEEECCCcCc
Confidence 999999999999998875
No 12
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=5.2e-36 Score=326.27 Aligned_cols=254 Identities=17% Similarity=0.263 Sum_probs=218.2
Q ss_pred ccceEEEEc-CC-Chh---hHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCce
Q 003821 4 EKEVKVIVG-ME-TWG---AATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWR 77 (793)
Q Consensus 4 ~~~V~aiiG-p~-~s~---~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~ 77 (793)
+++|+|||| +. +|. .+.+++.+++.++||+|+++++ ++.+++ ..+||+||+.|++..|+.++++++++++|+
T Consensus 78 ~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~--~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~ 155 (377)
T cd06379 78 SNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTR--DSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWN 155 (377)
T ss_pred hcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccC--CccccCccccccEEEecCCHHHHHHHHHHHHHHcCCe
Confidence 368999973 33 333 4778889999999999999988 777765 358999999999999999999999999999
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcCc----eeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISNS----EIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
+|++||++++|| .+.++.+++.+++.|+ +++..+.+++.. .++..+++++++.++|+||+ +++.+++
T Consensus 156 ~vaii~~~~~~g--~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~------~d~~~~l~~ik~~~~~vIvl-~~~~~~~ 226 (377)
T cd06379 156 KVILLVSDDHEG--RAAQKRFETLLEEREIEFKIKVEKVVEFEPGE------KNVTSLLQEAKELTSRVILL-SASEDDA 226 (377)
T ss_pred EEEEEEEcCcch--hHHHHHHHHHHHhcCCccceeeeEEEecCCch------hhHHHHHHHHhhcCCeEEEE-EcCHHHH
Confidence 999999999999 9999999999999999 888777776654 68999999999999999998 9999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEEeCCcccc-------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 154 IHLFREAKEMGLVGPDSVWVIASDTITS-------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 154 ~~~l~~a~~~g~~~~~~~wi~~~~~~~~-------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
..++++|+++||.+++|+||.+ +.+.. ++|+... .+..+++++
T Consensus 227 ~~l~~qa~~~g~~~~~~~wi~t-~~~~~~~~~~~g~~g~~~~-----------------------------~~~~~~~~~ 276 (377)
T cd06379 227 AVIYRNAGMLNMTGEGYVWIVS-EQAGAARNAPDGVLGLQLI-----------------------------NGKNESSHI 276 (377)
T ss_pred HHHHHHHHHcCCCCCCEEEEEe-ccccccccCCCceEEEEEC-----------------------------CCCCHHHHH
Confidence 9999999999999999999999 55432 1111110 112357899
Q ss_pred hHHHHHHHHHHhhccC----------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeE
Q 003821 227 YDSITVVAKSIDGMTS----------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYK 290 (793)
Q Consensus 227 YDAv~~la~Al~~~~~----------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~ 290 (793)
||||+++|+|++++.. .|..|..++++|++++|+|+||+|.||++|++.++.|+|+++++.+++
T Consensus 277 yDAV~~~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~ 356 (377)
T cd06379 277 RDAVAVLASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLV 356 (377)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCce
Confidence 9999999999998732 245688999999999999999999999999998889999999999999
Q ss_pred EEEEecCC
Q 003821 291 EIDFWLPK 298 (793)
Q Consensus 291 ~VG~w~~~ 298 (793)
+||.|++.
T Consensus 357 ~VG~w~~~ 364 (377)
T cd06379 357 QVGLYNGD 364 (377)
T ss_pred EeeEEcCc
Confidence 99999873
No 13
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=3e-36 Score=326.66 Aligned_cols=266 Identities=19% Similarity=0.316 Sum_probs=221.9
Q ss_pred CcccceEEEEcCCChhh---HHHHHHhccCCCccEEeeeCCCCCCCC-CC-CCCCeEEEecCChHHHHHHHHHHHhhcCc
Q 003821 2 IKEKEVKVIVGMETWGA---ATMVADIGSRAQVPVLSFAEPAIAPPL-TS-TRWPFLVRMANSSAEQITCTAALVGSYNW 76 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~---~~~va~i~~~~~iP~Is~~~~~~~~~l-~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w 76 (793)
+.+++|.+|+||.+|+. +.+++++++.++||+|+++++ ++.+ ++ ..+||+||+.|++..|++++++++++|||
T Consensus 59 l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~--~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w 136 (362)
T cd06367 59 LVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGR--ESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDW 136 (362)
T ss_pred hcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeecc--ccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCC
Confidence 44568999999999998 999999999999999999998 7777 53 67899999999999999999999999999
Q ss_pred eEEEEEEEcCCCccccccHHHHHHHHHhcCce--eeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 77 RKVIIIYEDDATNADTGNLALLSEALQISNSE--IEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~--v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
++|++||++++|| .++++.+++.+++.|+| ++....++... ..++...+.++++.++|+||+ +|+.+++.
T Consensus 137 ~~vaii~~~~~~g--~~~~~~l~~~l~~~g~~~~i~~~~~~~~~~-----~~~~~~~l~~l~~~~~~vivl-~~~~~~~~ 208 (362)
T cd06367 137 HQFSVVTSRDPGY--RDFLDRVETTLEESFVGWEFQLVLTLDLSD-----DDGDARLLRQLKKLESRVILL-YCSKEEAE 208 (362)
T ss_pred eEEEEEEEcCccc--HHHHHHHHHHHHhcccceeeeeeEEeccCC-----CcchHHHHHHHHhcCCcEEEE-eCCHHHHH
Confidence 9999999999999 99999999999999999 77666666543 125778888899889999988 99999999
Q ss_pred HHHHHHHHcCCCCCCeEEEEeCCcccc-ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHH
Q 003821 155 HLFREAKEMGLVGPDSVWVIASDTITS-ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVV 233 (793)
Q Consensus 155 ~~l~~a~~~g~~~~~~~wi~~~~~~~~-~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~l 233 (793)
.++++|.++||++++|+||++ +.... ....... +. ....+. ...+..+++++||||+++
T Consensus 209 ~il~~a~~~g~~~~~~~wI~~-~~~~~~~~~~~~~-~~---G~~g~~---------------~~~~~~~~~~~~Dav~~~ 268 (362)
T cd06367 209 RIFEAAASLGLTGPGYVWIVG-ELALGSGLAPEGL-PV---GLLGVG---------------LDTWYSLEARVRDAVAIV 268 (362)
T ss_pred HHHHHHHHcCCCCCCcEEEEC-cccccccCCccCC-CC---eeEEEE---------------ecccccHHHHHHHHHHHH
Confidence 999999999999999999999 66542 1110000 00 000000 001134678999999999
Q ss_pred HHHHhhccCC------------------CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEee-cceeEEEEE
Q 003821 234 AKSIDGMTSD------------------NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMV-GKKYKEIDF 294 (793)
Q Consensus 234 a~Al~~~~~~------------------~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~~~~~VG~ 294 (793)
|+|++++... |.+|..|.++|++++|.|++|+|+||++|++.++.|+|++++ +.+|++||.
T Consensus 269 a~Al~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~ 348 (362)
T cd06367 269 ARAAESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGS 348 (362)
T ss_pred HHHHHHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEE
Confidence 9999987321 467889999999999999999999999999988899999999 788999999
Q ss_pred ecC
Q 003821 295 WLP 297 (793)
Q Consensus 295 w~~ 297 (793)
|++
T Consensus 349 W~~ 351 (362)
T cd06367 349 WEN 351 (362)
T ss_pred EcC
Confidence 985
No 14
>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=100.00 E-value=1.4e-35 Score=322.93 Aligned_cols=279 Identities=17% Similarity=0.223 Sum_probs=233.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC--CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS--TRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~--~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
+++|.|||||.||..+.+++++|+.++||+|+++++ ++.+++ ..|||+||+.|++..++.++++++++|+|++|++
T Consensus 65 ~~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~--~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vai 142 (387)
T cd06386 65 ARKPDLILGPVCEYAAAPVARLASHWNIPMISAGAL--AAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALL 142 (387)
T ss_pred hhCCCEEECCCCccHHHHHHHHHHhCCCcEEccccC--chhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEE
Confidence 368999999999999999999999999999999988 777764 4588899999999999999999999999999999
Q ss_pred EEEcCCCcccccc---HHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGN---LALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~---~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
||++++|| ++. ++.+.+.+++.|++|+....++..+ .++...|+++++.+ |+||+ +++.+.+..+++
T Consensus 143 iy~~~~~~--~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~~------~d~~~~l~~ik~~~-rvii~-~~~~~~~~~ll~ 212 (387)
T cd06386 143 VYEDDKQE--RNCYFTLEGVHHVFQEEGYHMSIYPFDETKD------LDLDEIIRAIQASE-RVVIM-CAGADTIRSIML 212 (387)
T ss_pred EEEcCCCC--ccceehHHHHHHHHHhcCceEEEEecCCCCc------ccHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHH
Confidence 99999998 776 8899999999999988764443333 57899999999877 99998 889999999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc------------------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCC
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPED 214 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 214 (793)
+|+++||++.+|+||.. +...+ +.++....+. .|.+++|.+++++++.......
T Consensus 213 ~A~~~gm~~~~yv~i~~-d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~-~~~~~~f~~~~~~~~~~~~~~~ 290 (387)
T cd06386 213 AAHRRGLTSGDYIFFNI-ELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV-KPEFEKFSMEVKSSVEKAGDLN 290 (387)
T ss_pred HHHHcCCCCCCEEEEEE-ecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC-ChHHHHHHHHHHHHHHhCCCCc
Confidence 99999999999999999 66531 1111111121 3678889999886665431111
Q ss_pred CCCCcchhhHhHhHHHHHHHHHHhhc---cCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec---ce
Q 003821 215 DVSEPGIYALRAYDSITVVAKSIDGM---TSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG---KK 288 (793)
Q Consensus 215 ~~~~~~~~a~~~YDAv~~la~Al~~~---~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~---~~ 288 (793)
+...++.+++++||||+++|+||+++ +..+.+|..|.++|++++|+|++|++.||++|+|. ..+.|+.+++ ++
T Consensus 291 ~~~~~~~~aa~~yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~ 369 (387)
T cd06386 291 DCDYVNMFVEGFHDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGT 369 (387)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCcc
Confidence 12346688999999999999999998 54457899999999999999999999999999984 5999999864 56
Q ss_pred eEEEEEecC
Q 003821 289 YKEIDFWLP 297 (793)
Q Consensus 289 ~~~VG~w~~ 297 (793)
++.||.|..
T Consensus 370 ~~~~~~~~~ 378 (387)
T cd06386 370 YEVVGNYFG 378 (387)
T ss_pred EEEEeEEcc
Confidence 999999975
No 15
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=3.9e-35 Score=316.97 Aligned_cols=287 Identities=17% Similarity=0.244 Sum_probs=218.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEee----eCCCC---CCCCC--CCCCCeEEEecCChHHHHHHHHHHHhhc
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSF----AEPAI---APPLT--STRWPFLVRMANSSAEQITCTAALVGSY 74 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~----~~~~~---~~~l~--~~~~~~~~r~~p~~~~~~~ai~~ll~~~ 74 (793)
++||.|||||.++..+..++.+|+.++||+|++ +++.. .+.++ ...||+++| |+ ..+++|+++++++|
T Consensus 60 ~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f 136 (400)
T cd06391 60 NQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEY 136 (400)
T ss_pred hCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHc
Confidence 578999999999999999999999999999985 33300 03333 234555555 65 67899999999999
Q ss_pred CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCC-hHHHHH-HHHHhhc--CCceEEEEeccCh
Q 003821 75 NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDP-KQFLQE-KLLKLLR--TESRVFIILQSSL 150 (793)
Q Consensus 75 ~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~-~~~~~~-~l~~l~~--~~~~vivvl~~~~ 150 (793)
+|++|+++|+ ++|| ...++.+.+.+++.|+||.... +.... .++ ...+.. .+++|++ ...++||+ +|++
T Consensus 137 ~W~~v~i~~d-~~~~--~~~l~~l~~~~~~~~i~I~~~~-~~~~~--~~~~~~~~~~~~~~~l~~~~~~~rviVl-~~~~ 209 (400)
T cd06391 137 AWQKFIIFYD-TDYD--IRGIQEFLDKVSQQGMDVALQK-VENNI--NKMITGLFRTMRIEELNRYRDTLRRAIL-VMNP 209 (400)
T ss_pred CCcEEEEEEe-CCcc--HHHHHHHHHHHHHcCCeEEEEe-cCcch--hhhhHHHHHHHHHHHHHhhcccccEEEE-ECCc
Confidence 9999998655 5567 7888999999999999998642 22211 000 011222 4455554 55688888 9999
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCCccccc--------------eeecccccCCchhhhHHHHHHHHhhhhcC--CCC
Q 003821 151 AMGIHLFREAKEMGLVGPDSVWVIASDTITSA--------------LGIKTHFSQDSSSYKIFEDQFRSYFRSEY--PED 214 (793)
Q Consensus 151 ~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~--------------~g~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~ 214 (793)
+.+..++++|+++||++++|+||++ +++.+. .+++++.+.. ....+|..+|.+++...+ |..
T Consensus 210 ~~~~~ll~~a~~~gm~~~~y~wi~t-~~~~~~~dl~~~~~~~~~~v~~~r~~~~~~-~~~~~~~~r~~~~~~~~~~~~~~ 287 (400)
T cd06391 210 ATAKSFITEVVETNLVAFDCHWIII-NEEISDMDVQELVRRSIGRLTIIRQTFPLP-QNISQRCFRGNHRISSSLCDPKD 287 (400)
T ss_pred HHHHHHHHHHHHcCCCCCCeEEEEe-CccccccccchHHhcccceEEEeccCCchH-HHHHHHHHHHhhhccccccCccc
Confidence 9999999999999999999999999 786652 2244433332 456667777776653322 222
Q ss_pred CC-CCcchhhHhHhHHHHHHHHHHhhccC------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCC
Q 003821 215 DV-SEPGIYALRAYDSITVVAKSIDGMTS------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLN 275 (793)
Q Consensus 215 ~~-~~~~~~a~~~YDAv~~la~Al~~~~~------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~ 275 (793)
.. ..++.+++++||||+++|+|++++.. .|..|..|+++|++++|+|+||+++|+++|+|.
T Consensus 288 ~~~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~ 367 (400)
T cd06391 288 PFAQMMEISNLYIYDTVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNP 367 (400)
T ss_pred cccccccchhhHHHHHHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCcc
Confidence 21 23568999999999999999997621 356799999999999999999999999999999
Q ss_pred CCcEEEEEee-----cceeEEEEEecCCCCCc
Q 003821 276 SPILRIINMV-----GKKYKEIDFWLPKFGLS 302 (793)
Q Consensus 276 ~~~~~I~~~~-----~~~~~~VG~w~~~~g~~ 302 (793)
++.++|+|+. ++++++||+|++..|++
T Consensus 368 ~~~~dIin~~~~~~~~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 368 NVHFEILGTNYGEDLGRGVRKLGCWNPITGLN 399 (400)
T ss_pred CCceEEEEeeccccCCCcceEEEEEcCCcCCC
Confidence 9999999996 88899999999998864
No 16
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=4.9e-35 Score=318.42 Aligned_cols=267 Identities=16% Similarity=0.221 Sum_probs=225.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++|.|||||.+|+.+.+++++++.++||+|+++++ ++.+++ .++|||||+.|+|..|+++++++++++||++|++|+
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~at--s~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~ 179 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYAST--AEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIII 179 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcC--CcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEE
Confidence 58999999999999999999999999999999999 899985 678999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCC-ChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTD-PKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~-~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
++|+|| +++.+.|++++++.|+||+..+.++......+ ...++...++.+++.++||||+ .+..+++..++++|++
T Consensus 180 ~~d~yG--~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv-~~~~~~~~~l~~~a~~ 256 (403)
T cd06361 180 TDDDYG--RSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV-FARQFHVFLLFNKAIE 256 (403)
T ss_pred ecCchH--HHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE-EeChHHHHHHHHHHHH
Confidence 999999 99999999999999999999888876431111 1134555566688889999999 9999999999999999
Q ss_pred cCCCCCCeEEEEeCCcccc---------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 163 MGLVGPDSVWVIASDTITS---------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~---------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
+|+ +++||.+ +++.. .+++.. ..+...+|.+.+++.+ ...+|
T Consensus 257 ~g~---~~~wigs-~~w~~~~~~~~~~~~~~~~g~ig~~~----~~~~~~~F~~~~~~~~---------------~~~v~ 313 (403)
T cd06361 257 RNI---NKVWIAS-DNWSTAKKILTDPNVKKIGKVVGFTF----KSGNISSFHQFLKNLL---------------IHSIQ 313 (403)
T ss_pred hCC---CeEEEEE-CcccCccccccCCcccccceEEEEEe----cCCccchHHHHHHHhh---------------HHHHH
Confidence 999 4799999 44432 222222 1255677777777654 34689
Q ss_pred HHHHHHHHHHhhccC-------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecce----eEEEEEec
Q 003821 228 DSITVVAKSIDGMTS-------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKK----YKEIDFWL 296 (793)
Q Consensus 228 DAv~~la~Al~~~~~-------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~----~~~VG~w~ 296 (793)
|||+++|+||++++. ...++++|+++|++++|.|.+|.+.||++|+. ...|+|+++++++ +++||.|+
T Consensus 314 ~AVyaiA~Al~~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~ 392 (403)
T cd06361 314 LAVFALAHAIRDLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYD 392 (403)
T ss_pred HHHHHHHHHHHHhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEe
Confidence 999999999999872 12578999999999999999889999999995 6789999999643 79999999
Q ss_pred CCCC
Q 003821 297 PKFG 300 (793)
Q Consensus 297 ~~~g 300 (793)
+.+.
T Consensus 393 ~~~~ 396 (403)
T cd06361 393 PQND 396 (403)
T ss_pred CCCC
Confidence 8653
No 17
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; 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=100.00 E-value=2.6e-34 Score=320.53 Aligned_cols=281 Identities=20% Similarity=0.293 Sum_probs=224.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++|+|||||.+|..+.+++++++.++||+|+++++ ++.+++ ..+|||||+.|++..|++|+++++++|+|++|++||
T Consensus 102 ~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~at--s~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~ 179 (463)
T cd06376 102 EKVVGVIGASASSVSIMVANILRLFQIPQISYAST--APELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLA 179 (463)
T ss_pred CCeEEEECCCCchHHHHHHHHhccccCcccccccC--ChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEE
Confidence 68999999999999999999999999999999998 888875 568999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhc-CCceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR-TESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
++++|| ...++.+.+.+++. |++|.....++... ...|+..+|++|++ .++|+||+ ++..+++..++++|+
T Consensus 180 ~~~~yg--~~~~~~~~~~~~~~g~~~v~~~~~i~~~~----~~~d~~~~l~~ik~~~~~~vIvl-~~~~~~~~~ll~~a~ 252 (463)
T cd06376 180 SEGNYG--ESGVEAFTQISREAGGVCIAQSIKIPREP----RPGEFDKIIKRLLETPNARAVII-FANEDDIRRVLEAAK 252 (463)
T ss_pred eCChHH--HHHHHHHHHHHHHcCCceEEEEEecCCCC----CHHHHHHHHHHHhccCCCeEEEE-ecChHHHHHHHHHHH
Confidence 999999 99999999999887 46876655544322 23689999999987 69999998 899999999999999
Q ss_pred HcCCCCCCeEEEEeCCcccc--------------ceeecccccC--------------CchhhhHHHHHHHHhhhhcCC-
Q 003821 162 EMGLVGPDSVWVIASDTITS--------------ALGIKTHFSQ--------------DSSSYKIFEDQFRSYFRSEYP- 212 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~--------------~~~~~~~f~~~~~~~~~~~~~- 212 (793)
++|+.+ .++||.+ +++.. ++++.+.... .++....|.+.|+..|.|..+
T Consensus 253 ~~~~~g-~~~wig~-d~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~~~~~w~~~f~c~~~~ 330 (463)
T cd06376 253 RANQVG-HFLWVGS-DSWGAKISPILQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVWFAEFWEENFNCKLTI 330 (463)
T ss_pred hcCCcC-ceEEEEe-ccccccccccccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcHHHHHHHHhCCCcccC
Confidence 999975 5899998 55321 3333222111 112233455567776665432
Q ss_pred -C---------CCCC---------CcchhhHhHhHHHHHHHHHHhhccC-------------CCCChhhHHHhhhhcccc
Q 003821 213 -E---------DDVS---------EPGIYALRAYDSITVVAKSIDGMTS-------------DNSSSKISLGYILSSNFT 260 (793)
Q Consensus 213 -~---------~~~~---------~~~~~a~~~YDAv~~la~Al~~~~~-------------~~~~g~~l~~~l~~~~f~ 260 (793)
. +.+. .....++++||||+++|+|||++.. .+.+|.+|+++|++++|.
T Consensus 331 ~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C~~~~~~~~~~l~~~L~~v~F~ 410 (463)
T cd06376 331 SGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVCPEMEPADGKKLLKYIRAVNFN 410 (463)
T ss_pred CCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCccCCCCCHHHHHHHHHhCCcc
Confidence 0 0000 0122688999999999999998741 135688999999999999
Q ss_pred ccee-eEEEeCCCcCCCCcEEEEEeec-----ceeEEEEEecC
Q 003821 261 GLSG-PISFRGGKLLNSPILRIINMVG-----KKYKEIDFWLP 297 (793)
Q Consensus 261 G~tG-~i~Fd~~g~~~~~~~~I~~~~~-----~~~~~VG~w~~ 297 (793)
|.+| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 411 g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 411 GSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred CCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 9999 79999999974 4799988883 35899999986
No 18
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=3.1e-34 Score=318.94 Aligned_cols=282 Identities=16% Similarity=0.225 Sum_probs=225.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++|+|||||.+|..+.+++++++.++||+|+++++ ++.+++ .+||||||+.|++..|+.|+++++++|+|++|++|+
T Consensus 102 ~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~st--s~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~ 179 (469)
T cd06365 102 RKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPF--DPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVI 179 (469)
T ss_pred CceEEEEcCCccHHHHHHHHHhhhhcccceeeccC--CccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEE
Confidence 67999999999999999999999999999999998 888874 578999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
+|++|| ...++.|.+++++.|+||+....++... .+...++...+++++++++|+||+ ++..+++..++.++.+.
T Consensus 180 ~d~~yg--~~~~~~~~~~~~~~gi~I~~~~~i~~~~--~~~~~~~~~~l~~i~~~~arvIvl-~~~~~~~~~l~~~~~~~ 254 (469)
T cd06365 180 SDDDRG--EQFLSDLREEMQRNGICLAFVEKIPVNM--QLYLTRAEKYYNQIMTSSAKVIII-YGDTDSLLEVSFRLWQY 254 (469)
T ss_pred ecChhH--HHHHHHHHHHHHHCCeEEEEEEEecCCc--hhhHHHHHHHHHHhhcCCCeEEEE-EcCcHHHHHHHHHHHHh
Confidence 999999 9999999999999999999988887654 112247888999999999999999 88888887766555555
Q ss_pred CCCCCCeEEEEeCCcccc--------------ceeecccccCCchhhhHHH---------------HHHHHhhhhcCC--
Q 003821 164 GLVGPDSVWVIASDTITS--------------ALGIKTHFSQDSSSYKIFE---------------DQFRSYFRSEYP-- 212 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~~~~~~~f~---------------~~~~~~~~~~~~-- 212 (793)
+.. +++||.+ ++... ++|+.+..+.. |.+++|. +-|+..|.|..+
T Consensus 255 ~~~--~~~wi~s-~~w~~~~~~~~~~~~~~~G~lg~~~~~~~~-~~f~~fl~~l~~~~~~~npw~~efwe~~f~c~~~~~ 330 (469)
T cd06365 255 LLI--GKVWITT-SQWDVTTSPKDFTLNSFHGTLIFSHHHSEI-PGFKDFLQTVNPSKYPEDIFLEKLWWIYFNCSLSKS 330 (469)
T ss_pred ccC--ceEEEee-ccccccccccccccceeeEEEEEEeccCcC-cchHHHhhccCcccCCCccHHHhhHhHhcCcccCcC
Confidence 543 5799998 44321 56666554433 5555544 345555554311
Q ss_pred ------CCC---C----------CCcchhhHhHhHHHHHHHHHHhhccCC-------------CCChhhHHHhhhhcccc
Q 003821 213 ------EDD---V----------SEPGIYALRAYDSITVVAKSIDGMTSD-------------NSSSKISLGYILSSNFT 260 (793)
Q Consensus 213 ------~~~---~----------~~~~~~a~~~YDAv~~la~Al~~~~~~-------------~~~g~~l~~~l~~~~f~ 260 (793)
.+. . ......+..+||||+++|+|||++... ..++.+|++.|++++|.
T Consensus 331 ~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~~~~~~~~~~~l~~~l~~v~F~ 410 (469)
T cd06365 331 SCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENNGKRLIFLPWQLHSFLKNIQFK 410 (469)
T ss_pred CccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCCCCCCCccHHHHHHHHHhcccc
Confidence 010 0 001335788999999999999998531 14578899999999999
Q ss_pred ccee-eEEEeCCCcCCCCcEEEEEeec--c---eeEEEEEecCC
Q 003821 261 GLSG-PISFRGGKLLNSPILRIINMVG--K---KYKEIDFWLPK 298 (793)
Q Consensus 261 G~tG-~i~Fd~~g~~~~~~~~I~~~~~--~---~~~~VG~w~~~ 298 (793)
|.+| .+.||++|+. ...|+|++++. + .+++||.|++.
T Consensus 411 ~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 411 NPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred CCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 9999 6999999995 67999999972 2 37999999864
No 19
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. 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=100.00 E-value=2.9e-34 Score=320.73 Aligned_cols=282 Identities=16% Similarity=0.218 Sum_probs=223.9
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+.+|.|||||.+|.++.+++++++.++||+|+++++ ++.+++ ..+||+||+.|++..|+.++++++++|+|++|++|
T Consensus 115 ~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~at--s~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii 192 (472)
T cd06374 115 KKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSAT--SIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAV 192 (472)
T ss_pred CCCeEEEECCCcchHHHHHHHHhhhhcccccccccC--chhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEE
Confidence 458999999999999999999999999999999998 888875 47899999999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~l~~a 160 (793)
|++++|| ....+.+.+.+++.|+||+....++... ...++..+|.+|++++ ++||++ ++...++..++++|
T Consensus 193 ~~~~~yg--~~~~~~~~~~~~~~gi~i~~~~~i~~~~----~~~d~~~~l~~lk~~~~da~vvv~-~~~~~~~~~~l~~a 265 (472)
T cd06374 193 HTEGNYG--ESGMEAFKELAAHEGLCIAHSDKIYSNA----GEQSFDRLLRKLRSRLPKARVVVC-FCEGMTVRGLLMAM 265 (472)
T ss_pred EecchHH--HHHHHHHHHHHHHCCeeEEEEEEecCCC----chHHHHHHHHHHHhcCCCcEEEEE-EechHHHHHHHHHH
Confidence 9999999 9999999999999999999887775422 2368999999999764 455555 67788899999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhH---------------HHHHHHHhhhhcCC
Q 003821 161 KEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKI---------------FEDQFRSYFRSEYP 212 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~---------------f~~~~~~~~~~~~~ 212 (793)
+++|+. ..++||.+..|... ++++....+.. +.+++ |.+.|+..|.+..+
T Consensus 266 ~~~g~~-~~~~wi~s~~~~~~~~~~~~~~~~~~G~l~~~~~~~~~-~~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~ 343 (472)
T cd06374 266 RRLGVG-GEFQLIGSDGWADRDDVVEGYEEEAEGGITIKLQSPEV-PSFDDYYLKLRPETNTRNPWFREFWQHRFQCRLP 343 (472)
T ss_pred HHhcCC-CceEEEEecccccchHhhhcchhhhheeEEEEecCCCC-ccHHHHHHhCCcccCCCChHHHHHHHHhcCCCcC
Confidence 999996 45799999433321 34443332221 23333 44556666665431
Q ss_pred CC-----------CCC-------CcchhhHhHhHHHHHHHHHHhhccC-------------CCCChhhHHHhhhhccccc
Q 003821 213 ED-----------DVS-------EPGIYALRAYDSITVVAKSIDGMTS-------------DNSSSKISLGYILSSNFTG 261 (793)
Q Consensus 213 ~~-----------~~~-------~~~~~a~~~YDAv~~la~Al~~~~~-------------~~~~g~~l~~~l~~~~f~G 261 (793)
.. .+. ....+++++|||||++|+|||++.. ...+|..|+++|++++|.|
T Consensus 344 ~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g 423 (472)
T cd06374 344 GHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGHVGLCDAMKPIDGRKLLEYLLKTSFSG 423 (472)
T ss_pred CccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCCCCCCHHHHHHHHHhCcccC
Confidence 10 000 1124566999999999999998741 1245889999999999999
Q ss_pred cee-eEEEeCCCcCCCCcEEEEEeec-----ceeEEEEEecC
Q 003821 262 LSG-PISFRGGKLLNSPILRIINMVG-----KKYKEIDFWLP 297 (793)
Q Consensus 262 ~tG-~i~Fd~~g~~~~~~~~I~~~~~-----~~~~~VG~w~~ 297 (793)
++| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 424 ~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 424 VSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 999 79999999975 5899999994 25899999975
No 20
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=8e-34 Score=316.92 Aligned_cols=285 Identities=18% Similarity=0.279 Sum_probs=227.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++|.|||||.+|+++.++++++..++||+|+++++ ++.+++ .++||+||+.|++..|+.++++++++++|++|++||
T Consensus 102 ~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~st--s~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~ 179 (452)
T cd06362 102 KPVAGVIGASYSSVSIQVANLLRLFKIPQISYAST--SPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVA 179 (452)
T ss_pred CCeEEEECCCCCchHHHHHHHhccccCcccccccC--chhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEE
Confidence 68999999999999999999999999999999998 888875 578999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhc-CCceEEEEeccChHHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR-TESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
++++|| .+..+.+.+.+++.|+||+....++... ...++..++.+|++ .++|+||+ .+..+++..++++|++
T Consensus 180 ~~~~~G--~~~~~~~~~~~~~~gi~i~~~~~~~~~~----~~~d~~~~l~~l~~~~~a~viil-~~~~~~~~~~~~~a~~ 252 (452)
T cd06362 180 SEGNYG--EKGIEAFEKLAAERGICIAGSEKIPSSA----TEEEFDNIIRKLLSKPNARVVVL-FCREDDIRGLLAAAKR 252 (452)
T ss_pred eCCHHH--HHHHHHHHHHHHHCCeeEEEEEEcCCCC----CHHHHHHHHHHHhhcCCCeEEEE-EcChHHHHHHHHHHHH
Confidence 999999 9999999999999999999887776532 23789999999987 47999888 8999999999999999
Q ss_pred cCCCCCCeEEEEeCCcccc--------------ceeecccccCC--------------chhhhHHHHHHHHhhhhcCCCC
Q 003821 163 MGLVGPDSVWVIASDTITS--------------ALGIKTHFSQD--------------SSSYKIFEDQFRSYFRSEYPED 214 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~--------------~~~~~~f~~~~~~~~~~~~~~~ 214 (793)
+|+. ..++||.+ +++.. ++++.+..... .+.-..|.+.|+..|.+..+..
T Consensus 253 ~g~~-~~~~~i~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~ 330 (452)
T cd06362 253 LNAE-GHFQWIAS-DGWGARNSVVEGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWFREFWEQKFNCKLTGN 330 (452)
T ss_pred cCCc-CceEEEEe-ccccccchhhcccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHHHHHHHHhcCCCcCCC
Confidence 9998 45799998 44332 12221111110 1111223334444454321110
Q ss_pred CC----------------CCcchhhHhHhHHHHHHHHHHhhccC-------------CCCChhhHHHhhhhccccccee-
Q 003821 215 DV----------------SEPGIYALRAYDSITVVAKSIDGMTS-------------DNSSSKISLGYILSSNFTGLSG- 264 (793)
Q Consensus 215 ~~----------------~~~~~~a~~~YDAv~~la~Al~~~~~-------------~~~~g~~l~~~l~~~~f~G~tG- 264 (793)
.. .....+++++||||+++|+||+++.. .+.+|..|.++|++++|.|++|
T Consensus 331 ~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~f~g~tg~ 410 (452)
T cd06362 331 GSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMKPIDGRKLLFYLRNVSFSGLAGG 410 (452)
T ss_pred CccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCccCCCHHHHHHHHHhCCcCCCCCc
Confidence 00 11244789999999999999998741 2357889999999999999998
Q ss_pred eEEEeCCCcCCCCcEEEEEeec----ceeEEEEEecCCCCC
Q 003821 265 PISFRGGKLLNSPILRIINMVG----KKYKEIDFWLPKFGL 301 (793)
Q Consensus 265 ~i~Fd~~g~~~~~~~~I~~~~~----~~~~~VG~w~~~~g~ 301 (793)
.|.||++|++. ..|+|++++. .++++||.|++..|+
T Consensus 411 ~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 411 PVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred eEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 89999999974 5999999984 358999999987764
No 21
>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=100.00 E-value=2.3e-33 Score=310.59 Aligned_cols=279 Identities=17% Similarity=0.262 Sum_probs=225.6
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+++|+|||||.+|..+.+++++++.++||+|+++++ ++.+++ .++|||||+.|+|..|++|+++++++|||++|++|
T Consensus 103 ~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~st--s~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii 180 (458)
T cd06375 103 PLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYAST--SAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTV 180 (458)
T ss_pred CCCeEEEEcCCCchHHHHHHHHhhhccccceeeccC--ChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEE
Confidence 458999999999999999999999999999999999 888875 57899999999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhc-CCceEEEEeccChHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR-TESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
|++++|| ...++.+++.+++.|+||+..+.++... ...++..+++++++ .++||||+ ++..+++..++++|+
T Consensus 181 ~~~~~yG--~~~~~~~~~~~~~~gi~i~~~~~i~~~~----~~~d~~~~l~~l~~~~~a~vVvl-~~~~~~~~~ll~~a~ 253 (458)
T cd06375 181 ASEGDYG--ETGIEAFEQEARLRNICIATSEKVGRSA----DRKSYDSVIRKLLQKPNARVVVL-FTRSEDARELLAAAK 253 (458)
T ss_pred EeCchHH--HHHHHHHHHHHHHCCeeEEEEEEecCCC----CHHHHHHHHHHHhccCCCEEEEE-ecChHHHHHHHHHHH
Confidence 9999999 9999999999999999999888886533 23689999999875 58999998 899999999999999
Q ss_pred HcCCCCCCeEEEEeCCcccc--------------ceeecccccCCchhhhH---------------HHHHHHHhhhhcCC
Q 003821 162 EMGLVGPDSVWVIASDTITS--------------ALGIKTHFSQDSSSYKI---------------FEDQFRSYFRSEYP 212 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~~~~~~~---------------f~~~~~~~~~~~~~ 212 (793)
++|+. ..||.+ ++... ++|+.+..... +.+++ |.+-|+..|.|..+
T Consensus 254 ~~g~~---~~wigs-~~~~~~~~~~~~~~~~~~G~i~~~~~~~~i-~~f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~ 328 (458)
T cd06375 254 RLNAS---FTWVAS-DGWGAQESIVKGSEDVAEGAITIELASHPI-PDFDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQ 328 (458)
T ss_pred HcCCc---EEEEEe-ccccccchhhhccchhhceEEEEEeccccc-hhHHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCC
Confidence 99996 689998 44321 34443332111 33333 44456666765432
Q ss_pred CCC-------C---------CCcchhhHhHhHHHHHHHHHHhhccC-------------CCCChhhHH-Hhhhhcccc--
Q 003821 213 EDD-------V---------SEPGIYALRAYDSITVVAKSIDGMTS-------------DNSSSKISL-GYILSSNFT-- 260 (793)
Q Consensus 213 ~~~-------~---------~~~~~~a~~~YDAv~~la~Al~~~~~-------------~~~~g~~l~-~~l~~~~f~-- 260 (793)
... + ......+.++||||+++|+|||++.. ...++.+++ +.|++++|.
T Consensus 329 ~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~~~~~~~~~l~~~~L~~v~F~~~ 408 (458)
T cd06375 329 NRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDAMKPLDGKKLYKEYLLNVSFTAP 408 (458)
T ss_pred CCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHHHhcccccc
Confidence 110 0 01234688999999999999999852 114577889 599999999
Q ss_pred ---ccee-eEEEeCCCcCCCCcEEEEEeec--c--e--eEEEEEecC
Q 003821 261 ---GLSG-PISFRGGKLLNSPILRIINMVG--K--K--YKEIDFWLP 297 (793)
Q Consensus 261 ---G~tG-~i~Fd~~g~~~~~~~~I~~~~~--~--~--~~~VG~w~~ 297 (793)
|.+| .+.||++|+. ...|+|+|++. + . +++||.|+.
T Consensus 409 ~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 409 FRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred ccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 8888 7999999995 67999999993 2 2 789999964
No 22
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=4.9e-33 Score=311.11 Aligned_cols=282 Identities=18% Similarity=0.235 Sum_probs=224.4
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.+|+|||||.+|.++.++++++..++||+|+++++ ++.+++ ..|||+||+.|++..|++++++++++|+|++|++|+
T Consensus 117 ~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~ss--s~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~ 194 (510)
T cd06364 117 PSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASS--SRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIA 194 (510)
T ss_pred CceEEEECCCchhHHHHHHHHhccccccccccccC--CcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEE
Confidence 46889999999999999999999999999999998 888875 578999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
+|++|| +..++.|++.+++.|+||+....++... ...++.+.+.+++++++||||+ .+..+++..++++|+++
T Consensus 195 ~dd~yG--~~~~~~~~~~~~~~Gi~I~~~~~i~~~~----~~~d~~~~l~klk~~~a~vVvl-~~~~~~~~~ll~qa~~~ 267 (510)
T cd06364 195 ADDDYG--RPGIEKFREEAEERDICIDFSELISQYS----DEEEIQRVVEVIQNSTAKVIVV-FSSGPDLEPLIKEIVRR 267 (510)
T ss_pred ecCcch--HHHHHHHHHHHHHCCcEEEEEEEeCCCC----CHHHHHHHHHHHHhcCCeEEEE-EeCcHHHHHHHHHHHHh
Confidence 999999 9999999999999999999887776532 2468999999999999999998 89999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc--------------ceeecccccCC--------------chhhhHHHHHHHHhhhhcCCC--
Q 003821 164 GLVGPDSVWVIASDTITS--------------ALGIKTHFSQD--------------SSSYKIFEDQFRSYFRSEYPE-- 213 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~--------------~~~~~~f~~~~~~~~~~~~~~-- 213 (793)
|+.++ +||.+..|... ++|+....... .+.-.-|.+.|++.|+|..+.
T Consensus 268 g~~~~--iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~~~~~~~~~~~we~~f~c~~~~~~ 345 (510)
T cd06364 268 NITGK--IWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKKSSHNGFAKEFWEETFNCYLEDSP 345 (510)
T ss_pred CCCCc--EEEEEchhhcccccccCCccceeeEEEEEEECCCcCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCCCCCc
Confidence 99754 89887322211 33333221111 111122334456666654211
Q ss_pred -----------------------------CCCC-------------CcchhhHhHhHHHHHHHHHHhhccCC--------
Q 003821 214 -----------------------------DDVS-------------EPGIYALRAYDSITVVAKSIDGMTSD-------- 243 (793)
Q Consensus 214 -----------------------------~~~~-------------~~~~~a~~~YDAv~~la~Al~~~~~~-------- 243 (793)
+.+. ....++..+||||+++|+|||++...
T Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~ 425 (510)
T cd06364 346 KNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYLAVYSIAHALQDIYTCTPGKGLFT 425 (510)
T ss_pred ccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCcc
Confidence 1000 01234678999999999999998531
Q ss_pred --------CCChhhHHHhhhhccccccee-eEEEeCCCcCCCCcEEEEEeec---c---eeEEEEEecCC
Q 003821 244 --------NSSSKISLGYILSSNFTGLSG-PISFRGGKLLNSPILRIINMVG---K---KYKEIDFWLPK 298 (793)
Q Consensus 244 --------~~~g~~l~~~l~~~~f~G~tG-~i~Fd~~g~~~~~~~~I~~~~~---~---~~~~VG~w~~~ 298 (793)
..++.+|++.|++++|.|.+| .+.||++|+. ...|+|+|++. + .+++||.|++.
T Consensus 426 ~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 426 NGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred CCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCC-ccceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 135789999999999999988 7999999995 67999999993 2 27899999864
No 23
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=6.4e-34 Score=298.46 Aligned_cols=256 Identities=19% Similarity=0.301 Sum_probs=204.1
Q ss_pred ccceEEEEcCCChhh-HHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGA-ATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~-~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
++||+|||||.+|.. +.+++++|+..+||+|+++++. +|.+...++++ +++.|++..|++|+++++++|+|++|++|
T Consensus 63 ~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~-~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~i 140 (333)
T cd06394 63 PKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEE-TPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLI 140 (333)
T ss_pred hcCeEEEECCCCchHHHHHHHHHhhccCCceEEecccc-CcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEE
Confidence 569999999999975 6799999999999999987551 24444444444 79999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
|++|++ +..|++.++..+.. ...++... .+...|+.++|++|+++++++||+ +|+++.+..+++||++
T Consensus 141 Ye~d~~------l~~L~~~l~~~~~~---~~~i~~~~--~~~~~d~~~~L~~ik~~~~~~iVv-~~~~~~a~~il~qa~~ 208 (333)
T cd06394 141 CAKAEC------LLRLEELLRQFLIS---KETLSVRM--LDDSRDPTPLLKEIRDDKTATIII-DANASMSHTILLKASE 208 (333)
T ss_pred EeCcHH------HHHHHHHHHhhccc---CCceeeEE--ccCcccHHHHHHHHHhcCCCEEEE-ECChHHHHHHHHHHHH
Confidence 999985 67777777765431 22222211 112357999999999999999999 9999999999999999
Q ss_pred cCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHH
Q 003821 163 MGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDS 229 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDA 229 (793)
+||+.+.|+|++| +.... +.++... +..++..++|.+.|+++|.+.+.......+...++++|||
T Consensus 209 lGm~~~~y~~i~T-~l~~~~~~L~~~~~~~~niTgF~l~-d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~ 286 (333)
T cd06394 209 LGMTSAFYKYILT-TMDFPLLRLDSIVDDRSNILGFSMF-NQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDA 286 (333)
T ss_pred cCCCCCceEEEEe-cCCcccccHHHhhcCCcceEEEEee-cCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecce
Confidence 9999999999999 55543 2333332 3334889999999998775432221112223578999999
Q ss_pred HHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEEEEEecCCCCCc
Q 003821 230 ITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKEIDFWLPKFGLS 302 (793)
Q Consensus 230 v~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~VG~w~~~~g~~ 302 (793)
|+++ |+||+|+||++|+|.++.++|+++..++.++||+|++..|++
T Consensus 287 v~~~---------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 287 VYAV---------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred EEEE---------------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 9998 999999999999999999999999999999999999988865
No 24
>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=100.00 E-value=1.1e-32 Score=303.20 Aligned_cols=281 Identities=14% Similarity=0.160 Sum_probs=223.8
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEE-E
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVI-I 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va-i 81 (793)
.++|.|||||.||.++.+++++++.++||+|+++++ ++.+++ ..+||+||+.|++..++.++++++++|+|++++ +
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~--~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~i 149 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAP--ALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAML 149 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccC--hhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEE
Confidence 468999999999999999999999999999999998 788875 679999999999999999999999999999998 5
Q ss_pred EEEcCC-Cccccc---cHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 82 IYEDDA-TNADTG---NLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 82 i~~dd~-~G~~~~---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+|.++. +| .. ..+.+.+.+++.|++|+.....+.. ..++..+|+++++.. |+||+ +++.+++..++
T Consensus 150 i~~~~~~~~--~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~------~~d~~~~l~~ik~~~-~iii~-~~~~~~~~~i~ 219 (405)
T cd06385 150 IYSDNKVDD--RPCYFAMEGLYMELKKNNITVVDLVFEEDD------LINYTTLLQDIKQKG-RVIYV-CCSPDIFRRLM 219 (405)
T ss_pred EEecCcccc--cchHHHHHHHHHHHHhCCeEEEEeeccCCc------hhhHHHHHHHHhhcc-eEEEE-eCCHHHHHHHH
Confidence 666554 33 33 4688899999999999876533222 267999999998754 99888 89999999999
Q ss_pred HHHHHcCCCCCCeEEEEeCCcccc---------------------------ceeecccccCCchhhhHHHHHHHHhhhhc
Q 003821 158 REAKEMGLVGPDSVWVIASDTITS---------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSE 210 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~~~~~~~---------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~ 210 (793)
++|+++||.+++|+||.+ ++... ++..... ...++.+++|.++|+++....
T Consensus 220 ~~a~~~g~~~~~y~~i~~-~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~-~~~~~~~~~f~~~~~~~~~~~ 297 (405)
T cd06385 220 LQFWREGLPSEDYVFFYI-DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYK-EPQNPEYKEFLSDLKTDAKEM 297 (405)
T ss_pred HHHHHcCCCCCcEEEEEe-ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCC-CCCChhHHHHHHHHHHHhhcc
Confidence 999999999999999998 44321 1111111 222467888999998763222
Q ss_pred CCCC-CCCCcchhhHhHhHHHHHHHHHHhhc---cCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEe--
Q 003821 211 YPED-DVSEPGIYALRAYDSITVVAKSIDGM---TSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINM-- 284 (793)
Q Consensus 211 ~~~~-~~~~~~~~a~~~YDAv~~la~Al~~~---~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~-- 284 (793)
+... ....|+.+++++||||+++|+|++++ +..+.+|..|.++|++++|+|++|+++||++|+| ...+.++.+
T Consensus 298 ~~~~~~~~~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~~~~~~~ 376 (405)
T cd06385 298 FNFTVEDSLMNIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFALWDMTD 376 (405)
T ss_pred CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeEEEEccC
Confidence 2110 01136789999999999999999987 2223579999999999999999999999999998 467877744
Q ss_pred -ecceeEEEEEecCCC
Q 003821 285 -VGKKYKEIDFWLPKF 299 (793)
Q Consensus 285 -~~~~~~~VG~w~~~~ 299 (793)
++++++.||+|+..+
T Consensus 377 ~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 377 TESGDFQVVSVYNGTQ 392 (405)
T ss_pred CCCCcEEEEEEEcccC
Confidence 678899999998643
No 25
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=3.2e-32 Score=298.26 Aligned_cols=286 Identities=11% Similarity=0.147 Sum_probs=222.0
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.|||||.||+++.+++++++.++||+|+++++ ++.+++ ..+|+++|+.|++..++.++++++++|+|++|+
T Consensus 64 ~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~--s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~va 141 (391)
T cd06372 64 VQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQ--TAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIG 141 (391)
T ss_pred HHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecC--CccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEE
Confidence 44578999999999999999999999999999999988 888874 568999999999999999999999999999999
Q ss_pred EEEEcCC---CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 81 IIYEDDA---TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 81 ii~~dd~---~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+||++++ +|......+.+.+.++ .+++++..+.+++.. .++...+.+.++.++|+||+ +++.+++..++
T Consensus 142 ii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~------~d~~~~~l~~~~~~~~vii~-~~~~~~~~~i~ 213 (391)
T cd06372 142 LFGGSSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSSN------PDLLQEKLRYISSVARVIIL-ICSSEDAKAIL 213 (391)
T ss_pred EEEeccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCCC------hHHHHHHHHhhhccceEEEE-EcChHHHHHHH
Confidence 9997543 3200112334455553 678888887776654 56777776767789999998 89999999999
Q ss_pred HHHHHcCCCCCCeEEEEeCCcccc---------------------ceeecccccCCchhhhHHHHHHHHhhhhcC-CC--
Q 003821 158 REAKEMGLVGPDSVWVIASDTITS---------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEY-PE-- 213 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~~~~~~~---------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~-~~-- 213 (793)
++|+++||.+++|+||.+ ++... ++++........+...+|.++|++++.... ..
T Consensus 214 ~~a~~~g~~~~~y~~i~~-~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~ 292 (391)
T cd06372 214 QAAEKLGLMKGKFVFFLL-QQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSL 292 (391)
T ss_pred HHHHHcCCCCCCEEEEEe-hhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccc
Confidence 999999999888999995 22110 222222222223456788888887765321 00
Q ss_pred CCCCCcchhhHhHhHHHHHHHHHHhhc---cCCCCChhhHHHhhh---hcccccceeeEEEeCCCcCCCCcEEEEEeec-
Q 003821 214 DDVSEPGIYALRAYDSITVVAKSIDGM---TSDNSSSKISLGYIL---SSNFTGLSGPISFRGGKLLNSPILRIINMVG- 286 (793)
Q Consensus 214 ~~~~~~~~~a~~~YDAv~~la~Al~~~---~~~~~~g~~l~~~l~---~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~- 286 (793)
.....++.+++++||||+++|+|++++ +..+.+|..+.++|+ +++|+|+||+|.||++|+| ...|.|+++++
T Consensus 293 ~~~~~~~~~a~~~yDav~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~ 371 (391)
T cd06372 293 SSEEQVSPYSAYLHDAVLLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKS 371 (391)
T ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEecccc
Confidence 011134678999999999999999995 334568899999999 6899999999999999997 67999999975
Q ss_pred ---ceeEEEEEecCCC
Q 003821 287 ---KKYKEIDFWLPKF 299 (793)
Q Consensus 287 ---~~~~~VG~w~~~~ 299 (793)
..++.||.|+...
T Consensus 372 ~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 372 GNSSLFLPFLHYDSHQ 387 (391)
T ss_pred CCccceeeEEEecchh
Confidence 2389999998743
No 26
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.1e-32 Score=294.05 Aligned_cols=266 Identities=17% Similarity=0.283 Sum_probs=207.6
Q ss_pred CCcccceEEEE-cCCChh--hHHHHHHhccCCCccEEeeeCCCCCC-CCC-CCCCCeEEEecCChHHHHHHHHHHHhhcC
Q 003821 1 MIKEKEVKVIV-GMETWG--AATMVADIGSRAQVPVLSFAEPAIAP-PLT-STRWPFLVRMANSSAEQITCTAALVGSYN 75 (793)
Q Consensus 1 Li~~~~V~aii-Gp~~s~--~~~~va~i~~~~~iP~Is~~~~~~~~-~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~ 75 (793)
|+.+.+|.|+| ||.++. .+..++.++++++||+|+++++ ++ .++ ...+|||+|+.|++..|++||++++++|+
T Consensus 57 ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~--s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~ 134 (362)
T cd06378 57 LLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGG--SSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYD 134 (362)
T ss_pred HhcccceEEEEecCCCCccccchhhhhhhhceeccEEEeccc--ccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCC
Confidence 45566799766 999997 5568888999999999999876 44 444 36789999999999999999999999999
Q ss_pred ceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEE--eecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 76 WRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYR--LVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 76 w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~--~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
|++|++||++++++ ..+...+++.+++.++|+... ...+... .......+.++++.++++||+ +|+.+.+
T Consensus 135 W~~v~iV~~~~~g~--~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~-----~~~~~~~l~~lk~~~arViVl-~~s~~~a 206 (362)
T cd06378 135 WHAFSVVTSRFPGY--DDFVSAVRTTVDNSFVGWELQSVLTLDMSD-----DDGDARTQRQLKKLESQVILL-YCSKEEA 206 (362)
T ss_pred CeEEEEEEEcCCCH--HHHHHHHHHHHhhcccceeEEEEEeeccCC-----CcchHHHHHHHHhcCCCEEEE-ECCHHHH
Confidence 99999999999866 777888888777666655433 3332221 123677888899899999999 9999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEEeCCccccce--eecccccCCchhhhHH-HHHHHHhhhhcCCCCCCCCcchhhHhHhHHH
Q 003821 154 IHLFREAKEMGLVGPDSVWVIASDTITSAL--GIKTHFSQDSSSYKIF-EDQFRSYFRSEYPEDDVSEPGIYALRAYDSI 230 (793)
Q Consensus 154 ~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~--g~~~~~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv 230 (793)
..++++|+++||++++|+||++ ++..... ....+ +.. +..+ .++|+. ...+..||||
T Consensus 207 ~~if~~A~~~gm~g~~yvWI~t-~~~~~~~~~~~~~~-~~G---~i~v~~~~w~~---------------~~~a~~~DaV 266 (362)
T cd06378 207 EYIFRAARSAGLTGPGYVWIVP-SLVLGNTDLGPSEF-PVG---LISVSYDGWRY---------------SLRARVRDGV 266 (362)
T ss_pred HHHHHHHHHcCCcCCCeEEEec-ccccCCCccccccC-Ccc---eEeeccccccc---------------cHHHHHHHHH
Confidence 9999999999999999999999 6665431 11111 111 1000 011211 1367889999
Q ss_pred HHHHHHHhhccC------------------CCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec-ceeEE
Q 003821 231 TVVAKSIDGMTS------------------DNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG-KKYKE 291 (793)
Q Consensus 231 ~~la~Al~~~~~------------------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~-~~~~~ 291 (793)
+++|+|++.+.. .|..|..|+++|++++|+|+ +|+||++|++.++.++|+++.+ .+|++
T Consensus 267 ~vva~Al~~l~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~k 344 (362)
T cd06378 267 AIIATGASAMLRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEE 344 (362)
T ss_pred HHHHHHHHHHHhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceE
Confidence 999999986521 14578899999999999996 9999999999999999999997 58999
Q ss_pred EEEecCC
Q 003821 292 IDFWLPK 298 (793)
Q Consensus 292 VG~w~~~ 298 (793)
||+|+++
T Consensus 345 VG~W~~~ 351 (362)
T cd06378 345 VGKWENG 351 (362)
T ss_pred EEEEcCC
Confidence 9999953
No 27
>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=100.00 E-value=2.1e-32 Score=295.58 Aligned_cols=267 Identities=38% Similarity=0.710 Sum_probs=231.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC-CCCCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT-STRWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
|+.+++|.+||||.+|..+.+++++++.++||+|+++++ ++.++ ...+||+||+.|++..++.++++++++++|++|
T Consensus 61 l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v 138 (350)
T cd06366 61 LLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAAT--SPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRV 138 (350)
T ss_pred HhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCC--CccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEE
Confidence 466779999999999999999999999999999999998 78874 466899999999999999999999999999999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++||++++|| ....+.+++.+++.|++++....+++.. +..|+..++.++++.++|+|++ ++...++..++++
T Consensus 139 ~ii~~~~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~~dvvi~-~~~~~~~~~~~~~ 211 (350)
T cd06366 139 ATIYEDDDYG--SGGLPDLVDALQEAGIEISYRAAFPPSA----NDDDITDALKKLKEKDSRVIVV-HFSPDLARRVFCE 211 (350)
T ss_pred EEEEEcCccc--chhHHHHHHHHHHcCCEEEEEeccCCCC----ChhHHHHHHHHHhcCCCeEEEE-ECChHHHHHHHHH
Confidence 9999999999 9999999999999999999888887652 1368999999999999999998 8999999999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcc
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPG 220 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 220 (793)
++++|+.++.++|+.+ ++... ++++.++.+..++.+++|.++|+++++...+. ...|+
T Consensus 212 a~~~g~~~~~~~~i~~-~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~ 288 (350)
T cd06366 212 AYKLGMMGKGYVWILT-DWLSSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPS 288 (350)
T ss_pred HHHcCCcCCCEEEEEC-cchhhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCC
Confidence 9999999888999988 43211 44555554443477899999999988642111 22577
Q ss_pred hhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEEEEEecCCCC
Q 003821 221 IYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKEIDFWLPKFG 300 (793)
Q Consensus 221 ~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~VG~w~~~~g 300 (793)
.+++++|||+++ +.+|+|++|+++||++|++.+..++++++.++++++||.|++..|
T Consensus 289 ~~a~~~YDav~~-----------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~ 345 (350)
T cd06366 289 IYALYAYDAVWA-----------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESG 345 (350)
T ss_pred cccchhhhheee-----------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCC
Confidence 889999999999 458999999999999999888999999999999999999999877
Q ss_pred Cc
Q 003821 301 LS 302 (793)
Q Consensus 301 ~~ 302 (793)
++
T Consensus 346 ~~ 347 (350)
T cd06366 346 LS 347 (350)
T ss_pred cc
Confidence 65
No 28
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=3.8e-32 Score=298.75 Aligned_cols=263 Identities=20% Similarity=0.291 Sum_probs=219.0
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+++|.|||||.+|+.+.+++++++.+++|+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|++|++|
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~--~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii 182 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGAS--SEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFL 182 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhccccccccccccc--CccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEE
Confidence 479999999999999999999999999999999998 788874 57799999999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
|++++|| .+.++.+++.+++.|++++....++... ....|+..+|.+++++++|+||+ .+..+++..++++|++
T Consensus 183 ~~~~~~g--~~~~~~~~~~l~~~gi~i~~~~~~~~~~---~~~~d~~~~l~~i~~~~~dvIil-~~~~~~~~~il~qa~~ 256 (410)
T cd06363 183 GSDDEYG--RDGLQLFSELIANTGICIAYQGLIPLDT---DPETDYQQILKQINQTKVNVIVV-FASRQPAEAFFNSVIQ 256 (410)
T ss_pred EeCChhH--HHHHHHHHHHHHHCCeEEEEEEEecCCC---chHHHHHHHHHHHhcCCCeEEEE-EcChHHHHHHHHHHHh
Confidence 9999999 9999999999999999999887776531 12368999999999999999998 8999999999999999
Q ss_pred cCCCCCCeEEEEeCCccc-c--------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 163 MGLVGPDSVWVIASDTIT-S--------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~-~--------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
+|+.++ .|+.+ ++.. . ++++....+ ..+.+++|.+. +++.+|
T Consensus 257 ~g~~~~--~~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~-------------------~~~~~Y 313 (410)
T cd06363 257 QNLTGK--VWIAS-EAWSLNDELPSLPGIRNIGTVLGVAQQTV-TIPGFSDFIYS-------------------FAFSVY 313 (410)
T ss_pred cCCCCC--EEEEe-CcccccccccCCccceeeccEEEEEeCCC-CCccHHHHHHH-------------------HHHHHH
Confidence 999655 78887 4322 1 122222112 22445555443 356799
Q ss_pred HHHHHHHHHHhhccCC---------CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecc----eeEEEEE
Q 003821 228 DSITVVAKSIDGMTSD---------NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGK----KYKEIDF 294 (793)
Q Consensus 228 DAv~~la~Al~~~~~~---------~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~----~~~~VG~ 294 (793)
|||+++|+|++++... ..+++.|.++|++++|+|++|++.||++|++ ...+.|++++.. ++++||.
T Consensus 314 DaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~ 392 (410)
T cd06363 314 AAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDP-NFGYDIVVWWWDNSSGTFEEVGS 392 (410)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCC-ccceEEEEEEEcCCceeEEEEEE
Confidence 9999999999998221 2468899999999999999999999999995 567889988532 5899999
Q ss_pred ecCC
Q 003821 295 WLPK 298 (793)
Q Consensus 295 w~~~ 298 (793)
|++.
T Consensus 393 ~~~~ 396 (410)
T cd06363 393 YSFY 396 (410)
T ss_pred EECC
Confidence 9884
No 29
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=2.4e-32 Score=299.70 Aligned_cols=286 Identities=19% Similarity=0.223 Sum_probs=227.9
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.|||||.||.++.+++++++.++||+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|++|+
T Consensus 69 ~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as--~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~va 146 (396)
T cd06373 69 YFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAP--AAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAA 146 (396)
T ss_pred HhccCCeEEECCCccchhHHHHHHHhcCCCceECccCC--ccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEE
Confidence 34578999999999999999999999999999999998 888875 678999999999999999999999999999999
Q ss_pred EEEEcCCCcc--ccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 81 IIYEDDATNA--DTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 81 ii~~dd~~G~--~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
+||+++++|+ .....+.+.+.+++.|++++.. .+.+.. ...|+..+|+++++.. |+||+ +++.+++..+++
T Consensus 147 ii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~-~~~~~~----~~~d~~~~l~~ik~~~-~vii~-~~~~~~~~~~~~ 219 (396)
T cd06373 147 LLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDF-PFDEDK----ELDDYKELLRDISKKG-RVVIM-CASPDTVREIML 219 (396)
T ss_pred EEEECCCCCcchHHHHHHHHHHHHhhcCceeeEE-eecCCc----cccCHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHH
Confidence 9999887531 0335788889999999998744 444331 0257889999999765 98888 899999999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc--------------------------ceeecccccCCchhhhHHHHHHHHhhhhcCC
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS--------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYP 212 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~--------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 212 (793)
||+++|+...+|+||.. +.... ++++..+.+ ..+.+++|.++|+++....+.
T Consensus 220 qa~~~g~~~~~yv~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-~~~~~~~F~~~~~~~~~~~~~ 297 (396)
T cd06373 220 AAHRLGLTSGEYVFFNI-DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREP-DNPEYKEFSLEVKERAKKKFN 297 (396)
T ss_pred HHHHcCCCCCcEEEEEE-ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCC-CChHHHHHHHHHHHHhhhcCC
Confidence 99999999999999986 43311 122222222 246778899999876433221
Q ss_pred -CCCCCCcchhhHhHhHHHHHHHHHHhhcc---CCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEe---e
Q 003821 213 -EDDVSEPGIYALRAYDSITVVAKSIDGMT---SDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINM---V 285 (793)
Q Consensus 213 -~~~~~~~~~~a~~~YDAv~~la~Al~~~~---~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~---~ 285 (793)
......|+.+++.+||||+++++||+++. ..+.+|..|.++|++++|+|++|+++||++|++ ...|.|+.+ .
T Consensus 298 ~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~~~~~~ 376 (396)
T cd06373 298 TTSDDSLVNFFAGAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWDMTDTE 376 (396)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeeeccCCC
Confidence 11122467899999999999999999873 222578999999999999999999999999997 467778655 5
Q ss_pred cceeEEEEEecCCC
Q 003821 286 GKKYKEIDFWLPKF 299 (793)
Q Consensus 286 ~~~~~~VG~w~~~~ 299 (793)
++.++.||.+++.+
T Consensus 377 ~g~~~~~~~~~~~~ 390 (396)
T cd06373 377 TGTFEVVANYNGSN 390 (396)
T ss_pred CceEEEEeeccccc
Confidence 67899999998854
No 30
>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=100.00 E-value=4.8e-32 Score=297.08 Aligned_cols=280 Identities=16% Similarity=0.195 Sum_probs=223.5
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC--CCCCeEEEecCChHHHHHHHHHHHhhcCce-EEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS--TRWPFLVRMANSSAEQITCTAALVGSYNWR-KVII 81 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~--~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~-~vai 81 (793)
++|.|||||.||.++.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++..++++|+|+ ++++
T Consensus 72 ~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at--~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vai 149 (399)
T cd06384 72 SDPDVFFGPGCVYPTASVARFATHWRLPLITAGAP--AFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAAL 149 (399)
T ss_pred cCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccc--hhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEE
Confidence 56889999999999999999999999999999999 777774 478889999999999999988899999999 6889
Q ss_pred EEEcCCCc--cccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATN--ADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G--~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
||+++..+ +.....+.+.+.+++.|++|+....+.+.+ .|+..+|.+++. ++|+|++ +++.+++..+++|
T Consensus 150 iy~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~~~------~d~~~~l~~ik~-~~~vIi~-~~~~~~~~~i~~q 221 (399)
T cd06384 150 LYLDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIEKN------SDIIEIIQFIKQ-NGRIVYI-CGPLETFLEIMLQ 221 (399)
T ss_pred EEecCCccCCcceEehHHHHHHHHhcCceEEEEEEeccch------hhHHHHHHHHhh-cccEEEE-eCCchHHHHHHHH
Confidence 99764321 001246678888899999988765444444 689999999996 8999998 8999999999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc----------------------------ceeecccccCCchhhhHHHHHHHHhhhhcC
Q 003821 160 AKEMGLVGPDSVWVIASDTITS----------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEY 211 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~----------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~ 211 (793)
|+++||.+++|+||.. ++... ++.+..+.+. ++.+++|.++|++++...+
T Consensus 222 a~~~g~~~~~y~~i~~-d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~ 299 (399)
T cd06384 222 AQREGLTPGDYVFFYL-DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPE-NPEYKEFQRELHARAKEDF 299 (399)
T ss_pred HHHcCCCCCcEEEEEe-hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCC-CchHHHHHHHHHHHHhhhc
Confidence 9999999999999987 54321 2222222222 4668889998887643322
Q ss_pred CCCCCCCc---chhhHhHhHHHHHHHHHHhhc---cCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEE---E
Q 003821 212 PEDDVSEP---GIYALRAYDSITVVAKSIDGM---TSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRI---I 282 (793)
Q Consensus 212 ~~~~~~~~---~~~a~~~YDAv~~la~Al~~~---~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I---~ 282 (793)
.. ...| +++++++||||+++|.|++++ +..+.+|..|.++|++.+|+|++|++.||++|+| ...+.+ .
T Consensus 300 ~~--~~~p~~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~~~~~~~ 376 (399)
T cd06384 300 GV--ELEPSLMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDFDLWAMT 376 (399)
T ss_pred CC--CcCcchHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccceEEEEee
Confidence 11 1123 678999999999999999997 2334689999999999999999999999999997 446666 3
Q ss_pred EeecceeEEEEEecCCC
Q 003821 283 NMVGKKYKEIDFWLPKF 299 (793)
Q Consensus 283 ~~~~~~~~~VG~w~~~~ 299 (793)
++++++++.||+|+..+
T Consensus 377 ~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 377 DHETGKYEVVAHYNGIT 393 (399)
T ss_pred cCCCCeEEEEEEEcCCC
Confidence 66789999999998744
No 31
>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=100.00 E-value=2.3e-31 Score=288.93 Aligned_cols=270 Identities=19% Similarity=0.191 Sum_probs=217.8
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+++|.|||||.||.++.+++++++.++||+|+++++ ++.+++ ..+|+|+|+.|++ +.++++++++|+|++|++|
T Consensus 64 ~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~--~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii 138 (382)
T cd06371 64 EGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCV--NYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIV 138 (382)
T ss_pred cCCceEEECCCCchHHHHHHHHHHhcCceEEecccC--chhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEE
Confidence 468999999999999999999999999999999998 888875 6789999999986 5678899999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC-ceEEEEeccCh-----HHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE-SRVFIILQSSL-----AMGIHL 156 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivvl~~~~-----~~~~~~ 156 (793)
|++++|| .+..+.+.+.+++.|++|+....++..+ .|+..+|++||+.+ +|+||+ ++.. +++..+
T Consensus 139 ~~~~~~~--~~~~~~l~~~l~~~gi~v~~~~~~~~~~------~d~~~~L~~lk~~~~~~viv~-~~~~~~~~~~~~~~i 209 (382)
T cd06371 139 SSPQDIW--VETAQKLASALRAHGLPVGLVTSMGPDE------KGAREALKKVRSADRVRVVIM-CMHSVLIGGEEQRLL 209 (382)
T ss_pred Eecccch--HHHHHHHHHHHHHCCCcEEEEEEecCCH------HHHHHHHHHHhcCCCcEEEEE-EeeccccCcHHHHHH
Confidence 9999998 8899999999999999999877777654 68999999999987 699888 5654 677899
Q ss_pred HHHHHHcCCCCCCeEEEEeCCcccc------------------------ceeecccccCCchhhhHHHHHHHHhhhh-cC
Q 003821 157 FREAKEMGLVGPDSVWVIASDTITS------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRS-EY 211 (793)
Q Consensus 157 l~~a~~~g~~~~~~~wi~~~~~~~~------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~-~~ 211 (793)
++||+++||++.+|+||.+ ++... ++.+... +...+|.++|++.++. ..
T Consensus 210 ~~qa~~~Gm~~~~y~~i~~-d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~f~~~~~~~~~ 283 (382)
T cd06371 210 LETALEMGMTDGRYVFIPY-DTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMD-----SGEQSFYEAFRAAQERGEI 283 (382)
T ss_pred HHHHHHcCCcCCcEEEEEe-ccccccCCCCCccccCCCCCHHHHHHhHhhEEEEec-----CCCCcHHHHHHHHHhcCCC
Confidence 9999999999999999998 64320 1111111 1223466666665432 11
Q ss_pred CCC-CCCCcchhhHhHhHHHHHHHHHHhhccCC--CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecce
Q 003821 212 PED-DVSEPGIYALRAYDSITVVAKSIDGMTSD--NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKK 288 (793)
Q Consensus 212 ~~~-~~~~~~~~a~~~YDAv~~la~Al~~~~~~--~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~ 288 (793)
+.. ....++.+++++|||++++|+|++++++. ..++.+++++|++++|+|++|+++||++|++ ...|.|+++.+.+
T Consensus 284 ~~~~~~~~~~~~~~~~YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~ 362 (382)
T cd06371 284 PSDLEPEQVSPLFGTIYNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKG 362 (382)
T ss_pred CCCCCccccchhHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCC
Confidence 111 11123456678999999999999998531 2579999999999999999999999999997 6899999999877
Q ss_pred eEEEEE
Q 003821 289 YKEIDF 294 (793)
Q Consensus 289 ~~~VG~ 294 (793)
++-+-.
T Consensus 363 ~~~~~~ 368 (382)
T cd06371 363 DQLYPT 368 (382)
T ss_pred Ceeeee
Confidence 665433
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=6.8e-32 Score=288.53 Aligned_cols=252 Identities=20% Similarity=0.275 Sum_probs=209.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+.+ +|.|||||.+|+.+.+++++++.++||+|+++++ ++.++ ..+++||+.|++..++.++++++++++|++|+
T Consensus 59 li~~-~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~--~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~va 133 (327)
T cd06382 59 LLQQ-GVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWD--PEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFT 133 (327)
T ss_pred hhhc-CcEEEECCCChhHHHHHHHHHhccCCCceeccCC--cCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEE
Confidence 3444 9999999999999999999999999999999887 66665 46789999999999999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCc---eeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNS---EIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~---~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+||++++++ ..+++.+++.|. .+.. ..+++. .|+..+|.+++++++|+|++ .+..+++..++
T Consensus 134 vl~~~~~~~------~~l~~~~~~~~~~g~~v~~-~~~~~~-------~d~~~~l~~i~~~~~d~vv~-~~~~~~~~~~~ 198 (327)
T cd06382 134 IIYESAEGL------LRLQELLQAFGISGITITV-RQLDDD-------LDYRPLLKEIKNSGDNRIII-DCSADILIELL 198 (327)
T ss_pred EEecChHHH------HHHHHHHHhhccCCCeEEE-EEccCC-------ccHHHHHHHHHhcCceEEEE-ECCHHHHHHHH
Confidence 999998865 345556665554 3333 344432 27899999999999999998 89999999999
Q ss_pred HHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhH
Q 003821 158 REAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYAL 224 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 224 (793)
+||+++||.++.|+|+++ ++... +.++..+.+ .++.+++|.++|+++|+..++......|+.+++
T Consensus 199 ~qa~~~g~~~~~~~~i~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a 276 (327)
T cd06382 199 KQAQQVGMMSEYYHYIIT-NLDLHTLDLEDYRYSGVNITGFRLVDP-DSPEVKEVIRSLELSWDEGCRILPSTGVTTESA 276 (327)
T ss_pred HHHHHhCccccceEEEEe-cCCccccchhhhccCceeEEEEEEecC-CchhHHHHHHHHHhhcccccccCCCCCcchhhh
Confidence 999999999999999998 45332 222322222 347899999999999866444334456888999
Q ss_pred hHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEEEEEecCCCCC
Q 003821 225 RAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKEIDFWLPKFGL 301 (793)
Q Consensus 225 ~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~VG~w~~~~g~ 301 (793)
.+|||++++ |+||+|+||++|+|.++.++|+++.++++++||+|++..||
T Consensus 277 ~~yDav~~~---------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 277 LMYDAVYLF---------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred hhhceEEEe---------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 999999998 99999999999999999999999999999999999998775
No 33
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=99.98 E-value=1.1e-30 Score=279.15 Aligned_cols=269 Identities=16% Similarity=0.213 Sum_probs=198.6
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCC-C-----CC-CCCCCeEEEecCChHHHHHHHHHHHhh
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAP-P-----LT-STRWPFLVRMANSSAEQITCTAALVGS 73 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~-~-----l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~ 73 (793)
|+++ ||+|||||.+|..+.+++++|+..+||+|++.+...++ . +. ....+|.|++.|++ .++.++++++++
T Consensus 58 Li~~-gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~ 135 (363)
T cd06381 58 LMNQ-GILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTE 135 (363)
T ss_pred HHhc-CcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHh
Confidence 3555 99999999999999999999999999999976531111 1 11 12345777888885 688999999999
Q ss_pred cCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhh-------cCCceEEEEe
Q 003821 74 YNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLL-------RTESRVFIIL 146 (793)
Q Consensus 74 ~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~vivvl 146 (793)
+||++|+++|++|++ ...++.+.+.+++.|+.+... ..... ....+.+.++.++ ..+.++||+
T Consensus 136 ~~wkkvavly~~d~g---~~~l~~~~~~~~~~g~~v~~~-~~~~~-----~~~~~~~l~~~~~~~~l~~~~~~~~~vIl- 205 (363)
T cd06381 136 WRWQKFVYFYDNDYD---IRGLQEFLDQLSRQGIDVLLQ-KVDLN-----ISKMATALFTTMRCEELNRYRDTLRRALL- 205 (363)
T ss_pred CCCeEEEEEEECCch---HHHHHHHHHHHHhcCceEEEE-ecccc-----cchhhhhhhhHHHHHHHHhhcccceEEEE-
Confidence 999999999998874 455577778888889865532 22211 1122222222221 334557777
Q ss_pred ccChHHHHHHHHHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhh----HHHHHHHHhhhh
Q 003821 147 QSSLAMGIHLFREAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYK----IFEDQFRSYFRS 209 (793)
Q Consensus 147 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~----~f~~~~~~~~~~ 209 (793)
+|+++.+..++++|+++||+..+|+|+++..+... +.|++...+.. +..+ +|.+.|++.+..
T Consensus 206 ~~~~~~~~~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l~~~~~~~~nitgfrl~~~~~-~~~~~~~~~~~~~~~~~~~~ 284 (363)
T cd06381 206 LLSPNGAYTFIDASVETNLAIKDSHWFLINEEISDTEIDELVRYAHGRMTVIRQTFSKE-KTNQRCLRNNHRISSLLCDP 284 (363)
T ss_pred EcCcHHHHHHHHHHHHcCCCcCceEEEEeccccccchhhHHHhhcCccEEEEEEecCCc-CchHHHHHHHHHHHHhhcCC
Confidence 89999999999999999999999999876345443 66777665443 3344 444455433222
Q ss_pred cCCCCCCCCcchhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecce-
Q 003821 210 EYPEDDVSEPGIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKK- 288 (793)
Q Consensus 210 ~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~- 288 (793)
. ++ ....+...++++||||+++ .++|++++|+|+||+|+||++|.|.++.++|+++.-++
T Consensus 285 ~-~~-~~~~~~~~~al~yDaV~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~ 345 (363)
T cd06381 285 K-DG-YLQMLEISNLYIYDSVLLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSET 345 (363)
T ss_pred C-CC-CCCChhHHHHHHHHHHHHH-----------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCc
Confidence 1 11 1224567899999999999 78999999999999999999999999999999999544
Q ss_pred ----eEEEEEecCCCCC
Q 003821 289 ----YKEIDFWLPKFGL 301 (793)
Q Consensus 289 ----~~~VG~w~~~~g~ 301 (793)
.+.||+|++..|+
T Consensus 346 ~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 346 LGKDGRWLATWNPSKGL 362 (363)
T ss_pred cccceEEeeeccCCCCC
Confidence 7999999998875
No 34
>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=99.98 E-value=1.6e-30 Score=285.25 Aligned_cols=287 Identities=20% Similarity=0.291 Sum_probs=239.5
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
|+.+++|.|||||.+|+.+.+++++++.++||+|+++++ ++.++. ..+||+||+.|++..++.++++++++++|+++
T Consensus 63 l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v 140 (389)
T cd06352 63 LYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCV--ALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVA 140 (389)
T ss_pred HHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEeccccc--ccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEE
Confidence 355679999999999999999999999999999999988 777764 57899999999999999999999999999999
Q ss_pred EEEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 80 IIIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 80 aii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
+++++++. || ....+.+.+.+++.|++++....++... ...++..+++++++.. |+||+ .+..+++..+++
T Consensus 141 ~ii~~~~~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~-~vii~-~~~~~~~~~~l~ 212 (389)
T cd06352 141 VVVYSDDSENC--FFTLEALEAALREFNLTVSHVVFMEDNS----GAEDLLEILQDIKRRS-RIIIM-CGSSEDVRELLL 212 (389)
T ss_pred EEEEecCCccH--HHHHHHHHHHHHhcCCeEEEEEEecCCc----cchhHHHHHHHhhhcc-eEEEE-ECCHHHHHHHHH
Confidence 99999998 89 9999999999999999999888887651 1267899999999877 88888 788899999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc--------------------------ceeecccccCCchhhhHHHHHHHHhhhhcCC
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS--------------------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYP 212 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~--------------------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 212 (793)
|++++|+.+.+++|+.+ +.... ++++..+.+ .++.+++|.++|+++++..+.
T Consensus 213 q~~~~g~~~~~~~~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~ 290 (389)
T cd06352 213 AAHDLGLTSGDYVFILI-DLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPP-DNPEYEEFSEEVKEAAKRPPF 290 (389)
T ss_pred HHHHcCCCCCcEEEEEE-ehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCC-CCchHHHHHHHHHHHHhcccC
Confidence 99999999888999986 33221 222333323 357889999999988854221
Q ss_pred CC--CCCCcchhhHhHhHHHHHHHHHHhhccCC---CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec-
Q 003821 213 ED--DVSEPGIYALRAYDSITVVAKSIDGMTSD---NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG- 286 (793)
Q Consensus 213 ~~--~~~~~~~~a~~~YDAv~~la~Al~~~~~~---~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~- 286 (793)
.+ ....|+.+++.+|||++++++|++++... +.++..+.++|++++|.|++|++.||++|++ ...+.|+++++
T Consensus 291 ~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~ 369 (389)
T cd06352 291 NTDAEPEQVSPYAGYLYDAVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDST 369 (389)
T ss_pred ccCCCccccchhhhhHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCC
Confidence 11 23356789999999999999999998543 2478899999999999999999999999997 46899999986
Q ss_pred -ceeEEEEEecCCCC
Q 003821 287 -KKYKEIDFWLPKFG 300 (793)
Q Consensus 287 -~~~~~VG~w~~~~g 300 (793)
+.+..++..++.++
T Consensus 370 ~~~~~~~~~~~~~~~ 384 (389)
T cd06352 370 GGQLEVVYLYDTSSG 384 (389)
T ss_pred CceEEEEEeccccce
Confidence 56888988877654
No 35
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=99.98 E-value=9.5e-31 Score=287.09 Aligned_cols=274 Identities=18% Similarity=0.233 Sum_probs=218.0
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+++|.|||||.+|.. +++.+++.++||+|+++++ ++.+++ ..+|+|||+.|++..++.++++++++++|++|++|
T Consensus 67 ~~~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~--~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii 142 (404)
T cd06370 67 KRGVVAFIGPECTCT--TEARLAAAWNLPMISYKCD--EEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVV 142 (404)
T ss_pred hcCceEEECCCchhH--HHHHHHhhcCCcEEecccC--CccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 358999999999844 4568999999999999998 788774 56899999999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCC-CChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLT-DPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~-~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
|++++|| .+..+.+++.+++.|++|+....+++..... +...++...|+++++. ++++|+ ++..+++..+++||+
T Consensus 143 ~~~~~~g--~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~-~~~~~~~~~~l~qa~ 218 (404)
T cd06370 143 YENDSKY--SSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVF-IGEANELRQFLMSML 218 (404)
T ss_pred EecCccc--HHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEE-EcCHHHHHHHHHHHH
Confidence 9999999 9999999999999999999888887652100 1236788888888764 677776 677788999999999
Q ss_pred HcCCC-CCCeEEEEeCCccc--------------------c-------------ceeecccccCCchhhhHHHHHHHHhh
Q 003821 162 EMGLV-GPDSVWVIASDTIT--------------------S-------------ALGIKTHFSQDSSSYKIFEDQFRSYF 207 (793)
Q Consensus 162 ~~g~~-~~~~~wi~~~~~~~--------------------~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~ 207 (793)
++||. +.+|+||.+ +... + ++.+.+..+ ++...+|.+.|++.+
T Consensus 219 ~~g~~~~~~y~~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~ 295 (404)
T cd06370 219 DEGLLESGDYMVLGV-DIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYN 295 (404)
T ss_pred HcCCCCCCcEEEEEE-chhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhc
Confidence 99998 678999986 3210 0 111111111 356688999998765
Q ss_pred hhcC-CC-----CCCCCcchhhHhHhHHHHHHHHHHhhccC---CCCChhhHHHhhhhccccccee-eEEEeCCCcCCCC
Q 003821 208 RSEY-PE-----DDVSEPGIYALRAYDSITVVAKSIDGMTS---DNSSSKISLGYILSSNFTGLSG-PISFRGGKLLNSP 277 (793)
Q Consensus 208 ~~~~-~~-----~~~~~~~~~a~~~YDAv~~la~Al~~~~~---~~~~g~~l~~~l~~~~f~G~tG-~i~Fd~~g~~~~~ 277 (793)
.... +. .....|+.+++++||||+++|+|++++.+ ...+|..|.++|++++|+|+|| ++.||++|++ ..
T Consensus 296 ~~~~~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~-~~ 374 (404)
T cd06370 296 LEPPFNGDLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDA-EG 374 (404)
T ss_pred cCCCCcccccccccccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCc-cc
Confidence 3321 11 12335778999999999999999998732 2257899999999999999999 8999999997 57
Q ss_pred cEEEEEeeccee
Q 003821 278 ILRIINMVGKKY 289 (793)
Q Consensus 278 ~~~I~~~~~~~~ 289 (793)
.|.|++++++.|
T Consensus 375 ~y~v~~~~~~~~ 386 (404)
T cd06370 375 NYSVLALQPIPP 386 (404)
T ss_pred ceEEEEeccccc
Confidence 999999987754
No 36
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=99.97 E-value=1.1e-30 Score=282.51 Aligned_cols=271 Identities=23% Similarity=0.364 Sum_probs=217.4
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC--CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS--TRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~--~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
+++|.|||||.|+..+.+++.+++.++||+|+++++ ++.+++ ..+|+++|+.|++..+++++++++++|+|++|++
T Consensus 49 ~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~--~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~v 126 (348)
T PF01094_consen 49 KQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGST--SPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSV 126 (348)
T ss_dssp HHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGG--SGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEE
T ss_pred CCCcEEEECCCcccccchhheeecccccceeecccc--ccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeee
Confidence 468999999999999999999999999999999988 788865 5899999999999999999999999999999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEE-eecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYR-LVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~-~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
||+++++| .+....+++.+++.+..+... ....... ....++...+.+ ++..+++||+ ++....+..++++|
T Consensus 127 v~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~-~~~~~rvvil-~~~~~~~~~~l~~a 199 (348)
T PF01094_consen 127 VYSDDDYG--NSLADSFQDLLRERGGICVAFISVVISSD---SDAEELLKKLKE-IKSGARVVIL-CSSPEDARQFLEAA 199 (348)
T ss_dssp EEESSHHH--HHHHHHHHHHHHHHTTCEEEEEEEEETTT---SHHHHHHHHHHH-HTTTTSEEEE-ESBHHHHHHHHHHH
T ss_pred eccccccc--cccchhhhhhhcccccceecccccccccc---cchhhhhhhhhh-ccccceeeee-ecccccccccccch
Confidence 99999998 899999999999965544433 2333222 112334444444 3489999998 99999999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc---------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 161 KEMGLVGPDSVWVIASDTITS---------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~---------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
.++||..++|+||.+ +.... ++++....+ ..+.+++|.+.|++.............+..++++
T Consensus 200 ~~~~~~~~~~~~i~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (348)
T PF01094_consen 200 YELGMTSGDYVWILT-DLDNSSFWQNNEDFREAFQGVLGFTPPPP-SSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAY 277 (348)
T ss_dssp HHTTTSSTTSEEEEE-TTTTTTHTSTHCHHHCCHTTEEEEEESTT-TSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHH
T ss_pred hhhhccccceeEEee-cccccccccccccccccccceeeeeeecc-cccchhhhhcccChhhccCcccccccccceeeee
Confidence 999999999999999 55322 444443323 3477888888888654322222334567889999
Q ss_pred HhHHHHHHHHHHhhccC----------CCCChhhHHHhhhhcccccceeeEEEeC-CCcCCCCcEEEEEee
Q 003821 226 AYDSITVVAKSIDGMTS----------DNSSSKISLGYILSSNFTGLSGPISFRG-GKLLNSPILRIINMV 285 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~----------~~~~g~~l~~~l~~~~f~G~tG~i~Fd~-~g~~~~~~~~I~~~~ 285 (793)
+||||+++++|++++.+ .|..|..+.++|++++|.|++|++.||+ +|++.+..|.|++++
T Consensus 278 ~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 278 AYDAVYLLAHALNRALQDGGPVTNGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred ehhhhHHHHHHHHHHHHhccCCCCCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 99999999999999853 1346789999999999999999999999 999989999999874
No 37
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=99.97 E-value=3.5e-30 Score=285.84 Aligned_cols=284 Identities=21% Similarity=0.342 Sum_probs=234.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
..|+|+|||..|+.+.+++.+..-++||||+|+++ ++.|++ .+|+||.|++|+|..|++||+++++.|+|++|..++
T Consensus 124 p~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSt--s~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~ 201 (878)
T KOG1056|consen 124 PPVVAVIGPSYSSVSIAVANLLRLFLIPQISYAST--SPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVA 201 (878)
T ss_pred CceeEEeCCCCchHHHHHHHHHHhhcCceeccccC--CcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehh
Confidence 45999999999999999999999999999999999 999984 789999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhc-CCceEEEEeccChHHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR-TESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
++++|| +.+.+.|++..++.|+||...+.+.... .+..+...++++.. .+++++|+ ++..+++..++++|++
T Consensus 202 s~~dYG--E~Gieaf~~~a~~~~iCIa~s~ki~~~~----~~~~~~~~l~kl~~~~~a~vvV~-F~~~~~~r~~~~aa~~ 274 (878)
T KOG1056|consen 202 SEGDYG--ESGIEAFKEEAAERGICIAFSEKIYQLS----IEQEFDCVLRKLLETPNARVVVV-FCRGEDARRLLKAARR 274 (878)
T ss_pred cCccch--hhhHHHHHHhHHhcCceEEehhhccccc----chhHHHHHHHHHhhcCCCeEEEE-ecCcchHHHHHHHHHH
Confidence 999999 9999999999999999999886666543 34678899999887 68999999 9999999999999999
Q ss_pred cCCCCCCeEEEEeCCcccc--------------ceeecc----------c----ccCCchhhhHHHHHHHHhhhhcCCCC
Q 003821 163 MGLVGPDSVWVIASDTITS--------------ALGIKT----------H----FSQDSSSYKIFEDQFRSYFRSEYPED 214 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~--------------~~g~~~----------~----~~~~~~~~~~f~~~~~~~~~~~~~~~ 214 (793)
+++.+ .++|+.+ |++.. ++++.. + .++++.....|.+.|...|.+..+..
T Consensus 275 ~n~~g-~~~wiaS-d~W~~~~~~~~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e~w~~~f~C~l~~~ 352 (878)
T KOG1056|consen 275 ANLTG-EFLWIAS-DGWASQNSPTEAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAEFWEDKFNCSLPNS 352 (878)
T ss_pred hCCCc-ceEEEec-chhhccCChhhhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccchhhhhcccCCCCcc
Confidence 99986 5899999 66654 222222 2 12222233445566677776654421
Q ss_pred C-----------CC----C-----cchhhHhHhHHHHHHHHHHhhccCC-------------CCChhhHHHhhhhccccc
Q 003821 215 D-----------VS----E-----PGIYALRAYDSITVVAKSIDGMTSD-------------NSSSKISLGYILSSNFTG 261 (793)
Q Consensus 215 ~-----------~~----~-----~~~~a~~~YDAv~~la~Al~~~~~~-------------~~~g~~l~~~l~~~~f~G 261 (793)
. +. . -..-...++|||+++|+||+++..+ ..+|..|.+.+++++|.|
T Consensus 353 ~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~~dg~~L~~~l~~vnF~~ 432 (878)
T KOG1056|consen 353 AFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKAIDGSLLLKYLLNVNFTG 432 (878)
T ss_pred cccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccccCHHHHHhhhheeEEec
Confidence 0 00 0 0124567999999999999998542 258999999999999999
Q ss_pred ceeeEEEeCCCcCCCCcEEEEEeecc----eeEEEEEecCCCC
Q 003821 262 LSGPISFRGGKLLNSPILRIINMVGK----KYKEIDFWLPKFG 300 (793)
Q Consensus 262 ~tG~i~Fd~~g~~~~~~~~I~~~~~~----~~~~VG~w~~~~g 300 (793)
..|.+.||++||. ...|+|++++.. .+.+||+|++...
T Consensus 433 ~~~~v~Fd~~gD~-~~~y~I~~~~~~~~~~~y~~vg~w~~~~~ 474 (878)
T KOG1056|consen 433 PAGSVRFDENGDG-PGRYDILNYQLTNGSYTYKEVGYWSEGLS 474 (878)
T ss_pred CCCceeecCCCCC-ccceeEEEeeccCCCccceeeeeeccccc
Confidence 9999999999994 789999999853 5899999998664
No 38
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=99.97 E-value=8e-30 Score=272.47 Aligned_cols=254 Identities=18% Similarity=0.299 Sum_probs=208.7
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+. ++|.|||||.+|..+.+++++++.++||+|+++++ ++.++ . ++.+++.|++..++.++++++++++|++|+
T Consensus 58 li~-~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~--~~~~~-~--~~~~~~~~~~~~~~~a~~~~~~~~~w~~va 131 (324)
T cd06368 58 LLS-QGVAAIFGPSSSSSANTVQSICDALEIPHITTSWS--PNPKP-R--QFTINLYPSMRDLSDALLDLIKYFGWRKFV 131 (324)
T ss_pred HHh-cCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCC--cCCCC-C--cceEEecCCHHHHHHHHHHHHHhcCCCEEE
Confidence 354 78999999999999999999999999999999988 77665 2 344566688889999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+||+++++ ...++.+.+.+++.|++++... +.+.. +|+..+|.++++.++|+||+ .|..+++..+++||
T Consensus 132 ii~~~~~~---~~~l~~~~~~~~~~g~~v~~~~-~~~~~------~d~~~~l~~i~~~~~d~Vi~-~~~~~~~~~i~~qa 200 (324)
T cd06368 132 YIYDSDEG---LLRLQELLDALSPKGIQVTVRR-LDDDT------DMYRPLLKEIKREKERRIIL-DCSPERLKEFLEQA 200 (324)
T ss_pred EEECCcHh---HHHHHHHHHhhccCCceEEEEE-ecCCc------hHHHHHHHHHhhccCceEEE-ECCHHHHHHHHHHH
Confidence 99988765 3445666677888899988654 33333 37999999999999999998 89999999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhH
Q 003821 161 KEMGLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYD 228 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 228 (793)
+++||.++.|+||+++..... +.++... ...+|..++|.++|+++++..++......|+.+++.+||
T Consensus 201 ~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yD 279 (324)
T cd06368 201 VEVGMMSEYYHYILTNLDFHTLDLELFRYGGVNITGFRLV-DPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYD 279 (324)
T ss_pred HHhccccCCcEEEEccCCccccchhhhhcCCceEEEEEEe-cCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhc
Confidence 999999999999998322221 2222222 223578999999999998665543334468889999999
Q ss_pred HHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecceeEEEEEecCCCCC
Q 003821 229 SITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKKYKEIDFWLPKFGL 301 (793)
Q Consensus 229 Av~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~~~~VG~w~~~~g~ 301 (793)
||+++ ||+++||++|+|.++.++|+++.++++++||+|++..|+
T Consensus 280 av~~~-----------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 280 AVLLF-----------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred EEEEe-----------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 99998 899999999999999999999999999999999997764
No 39
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=99.96 E-value=5.1e-29 Score=266.97 Aligned_cols=254 Identities=15% Similarity=0.184 Sum_probs=181.5
Q ss_pred cce--EEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 5 KEV--KVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 5 ~~V--~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+|| .|||||.+|..+..++.+|+.++||+|+++.+ + .+..++||++|+.|++..+++|+++++++|+|++|++|
T Consensus 64 ~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~--~--~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iI 139 (368)
T cd06383 64 SAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYG--Q--EGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAIL 139 (368)
T ss_pred ccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCC--C--cCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEE
Confidence 466 89999999999999999999999999998654 2 23357899999999999999999999999999999999
Q ss_pred EEcCCCccccccH-HHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNL-ALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 83 ~~dd~~G~~~~~~-~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
|++|+++ ...+ +.+++.....+.++. +... .++.+.|++|++.+.+.||++++.++.+..++++|.
T Consensus 140 Yddd~gl--~~~l~~~l~~~~~~~~~~v~-----~~~~------~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~ 206 (368)
T cd06383 140 YDDDFVM--DHKYKSLLQNWPTRHVITII-----NSII------DEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQAL 206 (368)
T ss_pred EEcCchh--hHHHHHHHHhHHhcCCEEEE-----eccc------hhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHH
Confidence 9877633 2122 222222333344432 1111 457889999998888555552444699999999999
Q ss_pred HcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhH
Q 003821 162 EMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYD 228 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 228 (793)
++||++++|+||++ +++.. +.|++...+.. ...+.+.+++.+. ..+..........++++||
T Consensus 207 ~lgm~~~~y~wilt-~ld~~~~dl~~~~~~~~Nitgfrl~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~D 281 (368)
T cd06383 207 AEGFMGRKYAWFLG-NPDLGIYDDLSCQLRNASIFVTRPMMDYQ-SSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYD 281 (368)
T ss_pred HcCCcCCceEEEEc-CCCchhhhhhhhccccCcEEEeeccccch-hhhccceeeccCC---ccCchhHHHHHHHHHHHHH
Confidence 99999999999999 67644 33444322222 2234444443110 0011111123457999999
Q ss_pred HHHHHHHHHhhccC------------CCCChh-----------hHHHhhhhcccccceeeEEEeCCCcCCCCcEE
Q 003821 229 SITVVAKSIDGMTS------------DNSSSK-----------ISLGYILSSNFTGLSGPISFRGGKLLNSPILR 280 (793)
Q Consensus 229 Av~~la~Al~~~~~------------~~~~g~-----------~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~ 280 (793)
||+++++|++++.. .|.+|. .+.++|+.++|+|+||+|+||++|.|.++.+.
T Consensus 282 av~~~~~a~~~l~~~~~~~~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l~ 356 (368)
T cd06383 282 AVLAVGEWPRRMRKKRVEDGSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTIG 356 (368)
T ss_pred HHHHhccccchhheeeccCCCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeeee
Confidence 99999999996421 023333 89999999999999999999999998764443
No 40
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=99.96 E-value=2.1e-27 Score=255.20 Aligned_cols=258 Identities=20% Similarity=0.253 Sum_probs=219.6
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
|+++ +|.+|+||.+|..+.+++++++..+||+|+++++ ++.+.+..+|++||+.|++..++.++++++ ++++|++|
T Consensus 62 li~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06342 62 LVDD-GVVGVVGHLNSGVTIPASPIYADAGIVMISPAAT--NPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKV 138 (334)
T ss_pred HHhC-CceEEECCCccHhHHHhHHHHHhCCCeEEecCCC--CchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEE
Confidence 3445 8999999999999999999999999999999877 666666678999999999999999999976 57899999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++++++++|| ....+.+++.+++.|++|+....+++.. .++...+.++++.++++|++ .+..+++..++++
T Consensus 139 ~~v~~~~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~d~~~~l~~i~~~~~~~vi~-~~~~~~~~~~~~~ 209 (334)
T cd06342 139 AIIDDKTAYG--QGLADEFKKALKAAGGKVVAREGTTDGA------TDFSAILTKIKAANPDAVFF-GGYYPEAGPLVRQ 209 (334)
T ss_pred EEEeCCcchh--hHHHHHHHHHHHHcCCEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cCcchhHHHHHHH
Confidence 9999999999 9999999999999999999888887765 67899999999999999988 7888899999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
+++.|+.. .|+.+ ++... ++...++.+. .++..++|.++|+++++ ..|+.++..
T Consensus 210 ~~~~g~~~---~~~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~ 277 (334)
T cd06342 210 MRQLGLKA---PFMGG-DGLCDPEFIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--------DPPGAYAPY 277 (334)
T ss_pred HHHcCCCC---cEEec-CccCCHHHHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--------CCCchhHHH
Confidence 99999953 45555 33222 2222222222 34778889888888763 245678999
Q ss_pred HhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEe
Q 003821 226 AYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINM 284 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~ 284 (793)
+||+++++++|+++++. .++..+.++|++.+|+|++|+++|+++|++.+..+.|+|+
T Consensus 278 ~yda~~~~~~al~~~~~--~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 278 AYDAANVLAEAIKKAGS--TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred HHHHHHHHHHHHHHhCC--CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 99999999999999976 6899999999999999999999999999999999999875
No 41
>cd06338 PBP1_ABC_ligand_binding_like_5 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. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=4.2e-27 Score=253.85 Aligned_cols=260 Identities=16% Similarity=0.250 Sum_probs=216.9
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcC--ceE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYN--WRK 78 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~--w~~ 78 (793)
|+.+++|.+||||.+|..+.+++++++..+||+|+++++ ++.++...+|++||+.|++..++.++++++++++ |++
T Consensus 66 li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 143 (345)
T cd06338 66 LITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGA--SDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKK 143 (345)
T ss_pred HHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCC--CchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCce
Confidence 456679999999999999999999999999999999988 6777666789999999999999999999999887 999
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
+++++.+++|| ....+.+++.+++.|++|+....++... .|+..++.+|++.++|+|++ .+...++..+++
T Consensus 144 v~~v~~~~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~i~~-~~~~~~~~~~~~ 214 (345)
T cd06338 144 VAILYADDPFS--QDVAEGAREKAEAAGLEVVYDETYPPGT------ADLSPLISKAKAAGPDAVVV-AGHFPDAVLLVR 214 (345)
T ss_pred EEEEecCCccc--HHHHHHHHHHHHHcCCEEEEEeccCCCc------cchHHHHHHHHhcCCCEEEE-CCcchhHHHHHH
Confidence 99999999999 9999999999999999999887887655 67999999999999999998 888999999999
Q ss_pred HHHHcCCCCCCeEEEEeCCccc-----------cceeecccccCC------chhhhHHHHHHHHhhhhcCCCCCCCCcch
Q 003821 159 EAKEMGLVGPDSVWVIASDTIT-----------SALGIKTHFSQD------SSSYKIFEDQFRSYFRSEYPEDDVSEPGI 221 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~-----------~~~g~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 221 (793)
++++.|+..+. .+........ .+++...+.+.. .|..+.|.++|+++|+. .|+.
T Consensus 215 ~~~~~g~~~~~-~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~ 285 (345)
T cd06338 215 QMKELGYNPKA-LYMTVGPAFPAFVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK--------APDY 285 (345)
T ss_pred HHHHcCCCCCE-EEEecCCCcHHHHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC--------CCCc
Confidence 99999997652 2222101111 023333332322 36789999999988742 3667
Q ss_pred hhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEE
Q 003821 222 YALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIIN 283 (793)
Q Consensus 222 ~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~ 283 (793)
+++.+||+++++++|+++++. .++..+.++|++++|+|++|+++|+++|++.. .+.+++
T Consensus 286 ~~~~~y~a~~~~~~a~~~ag~--~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 286 HAAGAYAAGQVLQEAVERAGS--LDPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ccHHHHHHHHHHHHHHHHhCC--CCHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 789999999999999999987 68899999999999999999999999998644 555554
No 42
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.95 E-value=1.2e-26 Score=250.78 Aligned_cols=262 Identities=14% Similarity=0.212 Sum_probs=221.6
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
|+ +++|.+||||.+|..+.+++++++..+||+|++.++ ++.++...++|+||+.|.+..++.++++++ +.++|++|
T Consensus 88 Li-~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~--~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~v 164 (369)
T PRK15404 88 VV-NDGIKYVIGHLCSSSTQPASDIYEDEGILMITPAAT--APELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRI 164 (369)
T ss_pred HH-hCCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCC--CHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEE
Confidence 45 468999999999999999999999999999999988 788877778999999999999999999976 56799999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++|++|+.|| ....+.+++.+++.|.+++....++... .|+..++.++++.++|+|++ .+...++..++++
T Consensus 165 a~i~~d~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~g~------~D~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~k~ 235 (369)
T PRK15404 165 AVLHDKQQYG--EGLARSVKDGLKKAGANVVFFEGITAGD------KDFSALIAKLKKENVDFVYY-GGYHPEMGQILRQ 235 (369)
T ss_pred EEEeCCCchh--HHHHHHHHHHHHHcCCEEEEEEeeCCCC------CchHHHHHHHHhcCCCEEEE-CCCchHHHHHHHH
Confidence 9999999999 9999999999999999999888888766 67999999999999999887 7777788999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
+++.|+.. .|+.+ .+... ++...++....+|..++|.+.|++++. ..|+.++..+
T Consensus 236 ~~~~G~~~---~~i~~-~~~~~~~~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~ 303 (369)
T PRK15404 236 AREAGLKT---QFMGP-EGVGNKSLSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--------DPSGPFVWTT 303 (369)
T ss_pred HHHCCCCC---eEEec-CcCCCHHHHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--------CCCccchHHH
Confidence 99999864 35555 33221 222222222334678889999887642 2445678899
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecce
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKK 288 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~ 288 (793)
||++++++.|+++++. .++..|.++|++.+|+|++|+++|+++|+.....|.|+++++++
T Consensus 304 Y~~~~~l~~Al~~aG~--~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 304 YAAVQSLAAGINRAGS--DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred HHHHHHHHHHHHhhCC--CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 9999999999999987 57899999999999999999999999998877899999988764
No 43
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.95 E-value=1.1e-26 Score=250.12 Aligned_cols=253 Identities=17% Similarity=0.260 Sum_probs=210.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC----CCCCeEEEecCChHHHHHHHHHHHhh---
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS----TRWPFLVRMANSSAEQITCTAALVGS--- 73 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~----~~~~~~~r~~p~~~~~~~ai~~ll~~--- 73 (793)
|+.+++|.+||||.+|..+.++++++++++||+|+++++ ++.++. ..++++||+.|++..++.++++++.+
T Consensus 62 li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~ 139 (344)
T cd06345 62 LVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAA--SPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLV 139 (344)
T ss_pred HhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCC--CCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhc
Confidence 466679999999999999999999999999999999887 677752 56899999999999999999998876
Q ss_pred --cCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChH
Q 003821 74 --YNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLA 151 (793)
Q Consensus 74 --~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~ 151 (793)
++|++|++++++++|| ......+++.+++.|++|+....++... .++..++.+|++.++++|++ .+...
T Consensus 140 ~~~~~~~va~l~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~ 210 (344)
T cd06345 140 DKHGFKTAAIVAEDAAWG--KGIDAGIKALLPEAGLEVVSVERFSPDT------TDFTPILQQIKAADPDVIIA-GFSGN 210 (344)
T ss_pred ccCCCceEEEEecCchhh--hHHHHHHHHHHHHcCCeEEEEEecCCCC------CchHHHHHHHHhcCCCEEEE-eecCc
Confidence 8999999999999999 9999999999999999999888887765 57899999999999999998 88888
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEEeCCc-ccc-----------ceeeccccc---CCchhhhHHHHHHHHhhhhcCCCCCC
Q 003821 152 MGIHLFREAKEMGLVGPDSVWVIASDT-ITS-----------ALGIKTHFS---QDSSSYKIFEDQFRSYFRSEYPEDDV 216 (793)
Q Consensus 152 ~~~~~l~~a~~~g~~~~~~~wi~~~~~-~~~-----------~~g~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~ 216 (793)
++..+++++++.|+..+ ...... .+ ... ......+.+ ..++..++|.++|+++|+.
T Consensus 211 ~~~~~~~~~~~~g~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~------- 281 (344)
T cd06345 211 VGVLFTQQWAEQKVPIP-TIGISV-EGNSPAFWKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFGG------- 281 (344)
T ss_pred hHHHHHHHHHHcCCCCc-eEEecC-CcCCHHHHHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhCC-------
Confidence 89999999999998543 221111 11 000 111112222 2346778899999888743
Q ss_pred CCcchhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCC
Q 003821 217 SEPGIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNS 276 (793)
Q Consensus 217 ~~~~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~ 276 (793)
.|+.+++.+||+++++++|+++++. .++..+.++|++.+|+|++|+++||++|++..
T Consensus 282 -~p~~~~~~~yda~~~l~~A~~~ag~--~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 282 -PPNYMGASTYDSIYILAEAIERAGS--TDGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred -CCcccchHHHHHHHHHHHHHHHhcC--CCHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 5778899999999999999999987 67899999999999999999999999999743
No 44
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.95 E-value=3.6e-26 Score=245.00 Aligned_cols=245 Identities=22% Similarity=0.326 Sum_probs=194.6
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.||+||.+|..+.+++++|+.++||+|+++++ ++.++. ..++|++|+.|++..+++++++++++++|++|+
T Consensus 59 ~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~ 136 (328)
T cd06351 59 LVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGG--SEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFA 136 (328)
T ss_pred HhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecC--cccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEE
Confidence 44678999999999999999999999999999999988 666653 578999999999999999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhc---CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCc-eEEEEeccChHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQIS---NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTES-RVFIILQSSLAMGIHL 156 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~vivvl~~~~~~~~~~ 156 (793)
+||++++++ ..+++.+++. +..+. ...+.+.. +++...++++++.++ ++|+. ++..+.+..+
T Consensus 137 iiy~~~~~~------~~l~~~~~~~~~~~~~v~-~~~~~~~~------~~~~~~l~~l~~~~~~~vil~-~~~~~~~~~~ 202 (328)
T cd06351 137 IIYDSDEGL------SRLQELLDESGIKGIQVT-VRRLDLDD------DNYRQLLKELKRSESRRIILD-CSSEEEAKEI 202 (328)
T ss_pred EEEeCchHH------HHHHHHHHhhcccCceEE-EEEecCCc------hhHHHHHHHHhhcccceEEEE-CCcHHHHHHH
Confidence 999999854 3344444433 33433 33455443 368899999999888 66555 5555999999
Q ss_pred HHHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhh
Q 003821 157 FREAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYA 223 (793)
Q Consensus 157 l~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a 223 (793)
+++|+++||++++|+||++ +.... +.|+....+. ++...+|..+|. ..++......+...+
T Consensus 203 l~~a~~~gm~~~~~~~i~~-~~~~~~~d~~~~~~~~~~i~g~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~ 276 (328)
T cd06351 203 LEQAVELGMMGYGYHWILT-NLDLSDIDLEPFQYGPANITGFRLVDPD-SPDVSQFLQRWL----EESPGVNLRAPIYDA 276 (328)
T ss_pred HHHHHHhccccCCcEEEEe-cCCccccchhhhccCCcceEEEEEeCCC-chHHHHHHHhhh----hccCCCCcCccchhh
Confidence 9999999999999999999 55432 4555544333 356777777772 223333344566788
Q ss_pred HhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEee-cceeEEEEEecC
Q 003821 224 LRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMV-GKKYKEIDFWLP 297 (793)
Q Consensus 224 ~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~~~~~VG~w~~ 297 (793)
+.+||+++++ ||++.||++|+|.++.++|+++. +.++++||.|++
T Consensus 277 ~~~~d~~~~~-----------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 277 ALLYDAVLLL-----------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred HhhhcEEEEE-----------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 9999998877 89999999999999999999999 889999999994
No 45
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.94 E-value=4.3e-26 Score=241.78 Aligned_cols=232 Identities=17% Similarity=0.275 Sum_probs=197.4
Q ss_pred CCcccceEEEEcCCChhhHHHH-HHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceE
Q 003821 1 MIKEKEVKVIVGMETWGAATMV-ADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRK 78 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~v-a~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~ 78 (793)
|+.+++|.+|+||.+|..+.++ ++++++.++|+|+++++ ++.++. ..++|+||+.|++..++.++++++.+++|++
T Consensus 62 li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~ 139 (312)
T cd06346 62 LVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSST--SPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKS 139 (312)
T ss_pred HHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCC--CccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCe
Confidence 4667799999999999999999 99999999999999988 788875 4578999999999999999999999999999
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
+++||++++|| .+..+.+++.+++.|++|+....+++.+ .|+..++.++++.++|+|++ .+...++..+++
T Consensus 140 vail~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~ 210 (312)
T cd06346 140 VATTYINNDYG--VGLADAFTKAFEALGGTVTNVVAHEEGK------SSYSSEVAAAAAGGPDALVV-IGYPETGSGILR 210 (312)
T ss_pred EEEEEccCchh--hHHHHHHHHHHHHcCCEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-ecccchHHHHHH
Confidence 99999999999 9999999999999999999988888776 78999999999999999998 788889999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc--------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhH
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS--------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYAL 224 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 224 (793)
++++.|+..+ |+.+ ++... +++..+.. ..+..++|.++|+++|+. .|+.+++
T Consensus 211 ~~~~~G~~~~---~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~f~~~~~~~~g~--------~p~~~~~ 276 (312)
T cd06346 211 SAYEQGLFDK---FLLT-DGMKSDSFLPADGGYILAGSYGTSPGA--GGPGLEAFTSAYKAAYGE--------SPSAFAD 276 (312)
T ss_pred HHHHcCCCCc---eEee-ccccChHHHHhhhHHHhCCcEEccCCC--CchhHHHHHHHHHHHhCC--------CCCccch
Confidence 9999999543 5554 33221 22222211 126678999999998843 4778899
Q ss_pred hHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEE
Q 003821 225 RAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILR 280 (793)
Q Consensus 225 ~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~ 280 (793)
.+||+++++++| |.|++|+++||++|++.. .|.
T Consensus 277 ~~Yd~~~~l~~A----------------------~~g~~g~~~f~~~g~~~~-~~~ 309 (312)
T cd06346 277 QSYDAAALLALA----------------------YQGASGVVDFDENGDVAG-SYD 309 (312)
T ss_pred hhHHHHHHHHHH----------------------hCCCccceeeCCCCCccc-cee
Confidence 999999999999 899999999999998643 544
No 46
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.94 E-value=2.4e-25 Score=233.35 Aligned_cols=260 Identities=12% Similarity=0.184 Sum_probs=187.2
Q ss_pred ccceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCC-CCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPL-TSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l-~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
.+||.||+| |.++..+..+..+|+.++||+|+++.. ++.. +...+.+.+++.|+...++.|+++++++|+|++|++
T Consensus 79 ~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~--~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~ 156 (382)
T cd06377 79 VQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRR--EFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSL 156 (382)
T ss_pred hCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCC--cccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 579999999 488889999999999999999999665 3222 223333344679999999999999999999999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCc-eeeEEeecCCCCCCCCChHHH-HHHHHHhhcCC-ceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNS-EIEYRLVLPPISYLTDPKQFL-QEKLLKLLRTE-SRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~-~~~l~~l~~~~-~~vivvl~~~~~~~~~~l~ 158 (793)
||+.++. ...|++.++..+. .+...+.+.......++..++ ...|+++++.. .++|++ +|+.+.+..+++
T Consensus 157 iy~~~~g------l~~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill-~cs~e~~~~il~ 229 (382)
T cd06377 157 VLCRERD------PTGLLLLWTNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLF-GCDVARARRVLE 229 (382)
T ss_pred EEecCcC------HHHHHHHHHHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEE-ECCHHHHHHHHH
Confidence 9999983 4556666665543 222233343321111122344 88999999888 888888 999999999998
Q ss_pred HHHHcCCCCCCeEEEEeCCccccceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHHHHHHh
Q 003821 159 EAKEMGLVGPDSVWVIASDTITSALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVVAKSID 238 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~la~Al~ 238 (793)
++.+ .|+||++ +.. .+..+....-|.. +. .|.+ ......++++||||+++|+|++
T Consensus 230 ~~~~------~y~wIv~-~~~----~le~~~~~g~nig--Ll-~~~~-----------~~~~~l~ali~DAV~lvA~a~~ 284 (382)
T cd06377 230 LTPP------GPHWILG-DPL----PPEALRTEGLPPG--LL-AHGE-----------TTQPPLEAYVQDALELVARAVG 284 (382)
T ss_pred hhcc------ceEEEEc-CCc----ChhhccCCCCCce--EE-EEee-----------cccccHHHHHHHHHHHHHHHHH
Confidence 8766 3999999 411 1111111110100 11 1210 0111238999999999999999
Q ss_pred hcc--------------------C-CCCChhhHHHhhhhcccccceeeEEEeCCCcC--CCCcEEEEEee--cce---eE
Q 003821 239 GMT--------------------S-DNSSSKISLGYILSSNFTGLSGPISFRGGKLL--NSPILRIINMV--GKK---YK 290 (793)
Q Consensus 239 ~~~--------------------~-~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~--~~~~~~I~~~~--~~~---~~ 290 (793)
.+. . .|.+|..|.++|++++|+|.||+|.|+ +|.| .++.++|++++ ..+ |+
T Consensus 285 ~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~~W~ 363 (382)
T cd06377 285 SATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQPTWT 363 (382)
T ss_pred HhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCccce
Confidence 641 1 345789999999999999999999995 5777 79999999998 433 69
Q ss_pred EEEEecCC
Q 003821 291 EIDFWLPK 298 (793)
Q Consensus 291 ~VG~w~~~ 298 (793)
+||.|++.
T Consensus 364 kVG~W~~~ 371 (382)
T cd06377 364 TVGSWQGG 371 (382)
T ss_pred EEEEecCC
Confidence 99999986
No 47
>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=99.94 E-value=4.2e-26 Score=246.42 Aligned_cols=233 Identities=24% Similarity=0.391 Sum_probs=195.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC-CCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT-STRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++|.|||||.+|..+.+++++++.++||+|+++++ ++.++ ...+||+||+.|++..++.++++++++++|++|++||
T Consensus 90 ~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~--~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~ 167 (348)
T cd06350 90 PKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGAT--SPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVY 167 (348)
T ss_pred CceEEEECCCccHHHHHHHHHHhcCcCceecccCC--ChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEE
Confidence 79999999999999999999999999999999998 78885 4568999999999999999999999999999999999
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
++++|| ....+.+++.+++.|+|++..+.++... ...++...+++++++++|+|++ .+..+++..++++|+++
T Consensus 168 ~~~~~g--~~~~~~~~~~~~~~gi~v~~~~~~~~~~----~~~d~~~~l~~l~~~~~~vvv~-~~~~~~~~~~~~~a~~~ 240 (348)
T cd06350 168 SDDDYG--RSGLSDLEEELEKNGICIAFVEAIPPSS----TEEDIKRILKKLKSSTARVIVV-FGDEDDALRLFCEAYKL 240 (348)
T ss_pred ecchhH--HHHHHHHHHHHHHCCCcEEEEEEccCCC----cHHHHHHHHHHHHhCCCcEEEE-EeCcHHHHHHHHHHHHh
Confidence 999999 9999999999999999999988887652 2368999999999999999998 89999999999999999
Q ss_pred CCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHH
Q 003821 164 GLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSI 230 (793)
Q Consensus 164 g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv 230 (793)
|+ ++.++|+.. .+... ++++..+.+.. ....+|.+.+++ +++.+|||+
T Consensus 241 g~-~~~~~i~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~----------------~~~~~YDav 301 (348)
T cd06350 241 GM-TGKYWIIST-DWDTSTCLLLFTLDAFQGVLGFSGHAPRS-GEIPGFKDFLRK----------------YAYNVYDAV 301 (348)
T ss_pred CC-CCeEEEEEc-cccCccccccCCcceeeeEEEEEEEeecC-CcCCChHHHHHH----------------HHHHHHhhe
Confidence 99 455555443 44322 33333333322 234556555554 578999999
Q ss_pred HHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec----ceeEEEEEecCC
Q 003821 231 TVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG----KKYKEIDFWLPK 298 (793)
Q Consensus 231 ~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~----~~~~~VG~w~~~ 298 (793)
++ .+.||++|++ ...+.|++++. ..+++||.|++.
T Consensus 302 ~~--------------------------------~v~f~~~gd~-~~~~~i~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 302 YA--------------------------------EVKFDENGDR-LASYDIINWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred eE--------------------------------EEEecCCCCc-ccceeEEEEEEcCCcEEEEEEEEEcCC
Confidence 99 7999999997 56788888875 679999999974
No 48
>cd06340 PBP1_ABC_ligand_binding_like_6 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. 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); however their ligand specificity has not been determined experimentally.
Probab=99.94 E-value=1.5e-25 Score=241.40 Aligned_cols=254 Identities=17% Similarity=0.198 Sum_probs=211.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc------
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY------ 74 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~------ 74 (793)
|+++++|.+|+||.+|..+.++++++++.+||+|+++++ ++.+++..+||+||+.|++..++.++++++.++
T Consensus 65 li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~ 142 (347)
T cd06340 65 LITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAV--SDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGK 142 (347)
T ss_pred HhccCCceEEecccchHhHHHHHHHHHHhCCCEEecccc--chHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCC
Confidence 456679999999999999999999999999999999888 777777778999999999999999999999876
Q ss_pred CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 75 NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 75 ~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+|+++++|++++.|| ....+.+++.+++.|++|+....++..+ .|+..++.++++.++|+|++ .+...++.
T Consensus 143 ~~~~v~~l~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~i~~l~~~~~d~v~~-~~~~~~~~ 213 (347)
T cd06340 143 PLKTVALVHEDTEFG--TSVAEAIKKFAKERGFEIVEDISYPANA------RDLTSEVLKLKAANPDAILP-ASYTNDAI 213 (347)
T ss_pred CCceEEEEecCchHh--HHHHHHHHHHHHHcCCEEEEeeccCCCC------cchHHHHHHHHhcCCCEEEE-cccchhHH
Confidence 469999999999999 9999999999999999999888888765 67999999999999999998 88999999
Q ss_pred HHHHHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcch
Q 003821 155 HLFREAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGI 221 (793)
Q Consensus 155 ~~l~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 221 (793)
.+++++++.|+..+ .++... .+... .+...++.+...+..++|.++|+++|+. .|+.
T Consensus 214 ~~~~~~~~~G~~~~-~~~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~--------~~~~ 283 (347)
T cd06340 214 LLVRTMKEQRVEPK-AVYSVG-GGAEDPSFVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFGV--------DLSG 283 (347)
T ss_pred HHHHHHHHcCCCCc-EEEecC-CCcCcHHHHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhCC--------CCCh
Confidence 99999999999754 222222 22211 2333334343347788999999988742 4678
Q ss_pred hhHhHhHHHHHHHHHHhhccCCCCChhhHHH--hhhhccccc---ceeeEEEeCCCcCCCC
Q 003821 222 YALRAYDSITVVAKSIDGMTSDNSSSKISLG--YILSSNFTG---LSGPISFRGGKLLNSP 277 (793)
Q Consensus 222 ~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~--~l~~~~f~G---~tG~i~Fd~~g~~~~~ 277 (793)
++..+||+++++++|++++++ .++..+.+ +|++..+.+ .+|+++||++|+..++
T Consensus 284 ~~~~~Y~a~~~l~~A~~~ag~--~~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 284 NSARAYTAVLVIADALERAGS--ADPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHHHHHHHHHHHHHHHhcC--CCHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 899999999999999999987 67888984 888887654 5789999999997653
No 49
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.94 E-value=6.7e-25 Score=236.43 Aligned_cols=257 Identities=19% Similarity=0.283 Sum_probs=207.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHH-HHHHHHHhhc-CceE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQI-TCTAALVGSY-NWRK 78 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~-~ai~~ll~~~-~w~~ 78 (793)
|+.+++|.+|+||.+|.++.++.+++++.+||+|+++++ ++.+. ..++|+||+.+++..+. .++..+++++ +|++
T Consensus 62 li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~ 138 (344)
T cd06348 62 LINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNT--AKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKR 138 (344)
T ss_pred HhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCC--CCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeE
Confidence 466779999999999999999999999999999999877 55553 35689999988776554 4455677787 9999
Q ss_pred EEEEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 79 VIIIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 79 vaii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+++||.+++ || ....+.+++.+++.|++++....++... .|+..++.+++++++|+|++ .+...++..++
T Consensus 139 v~~l~~~~~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~d~~~~v~~i~~~~~d~vi~-~~~~~~~~~~~ 209 (344)
T cd06348 139 VAVFYAQDDAFS--VSETEIFQKALRDQGLNLVTVQTFQTGD------TDFQAQITAVLNSKPDLIVI-SALAADGGNLV 209 (344)
T ss_pred EEEEEeCCchHH--HHHHHHHHHHHHHcCCEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-CCcchhHHHHH
Confidence 999998766 99 9999999999999999999888888765 67999999999999999998 88999999999
Q ss_pred HHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhh
Q 003821 158 REAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYA 223 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a 223 (793)
+++++.|+..+ ++.+ .+... ++....+.+. ..+..++|.+.|+++|+ ..|+.++
T Consensus 210 ~~~~~~g~~~~---~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~ 277 (344)
T cd06348 210 RQLRELGYNGL---IVGG-NGFNTPNVFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--------KAPPQFS 277 (344)
T ss_pred HHHHHcCCCCc---eecc-ccccCHHHHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--------CCccHHH
Confidence 99999999754 3433 22221 2222333322 23667889999988874 2566788
Q ss_pred HhHhHHHHHHHHHHhhccCCC-CC-------hhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEE
Q 003821 224 LRAYDSITVVAKSIDGMTSDN-SS-------SKISLGYILSSNFTGLSGPISFRGGKLLNSPILRI 281 (793)
Q Consensus 224 ~~~YDAv~~la~Al~~~~~~~-~~-------g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I 281 (793)
..+|||++++++|+++++... .+ +..|.++|++.+|+|++|++.||++|++....+.|
T Consensus 278 ~~~yda~~~~~~A~~~a~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 278 AQAFDAVQVVAEALKRLNQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred HHHHHHHHHHHHHHHHhcCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 999999999999999997631 11 56889999999999999999999999987666543
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 uptake 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=99.93 E-value=5.7e-25 Score=235.54 Aligned_cols=249 Identities=15% Similarity=0.127 Sum_probs=203.3
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcC-ceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYN-WRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~-w~~v 79 (793)
|+++++|++|+|+.+|..+.++++++++.++|+|+++++ ++.++ ..+||+||+.|++..+++++++++++.+ |++|
T Consensus 61 li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~--~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v 137 (332)
T cd06344 61 LVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTST--SVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKV 137 (332)
T ss_pred HhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcC--chhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeE
Confidence 567789999999999999999999999999999999877 67776 5679999999999999999999998876 9999
Q ss_pred EEEEEcCC-CccccccHHHHHHHHHh-cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 80 IIIYEDDA-TNADTGNLALLSEALQI-SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 80 aii~~dd~-~G~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
++||++++ || ....+.+++.+++ .|.++.....+...+ .++..++.++++.++++|++ .+.......++
T Consensus 138 ~~i~~~~~~~g--~~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~ 208 (332)
T cd06344 138 AIFYNSTSPYS--QSLKQEFTSALLERGGGIVVTPCDLSSPD------FNANTAVSQAINNGATVLVL-FPDTDTLDKAL 208 (332)
T ss_pred EEEeCCCchHh--HHHHHHHHHHHHHhcCCeeeeeccCCCCC------CCHHHHHHHHHhcCCCEEEE-eCChhHHHHHH
Confidence 99999987 99 9999999999999 588887655544333 45778999999999999998 78888888999
Q ss_pred HHHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhH
Q 003821 158 REAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYAL 224 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 224 (793)
+++++.+.. ..++.+ ++... +....++.+. ++..++|.+.|+++++. .|+.+++
T Consensus 209 ~~~~~~~~~---~~i~~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~--------~~~~~a~ 275 (332)
T cd06344 209 EVAKANKGR---LTLLGG-DSLYTPDTLLDGGKDLEGLVLAVPWHPL-ASPNSPFAKLAQQLWGG--------DVSWRTA 275 (332)
T ss_pred HHHHhcCCC---ceEEec-ccccCHHHHHhchhhhcCeEEEEecccc-cccchHHHHHHHHHhcC--------CchHHHH
Confidence 999987752 223333 33221 3333344443 35678999999988743 5778899
Q ss_pred hHhHHHHHHHHHHhhccCCCCChhhHH-HhhhhcccccceeeEEEeCCCcCCC
Q 003821 225 RAYDSITVVAKSIDGMTSDNSSSKISL-GYILSSNFTGLSGPISFRGGKLLNS 276 (793)
Q Consensus 225 ~~YDAv~~la~Al~~~~~~~~~g~~l~-~~l~~~~f~G~tG~i~Fd~~g~~~~ 276 (793)
.+||+++++++|++++++ .++..+. .+++...|+|..|+++||++|++..
T Consensus 276 ~~Yda~~~l~~A~~~ag~--~~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 276 TAYDATKALIAALSQGPT--REGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred hHHHHHHHHHHHHHhCCC--hhhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 999999999999999987 4666666 6788888999999999999999754
No 51
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=99.93 E-value=9.7e-25 Score=234.82 Aligned_cols=269 Identities=13% Similarity=0.111 Sum_probs=215.5
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~~v 79 (793)
|+.+++|.+|+|+.+|+.+.++.+++++.++|+|++.+. .. ....||+||+.+++..++..+++++.. .++++|
T Consensus 62 Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~v 136 (348)
T cd06355 62 LLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQY--EG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRF 136 (348)
T ss_pred HHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCc--cC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeE
Confidence 566789999999999999999999999999999986543 22 235689999999999999999998764 579999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++++.|++|| ....+.+++.+++.|++++....++... .|+..++.++++.++|+|++ ....+++..++++
T Consensus 137 aii~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~D~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~ 207 (348)
T cd06355 137 YLVGSDYVYP--RTANKILKAQLESLGGEVVGEEYLPLGH------TDFQSIINKIKAAKPDVVVS-TVNGDSNVAFFKQ 207 (348)
T ss_pred EEECCcchHH--HHHHHHHHHHHHHcCCeEEeeEEecCCh------hhHHHHHHHHHHhCCCEEEE-eccCCchHHHHHH
Confidence 9999999999 9999999999999999999988888766 78999999999999999998 7888899999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc---------cee---eccc-ccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 160 AKEMGLVGPDSVWVIASDTITS---------ALG---IKTH-FSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~---------~~g---~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
+++.|+.++...++.. ..... ..| ...+ ....+|..++|.++|+++|+.. ..++.+++.+
T Consensus 208 ~~~~G~~~~~~~~~~~-~~~~~~~~~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~------~~~~~~a~~~ 280 (348)
T cd06355 208 LKAAGITASKVPVLSF-SVAEEELRGIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQD------RVTNDPMEAA 280 (348)
T ss_pred HHHcCCCccCCeeEEc-cccHHHHhhcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCC------CCCCcHHHHH
Confidence 9999997654444433 11110 111 1111 1223477888999998887431 1345578899
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEee-cceeEEE
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMV-GKKYKEI 292 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~~~~~V 292 (793)
||+++++++|++++++ .+++.+.++|++.+|+|..|.++|++.++.....+.|.++. ++.++.|
T Consensus 281 Y~a~~~~~~Al~~ag~--~~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 281 YIGVYLWKQAVEKAGS--FDVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred HHHHHHHHHHHHHhCC--CCHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 9999999999999987 68999999999999999999999998555444566677775 4555554
No 52
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.93 E-value=1.4e-24 Score=234.29 Aligned_cols=267 Identities=21% Similarity=0.259 Sum_probs=220.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCC-CeEEEecCChHHHHHHHHHHHh-hcCceE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRW-PFLVRMANSSAEQITCTAALVG-SYNWRK 78 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~-~~~~r~~p~~~~~~~ai~~ll~-~~~w~~ 78 (793)
|+.+++|.+|||+.+|..+.++.+++++.++|+|+++++ ++.+..... +++||+.|++..|+.++++++. ..+.++
T Consensus 73 li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st--~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~ 150 (366)
T COG0683 73 LITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSAT--APQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKR 150 (366)
T ss_pred HHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCC--CCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcE
Confidence 567799999999999999999999999999999999999 787765444 4599999999999999999885 566679
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
|++|++|+.|| .+..+.+++.+++.|.+++....+.+.+ .++..++.++++.++++|++ .+..+++..+++
T Consensus 151 v~ii~~~~~yg--~~~~~~~~~~l~~~G~~~~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~r 221 (366)
T COG0683 151 VAIIGDDYAYG--EGLADAFKAALKALGGEVVVEEVYAPGD------TDFSALVAKIKAAGPDAVLV-GGYGPDAALFLR 221 (366)
T ss_pred EEEEeCCCCcc--hhHHHHHHHHHHhCCCeEEEEEeeCCCC------CChHHHHHHHHhcCCCEEEE-CCCCccchHHHH
Confidence 99999999999 9999999999999999866556777766 45999999999999999888 899999999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc---cee----------ecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS---ALG----------IKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~---~~g----------~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
++++.|+....+ ++.+ ..... ..+ .....+...|..+.|.++|+++++. ...++.++..
T Consensus 222 ~~~~~G~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~ 293 (366)
T COG0683 222 QAREQGLKAKLI-GGDG-AGTAEFEEIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGD------PAAPSYFAAA 293 (366)
T ss_pred HHHHcCCCCccc-cccc-cCchhhhhhcccCccccEEEEecccccccCcchHHHHHHHHHHhCC------CCCcccchHH
Confidence 999999976522 2222 11111 111 1112233346677799999998851 2456778999
Q ss_pred HhHHHHHHHHHHhhccCCCCChhhHHHhhhhcc-cccceeeEEEeCCCcCCCCcEEEEEeecc
Q 003821 226 AYDSITVVAKSIDGMTSDNSSSKISLGYILSSN-FTGLSGPISFRGGKLLNSPILRIINMVGK 287 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~-f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~ 287 (793)
+||+++++++|+++++. ..+++.+.++|+... +.+.+|.+.||++|++....+.|.++...
T Consensus 294 ~y~a~~~~~~ai~~a~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 294 AYDAVKLLAKAIEKAGK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred HHHHHHHHHHHHHHHhc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 99999999999999994 256888999999887 68899999999999999999999998854
No 53
>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=99.93 E-value=3.3e-24 Score=230.53 Aligned_cols=255 Identities=16% Similarity=0.205 Sum_probs=212.5
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCC-CCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTST-RWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~-~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.+||||.+|..+.++++++++.+||+|+++++ ++.++.. .+|++||+.|++..++..+++++...+|++++
T Consensus 61 v~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~ 138 (336)
T cd06360 61 IEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAG--ADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVV 138 (336)
T ss_pred HHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCC--CccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEE
Confidence 45578999999999999999999999999999999887 6777643 37899999999999999999999989999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+++.++.|| .+..+.+++.+++.|++++....++... .|+..++.++++.++|+|++ .....++..+++++
T Consensus 139 ~l~~~~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~~~------~d~~~~v~~~~~~~pd~v~~-~~~~~~~~~~~~~~ 209 (336)
T cd06360 139 TVAWDYAFG--YEVVEGFKEAFTEAGGKIVKELWVPFGT------SDFASYLAQIPDDVPDAVFV-FFAGGDAIKFVKQY 209 (336)
T ss_pred EEeccchhh--HHHHHHHHHHHHHcCCEEEEEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccccHHHHHHHH
Confidence 999999999 9889999999999999998877777655 68999999999999999998 77788899999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 161 KEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
++.|+.++ ..++.+ ++... ++...++.+. .++..+.|.++|+++++ ..|+.++..+
T Consensus 210 ~~~g~~~~-~~~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~ 279 (336)
T cd06360 210 DAAGLKAK-IPLIGS-GFLTDGTTLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--------DTPSVYAVQG 279 (336)
T ss_pred HHcCCccC-CeEEec-ccccCHHHHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--------CCccHHHHHH
Confidence 99999643 234443 33221 2222233222 34778899999988873 2577899999
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCC
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSP 277 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~ 277 (793)
||+++++++|+++++++..++..+.++|++.+|.|..|+++|+++|++..+
T Consensus 280 yda~~~~~~A~~~a~~~~~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 280 YDAGQALILALEAVGGDLSDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred HHHHHHHHHHHHHhCCCCCCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 999999999999998754578899999999999999999999999887554
No 54
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=99.93 E-value=1.5e-24 Score=232.54 Aligned_cols=253 Identities=13% Similarity=0.136 Sum_probs=208.3
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCC-CCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTST-RWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~-~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
|+.+++|.+||||.+|..+.++++++++.+||+|+++++ ++.++.. ..||+||+.|++..++.++++++...+++++
T Consensus 61 l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06327 61 WIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAG--SDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKW 138 (334)
T ss_pred HHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCC--ccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeE
Confidence 456679999999999999999999999999999999888 6777653 4799999999999999999998887789999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++++.+++|| ....+.+++.+++.|++++....++... .|+..++.++++.++|+|++ .+...++..++++
T Consensus 139 ~~i~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~ 209 (334)
T cd06327 139 FFLTADYAFG--HSLERDARKVVKANGGKVVGSVRHPLGT------SDFSSYLLQAQASGADVLVL-ANAGADTVNAIKQ 209 (334)
T ss_pred EEEecchHHh--HHHHHHHHHHHHhcCCEEcCcccCCCCC------ccHHHHHHHHHhCCCCEEEE-eccchhHHHHHHH
Confidence 9999999999 9999999999999999999888887765 67999999999999999998 8888999999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-----------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-----------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-----------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
+++.|+..+. .++..+..... ++...++.+. ..+..++|.++|+++++. .|+.+++.+|
T Consensus 210 ~~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~Y 280 (334)
T cd06327 210 AAEFGLTKGQ-KLAGLLLFLTDVHSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK--------MPSMVQAGAY 280 (334)
T ss_pred HHHhCCccCC-cEEEecccHHHHHhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCc--------CCCcHHHHHH
Confidence 9999996332 22222111110 2222333222 257788999999988743 4677889999
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhhcc-cccceeeEEEeC-CCcCC
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILSSN-FTGLSGPISFRG-GKLLN 275 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~~~-f~G~tG~i~Fd~-~g~~~ 275 (793)
|+++++++|++++++ .++..+.++|++++ ++++.|+++|+. +++..
T Consensus 281 ~~~~~~~~A~~~ag~--~~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 281 SAVLHYLKAVEAAGT--DDADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred HHHHHHHHHHHHHCC--CChHHHHHhccccceeccCCCCceeeccccchh
Confidence 999999999999998 67888999999976 588899999986 55543
No 55
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.92 E-value=1.4e-23 Score=225.48 Aligned_cols=250 Identities=18% Similarity=0.252 Sum_probs=205.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
|+.+++|.+||||.+|..+.+++++++..+||+|+++++ .+.+++. .+++||+.|++..++.++++++ ++++|++|
T Consensus 62 li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~--~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06347 62 LIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSAT--NPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKA 138 (334)
T ss_pred HhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCC--CCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEE
Confidence 456679999999999999999999999999999999887 6666543 3589999999999999999987 66899999
Q ss_pred EEEEEcC-CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 80 IIIYEDD-ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 80 aii~~dd-~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
++||.++ +|| ....+.+++.+++.|++++....++... .++...++++++.++++|++ .+..++...+++
T Consensus 139 ~ii~~~~~~~~--~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~d~~~~~~~~~~~~~d~i~~-~~~~~~~~~~~~ 209 (334)
T cd06347 139 AVLYDNSSDYS--KGLAKAFKEAFKKLGGEIVAEETFNAGD------TDFSAQLTKIKAKNPDVIFL-PGYYTEVGLIAK 209 (334)
T ss_pred EEEEeCCCchh--HHHHHHHHHHHHHcCCEEEEEEEecCCC------CcHHHHHHHHHhcCCCEEEE-cCchhhHHHHHH
Confidence 9999986 798 8888999999999999998887777655 56889999999999999998 889999999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhH
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYAL 224 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 224 (793)
++++.|+.. .|+.+ +.... +....++.+. .++..+.|.+.|++++. ..|+.++.
T Consensus 210 ~~~~~g~~~---~i~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~ 277 (334)
T cd06347 210 QARELGIKV---PILGG-DGWDSPKLEEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--------KEPDAFAA 277 (334)
T ss_pred HHHHcCCCC---cEEec-ccccCHHHHHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhHH
Confidence 999999843 45554 33321 1112233222 24778889988887763 35677889
Q ss_pred hHhHHHHHHHHHHhhccCCCCChhhHHHhhhhc-ccccceeeEEEeCCCcCCC
Q 003821 225 RAYDSITVVAKSIDGMTSDNSSSKISLGYILSS-NFTGLSGPISFRGGKLLNS 276 (793)
Q Consensus 225 ~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~-~f~G~tG~i~Fd~~g~~~~ 276 (793)
.+||+++++++|+++++. .++..+.++|++. +|+|++|+++|+++|+..+
T Consensus 278 ~~yda~~~~~~Al~~ag~--~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~ 328 (334)
T cd06347 278 LGYDAYYLLADAIERAGS--TDPEAIRDALAKTKDFDGVTGKITIDENGNPVK 328 (334)
T ss_pred HHHHHHHHHHHHHHHhCC--CCHHHHHHHHHhCCCcccceeeeEECCCCCcCC
Confidence 999999999999999987 5789999998765 6999999999999887644
No 56
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=99.92 E-value=6.9e-24 Score=227.22 Aligned_cols=257 Identities=12% Similarity=0.173 Sum_probs=203.7
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
|+.+++|.+|+||.+|..+.+++++++..+||+|+++++ ++.+.. ..+||+||+.|++..++.++++++...+|++|
T Consensus 60 lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~v 137 (333)
T cd06359 60 LIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAG--PSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRV 137 (333)
T ss_pred HHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCC--ccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeE
Confidence 456679999999999999999999999999999998766 455553 35799999999999999999999999999999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
+++++|++|| ....+.+++.++ .+++....++... .|+..++.++++.++|+|++ .....++..++++
T Consensus 138 ail~~~~~~g--~~~~~~~~~~~~---~~v~~~~~~~~~~------~d~~~~i~~l~~~~pd~v~~-~~~~~~~~~~~~~ 205 (333)
T cd06359 138 FLIAPNYQAG--KDALAGFKRTFK---GEVVGEVYTKLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMGVNFVKQ 205 (333)
T ss_pred EEEecCchhh--HHHHHHHHHHhC---ceeeeeecCCCCC------cchHHHHHHHHhCCCCEEEE-EccCccHHHHHHH
Confidence 9999999999 888888877764 3555555555544 67999999999999999998 6777789999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
+++.|+... ..++.+ .+... ++...++.+. .++..++|.++|+++|+ ..|+.++..
T Consensus 206 ~~~~G~~~~-~~~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~ 275 (333)
T cd06359 206 YRQAGLKKD-IPLYSP-GFSDEEDTLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG--------RLPTLYAAQ 275 (333)
T ss_pred HHHcCcccC-Ceeecc-CcccCHHHHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC--------CCCcHHHHH
Confidence 999999542 223332 11111 2222223222 34778899999988873 257788999
Q ss_pred HhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEE
Q 003821 226 AYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRII 282 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~ 282 (793)
+||+++++++|+++++.+..++..+.++|++.+|+|++|+++|+++|+. ...+.++
T Consensus 276 ~yda~~~~~~A~~~ag~~~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 276 AYDAAQLLDSAVRKVGGNLSDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 9999999999999998643478999999999999999999999988774 3344444
No 57
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.92 E-value=2e-23 Score=224.48 Aligned_cols=261 Identities=16% Similarity=0.254 Sum_probs=209.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
|+++++|.+|+||.+|+.+.++++++++.++|+|+++++ ++.++. ..+|+||+.|++..++.++++++ ++.+|++|
T Consensus 62 li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v 138 (340)
T cd06349 62 FVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNS--HPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKV 138 (340)
T ss_pred HhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCC--CCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEE
Confidence 577889999999999999999999999999999999877 666654 46899999999999999999986 67899999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
+++|.+++|| ....+.+++.+++.|++++....+++.. .|+..++.++++.++|+|++ .+...++..++++
T Consensus 139 ~ii~~~~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~ 209 (340)
T cd06349 139 AILSVNTDWG--RTSADIFVKAAEKLGGQVVAHEEYVPGE------KDFRPTITRLRDANPDAIIL-ISYYNDGAPIARQ 209 (340)
T ss_pred EEEecCChHh--HHHHHHHHHHHHHcCCEEEEEEEeCCCC------CcHHHHHHHHHhcCCCEEEE-ccccchHHHHHHH
Confidence 9999999999 9999999999999999999887777765 67999999999999999998 8888999999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
+++.|+..+ ++.+ ..... ++...++.+. ..|..++|.++|+++|+ ..|+.++..
T Consensus 210 ~~~~g~~~~---~~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~ 277 (340)
T cd06349 210 ARAVGLDIP---VVAS-SSVYSPKFIELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--------AQPDAFAAQ 277 (340)
T ss_pred HHHcCCCCc---EEcc-CCcCCHHHHHHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhhhh
Confidence 999999754 3333 12111 2222333332 34677889999988774 246778999
Q ss_pred HhHHHHHHHHHHhhccCCCCChhhHHHh-hhhcccccceeeEEEeCC-CcCCCCcEEEEEeecce
Q 003821 226 AYDSITVVAKSIDGMTSDNSSSKISLGY-ILSSNFTGLSGPISFRGG-KLLNSPILRIINMVGKK 288 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~~~~~g~~l~~~-l~~~~f~G~tG~i~Fd~~-g~~~~~~~~I~~~~~~~ 288 (793)
+||++.++++|+++++. .+...+... +.+..+.|.+|+++|+++ ++. ...+.++++++++
T Consensus 278 ~y~~~~~~~~a~~~ag~--~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 278 AYDAVGILAAAVRRAGT--DRRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred HHHHHHHHHHHHHHhCC--CCHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 99999999999999987 333333333 244557899999999986 554 3478788776654
No 58
>cd06336 PBP1_ABC_ligand_binding_like_3 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 group 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 (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.92 E-value=5e-24 Score=229.51 Aligned_cols=255 Identities=15% Similarity=0.174 Sum_probs=208.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+.+++|.+|+|+.+|.++.+ ++++++.++|+|++.++ ++.++...++|+||+.|++..++.++++++...+|++|+
T Consensus 66 li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~ 142 (347)
T cd06336 66 LVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSS--DLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVA 142 (347)
T ss_pred HHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCC--cccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEE
Confidence 466679999999999999988 99999999999999988 777765677999999999999999999999889999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChH-HHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLA-MGIHLFRE 159 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~-~~~~~l~~ 159 (793)
+|+.|+.|| ....+.+++.+++.|++++....++... .|+..++.++++.++|+|++ .+... ++..++++
T Consensus 143 il~~d~~~g--~~~~~~~~~~l~~~G~~vv~~~~~~~~~------~D~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~ 213 (347)
T cd06336 143 LLGPNDAYG--QPWVAAYKAAWEAAGGKVVSEEPYDPGT------TDFSPIVTKLLAEKPDVIFL-GGPSPAPAALVIKQ 213 (347)
T ss_pred EEccCCchh--HHHHHHHHHHHHHcCCEEeeecccCCCC------cchHHHHHHHHhcCCCEEEE-cCCCchHHHHHHHH
Confidence 999999999 9999999999999999999888888765 78999999999999999998 77777 99999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc------------ceeecccccC---CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhH
Q 003821 160 AKEMGLVGPDSVWVIASDTITS------------ALGIKTHFSQ---DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYAL 224 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 224 (793)
++++|+..+. .+... ..... ++...++.+. .+|..++|.++|+++|+. .|+.++.
T Consensus 214 ~~~~g~~~~~-~~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~ 283 (347)
T cd06336 214 ARELGFKGGF-LSCTG-DKYDELLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--------PPNSEAA 283 (347)
T ss_pred HHHcCCCccE-EeccC-CCchHHHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--------CCcHHHH
Confidence 9999997652 12111 11111 2222333332 356778899999888742 4778899
Q ss_pred hHhHHHHHHHHHHhhccCCCCChhhHHHhhhh--------cccccceeeEEEeCCCcCCCCcE
Q 003821 225 RAYDSITVVAKSIDGMTSDNSSSKISLGYILS--------SNFTGLSGPISFRGGKLLNSPIL 279 (793)
Q Consensus 225 ~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~--------~~f~G~tG~i~Fd~~g~~~~~~~ 279 (793)
.+||++.++++|+++++. .++..+.+++.. ..|.+..|.+.||++|+...+..
T Consensus 284 ~~y~~~~~~~~Al~~ag~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 284 VSYDAVYILKAAMEAAGS--VDDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred HHHHHHHHHHHHHHhcCC--CCcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 999999999999999987 455555555433 45788889999999999765543
No 59
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 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); however its ligand specificity has not been determined experimentally.
Probab=99.92 E-value=1.2e-23 Score=228.42 Aligned_cols=267 Identities=17% Similarity=0.203 Sum_probs=216.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCC-CCCeEEEecCChHHHHHHHHHHH-hhcCceE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTST-RWPFLVRMANSSAEQITCTAALV-GSYNWRK 78 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~-~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~ 78 (793)
|+.+++|.+||||.+|..+.+++++++..+||+|++.++ ++.+++. .+||+||+.|++..++.++++++ ++++|++
T Consensus 69 li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~ 146 (362)
T cd06343 69 LVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASG--ASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAK 146 (362)
T ss_pred HHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccc--cHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCce
Confidence 456789999999999999999999999999999998877 6677654 78999999999999999999965 5789999
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
|++||+++.|| .+..+.+++.+++.|++++....++... .|+..++.++++.++++|++ .+...++..+++
T Consensus 147 v~ii~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~ 217 (362)
T cd06343 147 IAVLYQNDDFG--KDYLKGLKDGLGDAGLEIVAETSYEVTE------PDFDSQVAKLKAAGADVVVL-ATTPKFAAQAIR 217 (362)
T ss_pred EEEEEeccHHH--HHHHHHHHHHHHHcCCeEEEEeeecCCC------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHH
Confidence 99999999999 9999999999999999999888888766 67999999999999999998 888889999999
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc---------------ceeecccc-c-----CCchhhhHHHHHHHHhhhhcCCCCCCC
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS---------------ALGIKTHF-S-----QDSSSYKIFEDQFRSYFRSEYPEDDVS 217 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~---------------~~g~~~~~-~-----~~~~~~~~f~~~~~~~~~~~~~~~~~~ 217 (793)
++++.|+..+ ++.+ ++..+ ++....+. + ...+..++|.+.|+++++. ..
T Consensus 218 ~~~~~g~~~~---~~~~-~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~------~~ 287 (362)
T cd06343 218 KAAELGWKPT---FLLS-SVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPE------GD 287 (362)
T ss_pred HHHHcCCCce---EEEE-ecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCC------CC
Confidence 9999999754 3433 22111 11111111 1 2346678888888877632 11
Q ss_pred CcchhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhccc---ccc-eeeEEEeCCCcCCCCcEEEEEeeccee
Q 003821 218 EPGIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNF---TGL-SGPISFRGGKLLNSPILRIINMVGKKY 289 (793)
Q Consensus 218 ~~~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f---~G~-tG~i~Fd~~g~~~~~~~~I~~~~~~~~ 289 (793)
.|+.++..+||++.++++|+++++.. .+++.+.++|+++++ .+. .|++.|++++++....+.|.++++++|
T Consensus 288 ~~~~~~~~~y~a~~~~~~a~~~ag~~-~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 288 PPDTYAVYGYAAAETLVKVLKQAGDD-LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred CCchhhhHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 46788999999999999999999753 578999999999886 333 348999876666666788888877654
No 60
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=99.92 E-value=7.4e-24 Score=227.09 Aligned_cols=253 Identities=13% Similarity=0.126 Sum_probs=206.0
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+.+++|.+|+||.+|..+.++++++++.++|+|++++. +.. ...|++||+.|++..++.++++++...+|++|+
T Consensus 62 Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 136 (333)
T cd06331 62 LIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQY--EGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFY 136 (333)
T ss_pred HHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCC--CCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEE
Confidence 466779999999999999999999999999999997654 221 235789999999999999999988666699999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+|+.|+.|| ......+++.+++.|.+++....++... .|+..++.++++.++|+|++ .+..+++..+++++
T Consensus 137 il~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~~~~~~~d~v~~-~~~~~~~~~~~~~~ 207 (333)
T cd06331 137 LIGSDYVWP--RESNRIARALLEELGGEVVGEEYLPLGT------SDFGSVIEKIKAAGPDVVLS-TLVGDSNVAFYRQF 207 (333)
T ss_pred EECCCchhH--HHHHHHHHHHHHHcCCEEEEEEEecCCc------ccHHHHHHHHHHcCCCEEEE-ecCCCChHHHHHHH
Confidence 999999999 9999999999999999999888888766 78999999999999999988 88888999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 161 KEMGLVGPDSVWVIASDTITS------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
++.|+...... +.+...... ++...++.+. ..+..+.|.++|+++++.. ..++.+++.+|
T Consensus 208 ~~~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y 280 (333)
T cd06331 208 AAAGLDADRIP-ILSLTLDENELAAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDD------AVINSPAEAAY 280 (333)
T ss_pred HHcCCCcCCCe-eEEcccchhhhhccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCC------cCCCchhHHHH
Confidence 99999733322 333111110 2222223222 2466788888888776321 14677899999
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCC
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNS 276 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~ 276 (793)
|+++++++|++++++ .+++.|.++|++++|+|++|.+.|++.+++..
T Consensus 281 da~~~~~~A~~~ag~--~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~~ 327 (333)
T cd06331 281 EAVYLWAAAVEKAGS--TDPEAVRAALEGVSFDAPQGPVRIDPDNHHTW 327 (333)
T ss_pred HHHHHHHHHHHHcCC--CCHHHHHHHhhcCcccCCCCceEecCCCCccc
Confidence 999999999999987 68999999999999999999999998887643
No 61
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=99.92 E-value=1.7e-23 Score=225.67 Aligned_cols=272 Identities=10% Similarity=0.089 Sum_probs=212.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~~v 79 (793)
|+.+++|.+||||.+|+.+.++++++.+.++|+|..... .. ....+|+||+.|++..++.++++++.. .+ +++
T Consensus 63 li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~--~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~v 136 (374)
T TIGR03669 63 LLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQY--EG---GVCDEYTFAVGATARQQLGTVVPYMVEEYG-KKI 136 (374)
T ss_pred HHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCccc--cc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCC-CeE
Confidence 466789999999999999999999999999999964322 11 223589999999999999999998865 45 689
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++|++|++|| ....+.+++.+++.|++++....++.+. .|+..++.++++.++|+|++ .....+...+++|
T Consensus 137 a~l~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~g~------~Df~~~l~~i~~~~pD~V~~-~~~g~~~~~~~kq 207 (374)
T TIGR03669 137 YTIAADYNFG--QLSADWVRVIAKENGAEVVGEEFIPLSV------SQFSSTIQNIQKADPDFVMS-MLVGANHASFYEQ 207 (374)
T ss_pred EEEcCCcHHH--HHHHHHHHHHHHHcCCeEEeEEecCCCc------chHHHHHHHHHHcCCCEEEE-cCcCCcHHHHHHH
Confidence 9999999999 9999999999999999999888888776 78999999999999999998 7778888999999
Q ss_pred HHHcCCCCCCeE-EEEeCCcc----------ccceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 160 AKEMGLVGPDSV-WVIASDTI----------TSALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 160 a~~~g~~~~~~~-wi~~~~~~----------~~~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
++++|+..+... +... ... ..+++...+.+. ..|..++|.++|+++|+.. ..++.+++.+|
T Consensus 208 ~~~~G~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~------p~~~~~a~~~Y 280 (374)
T TIGR03669 208 AASANLNLPMGTSTAMA-QGYEHKRFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDA------PYINQEAENNY 280 (374)
T ss_pred HHHcCCCCcccchhhhh-hhhhhhhcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCC------CCCChHHHHHH
Confidence 999999654211 1111 110 012222223222 3477889999999887421 12356788999
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhh-cccccceeeEEEeCCCcCCCCcEEEEEeecce-eEEEEEec
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILS-SNFTGLSGPISFRGGKLLNSPILRIINMVGKK-YKEIDFWL 296 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~-~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~-~~~VG~w~ 296 (793)
|+++++++|++++++ .+++.+.++|++ .++.|..|+++||++++.....+.|.++..++ ...+..|+
T Consensus 281 da~~~l~~Ai~~AGs--~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 281 FSVYMYKQAVEEAGT--TDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred HHHHHHHHHHHHhCC--CCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 999999999999998 689999999997 57899999999998776555556677776533 44444554
No 62
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=99.92 E-value=1e-23 Score=227.42 Aligned_cols=254 Identities=18% Similarity=0.211 Sum_probs=202.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhc--Cce
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSY--NWR 77 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~ 77 (793)
|+.+++|.|||||.+|..+.+++++++..+||+|++.++ ++.+.. ..++++||+.|++..+..+++++++.+ +|+
T Consensus 62 li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (346)
T cd06330 62 LVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPG--TPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAK 139 (346)
T ss_pred HHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCC--CcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCcc
Confidence 455679999999999999999999999999999999887 676654 578999999999999999999999877 499
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcC--ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISN--SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|++|+.+++|| ....+.+++.+++.| ++++....++... +|+..++.++++.++|+|++ .+...+...
T Consensus 140 ~v~~l~~~~~~g--~~~~~~~~~~~~~~g~~~~~v~~~~~~~~~------~d~~~~v~~i~~~~~d~ii~-~~~~~~~~~ 210 (346)
T cd06330 140 TWATINPDYAYG--QDAWADFKAALKRLRPDVEVVSEQWPKLGA------PDYGSEITALLAAKPDAIFS-SLWGGDLVT 210 (346)
T ss_pred EEEEECCchHHH--HHHHHHHHHHHHHhCCCCeecccccCCCCC------cccHHHHHHHHhcCCCEEEE-ecccccHHH
Confidence 999999999999 999999999999885 5555444444333 67899999999999999998 788889999
Q ss_pred HHHHHHHcCCCCCCeEEEEeCCcccc---------cee----ecccccC--CchhhhHHHHHHHHhhhhcCCCCCCCCcc
Q 003821 156 LFREAKEMGLVGPDSVWVIASDTITS---------ALG----IKTHFSQ--DSSSYKIFEDQFRSYFRSEYPEDDVSEPG 220 (793)
Q Consensus 156 ~l~~a~~~g~~~~~~~wi~~~~~~~~---------~~g----~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 220 (793)
+++++++.|+.. ...|+.+ .+... .-| .....+. .++..+.|.++|+++|+ ..|+
T Consensus 211 ~~~~~~~~g~~~-~~~~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~ 280 (346)
T cd06330 211 FVRQANARGLFD-GTTVVLT-LTGAPELAPLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--------DYPT 280 (346)
T ss_pred HHHHHHhcCccc-CceEEee-ccchhhhhhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--------CCCC
Confidence 999999999965 4566665 33211 011 1111111 34678889999988873 3566
Q ss_pred hhhHhHhHHHHHHHHHHhhccCCCCCh--hhHHHhhhhcccccceeeEEEeCCCcCC
Q 003821 221 IYALRAYDSITVVAKSIDGMTSDNSSS--KISLGYILSSNFTGLSGPISFRGGKLLN 275 (793)
Q Consensus 221 ~~a~~~YDAv~~la~Al~~~~~~~~~g--~~l~~~l~~~~f~G~tG~i~Fd~~g~~~ 275 (793)
.++..+||++.++++|+++++.+.... +.+.++|+++++.|+.|++.|+++.++.
T Consensus 281 ~~~~~~y~a~~~l~~a~~~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~ 337 (346)
T cd06330 281 YGAYGAYQAVMALAAAVEKAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQA 337 (346)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCcc
Confidence 788999999999999999998742211 4699999999999999999999854443
No 63
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.91 E-value=2.2e-23 Score=223.06 Aligned_cols=248 Identities=16% Similarity=0.202 Sum_probs=200.0
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCC-CCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTR-WPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~-~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
|+++++|.+|+||.+|..+.++++++++.++|+|+++++ ++.++... ++|+||+.+++..++.++++++... +++|
T Consensus 63 li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v 139 (333)
T cd06328 63 LIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAA--ADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKI 139 (333)
T ss_pred HHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCC--CchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeE
Confidence 567789999999999999999999999999999998887 77776543 5899999998888899888887665 8999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChH-HHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLA-MGIHLFR 158 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~-~~~~~l~ 158 (793)
++||.|++|| ++..+.+++.+++.|++++....+++.+ .|+..++.++++.++|+|++ ..... .+..+++
T Consensus 140 ~~i~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~ 210 (333)
T cd06328 140 ATLAQDYAFG--RDGVAAFKAALEKLGAAIVTEEYAPTDT------TDFTPYAQRLLDALKKVLFV-IWAGAGGPWPKLQ 210 (333)
T ss_pred EEEecCcccc--HHHHHHHHHHHHhCCCEEeeeeeCCCCC------cchHHHHHHHHhcCCCEEEE-EecCchhHHHHHH
Confidence 9999999999 9999999999999999999988888866 78999999999999999877 44343 6777888
Q ss_pred HHHHcCCCCCCeEEEEeCCcccc------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 159 EAKEMGLVGPDSVWVIASDTITS------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 159 ~a~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
++...|+..+. ...+..... ......+.+..+|..+.|.++|+++|+ ..|+.+++.+
T Consensus 211 ~~~~~g~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--------~~p~~~~~~~ 279 (333)
T cd06328 211 QMGVLGYGIEI---TLAGDILANLTMYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--------SPPDLFTAGG 279 (333)
T ss_pred HhhhhcCCCeE---EecccccCccccccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--------CCcchhhHHH
Confidence 88887765331 111011010 111111222334677889999988873 3577889999
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCc
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
||++.++++|+++++. .+++.+.++|++.+|+|+.|+++|+.+++
T Consensus 280 y~a~~~l~~Ai~~ag~--~~~~~v~~aL~~~~~~~~~g~~~f~~~~~ 324 (333)
T cd06328 280 MSAAIAVVEALEETGD--TDTEALIAAMEGMSFETPKGTMTFRKEDH 324 (333)
T ss_pred HHHHHHHHHHHHHhCC--CCHHHHHHHHhCCeeecCCCceEECcccc
Confidence 9999999999999985 78999999999999999999999995433
No 64
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.91 E-value=2.2e-23 Score=224.07 Aligned_cols=247 Identities=17% Similarity=0.206 Sum_probs=202.3
Q ss_pred CcccceEEEEcCCChhhHHHH-------HHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhh
Q 003821 2 IKEKEVKVIVGMETWGAATMV-------ADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGS 73 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~v-------a~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~ 73 (793)
+++ +|.+||||.+|..+.++ +++++.++||+|+++++ ++.++. ..+||+||+.|++..++.++++++..
T Consensus 63 v~~-~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~ 139 (342)
T cd06329 63 IDD-GVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASV--APALTGEKCSFWHFRTDANTDMKMEALASYIKK 139 (342)
T ss_pred HHh-CCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCC--CchhhhccCcceEEEecCChHHHHHHHHHHHHh
Confidence 444 89999999999999999 88999999999999887 677764 45789999999999999999999988
Q ss_pred cC-ceEEEEEEEcCCCccccccHHHHHHHHHh--cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh
Q 003821 74 YN-WRKVIIIYEDDATNADTGNLALLSEALQI--SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL 150 (793)
Q Consensus 74 ~~-w~~vaii~~dd~~G~~~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~ 150 (793)
.+ |++|++++.|+.|| ....+.+++.+++ .|++++....++... ..|+..++.++++.++++|++ ....
T Consensus 140 ~~~~k~v~i~~~~~~~g--~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~-----~~d~~~~i~~l~~~~~d~v~~-~~~~ 211 (342)
T cd06329 140 QPDGKKVYLINQDYSWG--QDVAAAFKAMLAAKRPDIQIVGEDLHPLGK-----VKDFSPYVAKIKASGADTVIT-GNWG 211 (342)
T ss_pred cccCceEEEEeCChHHH--HHHHHHHHHHHHhhcCCcEEeceeccCCCC-----CCchHHHHHHHHHcCCCEEEE-cccC
Confidence 76 99999999999999 9999999999999 999998776665432 146888999999999999998 7777
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCCcccc------------ceeeccccc-CCchhhhHHHHHHHHhhhhcCCCCCCC
Q 003821 151 AMGIHLFREAKEMGLVGPDSVWVIASDTITS------------ALGIKTHFS-QDSSSYKIFEDQFRSYFRSEYPEDDVS 217 (793)
Q Consensus 151 ~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~ 217 (793)
.++..+++++++.|+..+ ++.. .+... .+...++.+ ..++..++|.++|+++++ .
T Consensus 212 ~~~~~~~~~~~~~g~~~~---~~~~-~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~ 279 (342)
T cd06329 212 NDLLLLVKQAADAGLKLP---FYTP-YLDQPGNPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--------R 279 (342)
T ss_pred chHHHHHHHHHHcCCCce---EEec-cccchhHHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--------C
Confidence 789999999999999644 3332 11110 122222222 224678889999988763 2
Q ss_pred CcchhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCc
Q 003821 218 EPGIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 218 ~~~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
.|+.++..+||+++++++|+++++. .++..+.++|++++|+|..|+++|++.++
T Consensus 280 ~~~~~~~~~y~~~~~~~~a~~~ag~--~~~~~v~~al~~~~~~~~~g~~~~~~~~~ 333 (342)
T cd06329 280 VPDYYEGQAYNGIQMLADAIEKAGS--TDPEAVAKALEGMEVDTPVGPVTMRASDH 333 (342)
T ss_pred CCCchHHHHHHHHHHHHHHHHHhCC--CCHHHHHHHHhCCccccCCCCeEEcccCc
Confidence 5677899999999999999999887 68899999999999999999999985433
No 65
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=99.91 E-value=6.2e-23 Score=221.66 Aligned_cols=262 Identities=14% Similarity=0.102 Sum_probs=203.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~~v 79 (793)
|+.+++|.+|+||.+|..+.++.++++..++|++++... .. ....|++||+.+++..++.++++++.. .|.+++
T Consensus 63 Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~--~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v 137 (359)
T TIGR03407 63 LITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQY--EG---EECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRF 137 (359)
T ss_pred HHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCcc--cC---cccCCCEEEcCCChHHHHHHHHHHHHhccCCceE
Confidence 466789999999999999999999999999999976533 11 235689999999999999999998866 599999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
++++.|++|| ....+.+++.+++.|++++....++..+ .|+..++.+|++.++|+|++ ......+..++++
T Consensus 138 ~~l~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~D~s~~v~~l~~~~pDav~~-~~~~~~~~~~~~~ 208 (359)
T TIGR03407 138 FLLGSDYVFP--RTANKIIKAYLKSLGGTVVGEDYTPLGH------TDFQTIINKIKAFKPDVVFN-TLNGDSNVAFFKQ 208 (359)
T ss_pred EEecCccHHH--HHHHHHHHHHHHHcCCEEEeeEEecCCh------HhHHHHHHHHHHhCCCEEEE-eccCCCHHHHHHH
Confidence 9999999999 8888999999999999999888888766 78999999999999999887 6677778899999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc--------ceee---cccc-cCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS--------ALGI---KTHF-SQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~--------~~g~---~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
+++.|+..+...++.++..... ..|+ ..+. +...|..++|.++|+++|+.. ..++.+++.+|
T Consensus 209 ~~~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y 282 (359)
T TIGR03407 209 LKNAGITAKDVPVVSFSVAEEEIRGIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDD------RVTNDPMEAAY 282 (359)
T ss_pred HHHcCCCccCCcEEEeecCHHHHhhcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCC------CCCCcHHHHHH
Confidence 9999997543323332111000 1121 1121 223467788988888876421 12344567899
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEe
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINM 284 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~ 284 (793)
|++.++++|++++++ .++..+.++|++++|++..|+++|+++++.....+.+.++
T Consensus 283 ~a~~~~~~A~~~ag~--~~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 283 LGVYLWKAAVEKAGS--FDVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred HHHHHHHHHHHHhCC--CCHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 999999999999987 5899999999999999999999999744433333334444
No 66
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.91 E-value=1.3e-22 Score=217.92 Aligned_cols=251 Identities=16% Similarity=0.211 Sum_probs=201.3
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCC-CCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTST-RWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~-~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.+||||.+|..+.++.+.+.+.++|+|+++++ ++.++.. .+|++||+.|++..++..+++++...+|++++
T Consensus 61 ~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~ 138 (333)
T cd06332 61 IEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAG--PSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVV 138 (333)
T ss_pred HHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCC--CccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEE
Confidence 44568999999999998999999999999999999887 5666543 37999999999999999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+|+.++.|| .+..+.+.+.++ | +++....++... .|+..++.++++.++|+|++ ......+..+++++
T Consensus 139 il~~~~~~~--~~~~~~~~~~~~--~-~~~~~~~~~~~~------~d~~~~i~~l~~~~~d~i~~-~~~~~~~~~~~~~~ 206 (333)
T cd06332 139 IIAPDYAAG--KDAVAGFKRTFK--G-EVVEEVYTPLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMAVNFVKQY 206 (333)
T ss_pred EEecCcchh--HHHHHHHHHhhc--E-EEeeEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccchHHHHHHHH
Confidence 999999998 888888888887 3 555555555544 56888999999999999888 67778899999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 161 KEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
+++|+.++ ..++.+ ..... ++...++.+. .++..++|.++|+++++. .|+.++..+
T Consensus 207 ~~~g~~~~-~~~~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~ 276 (333)
T cd06332 207 DQAGLKKK-IPLYGP-GFLTDQDTLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYGR--------VPSVYAAQG 276 (333)
T ss_pred HHcCcccC-Cceecc-CCCCCHHHHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhCC--------CCcHHHHHH
Confidence 99999542 334444 22221 2222233222 246788899999888742 467789999
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCC
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNS 276 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~ 276 (793)
||+++++++|+++++....++..+.++|++.+|+|++|+++|+++|+...
T Consensus 277 yda~~~~~~a~~~ag~~~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~ 326 (333)
T cd06332 277 YDAAQLLDAALRAVGGDLSDKDALRAALRAADFDSPRGPFKFNPNHNPIQ 326 (333)
T ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHhcCceecCccceeECCCCCccc
Confidence 99999999999999875456789999999999999999999999888543
No 67
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=99.90 E-value=3.2e-22 Score=216.22 Aligned_cols=274 Identities=13% Similarity=0.137 Sum_probs=210.8
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
||.+++|.+|+|+.+|..+.+++++++..++|++++++. .. . ...+++|++.++...++.++++++...+-++++
T Consensus 62 li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~--~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 136 (360)
T cd06357 62 LLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLY--EG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVF 136 (360)
T ss_pred HHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCc--cC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEE
Confidence 567789999999999999999999999999999987654 22 1 123667888888877888899988765558999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+|+.|++|| .+..+.+++.+++.|++++....++... ...|+..++.++++.++|+|++ .+...++..+++++
T Consensus 137 ~i~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~----~~~d~s~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~ 209 (360)
T cd06357 137 LVGSNYIYP--YESNRIMRDLLEQRGGEVLGERYLPLGA----SDEDFARIVEEIREAQPDFIFS-TLVGQSSYAFYRAY 209 (360)
T ss_pred EECCCCcch--HHHHHHHHHHHHHcCCEEEEEEEecCCC----chhhHHHHHHHHHHcCCCEEEE-eCCCCChHHHHHHH
Confidence 999999999 9999999999999999998765555441 1278999999999999999988 88899999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc-----------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhH
Q 003821 161 KEMGLVGPDSVWVIASDTITS-----------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYD 228 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~-----------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 228 (793)
+++|+.++............. +++..++.+. ..|..+.|.++|+++|+.. ..++.+++.+||
T Consensus 210 ~~~G~~~~~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~yd 283 (360)
T cd06357 210 AAAGFDPARMPIASLTTSEAEVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGED------APVSACAEAAYF 283 (360)
T ss_pred HHcCCCccCceeEEeeccHHHHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCC------CCCCcHHHHHHH
Confidence 999997553222221001101 2333333222 3477889999999887431 135678899999
Q ss_pred HHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEe-ecceeEEEEE
Q 003821 229 SITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINM-VGKKYKEIDF 294 (793)
Q Consensus 229 Av~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~-~~~~~~~VG~ 294 (793)
+++++++|++++++ .++..+.++|++++|+|..|.+.||..++.......+.++ .++.+..|..
T Consensus 284 a~~~l~~Al~~ag~--~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~~ 348 (360)
T cd06357 284 QVHLFARALQRAGS--DDPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVRE 348 (360)
T ss_pred HHHHHHHHHHHcCC--CCHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEEc
Confidence 99999999999987 5789999999999999999999999776544445566666 4555655543
No 68
>cd06335 PBP1_ABC_ligand_binding_like_2 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=99.90 E-value=1.6e-22 Score=217.72 Aligned_cols=258 Identities=16% Similarity=0.177 Sum_probs=201.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC--CCCCeEEEecCChHHHHHHHHHHH-hhcCce
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS--TRWPFLVRMANSSAEQITCTAALV-GSYNWR 77 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~--~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~ 77 (793)
|+++++|.+|+||.+|..+.++++++++.+||+|++.++ ++.++. ..++|+||+.|++..++.++++++ +..+|+
T Consensus 62 Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~ 139 (347)
T cd06335 62 LAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAA--GTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFK 139 (347)
T ss_pred HhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCC--CcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCC
Confidence 567789999999999999999999999999999998877 566653 446899999999999999999987 556799
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+|+++|.+++|| ....+.+++.+++.|++++....+++.. .|+...+.+|++.++++|++ .+...++..++
T Consensus 140 ~v~ii~~~~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~~~------~d~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~ 210 (347)
T cd06335 140 KVALLLDNTGWG--RSNRKDLTAALAARGLKPVAVEWFNWGD------KDMTAQLLRAKAAGADAIII-VGNGPEGAQIA 210 (347)
T ss_pred eEEEEeccCchh--hhHHHHHHHHHHHcCCeeEEEeeecCCC------ccHHHHHHHHHhCCCCEEEE-EecChHHHHHH
Confidence 999999999999 9999999999999999999888888765 67999999999999999998 88999999999
Q ss_pred HHHHHcCCCCCCe-EEEEeCC-ccc-------cceeecccccC--CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 158 REAKEMGLVGPDS-VWVIASD-TIT-------SALGIKTHFSQ--DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 158 ~~a~~~g~~~~~~-~wi~~~~-~~~-------~~~g~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
+++++.|+..+-+ .|..... ... .+.....+... .++..++|.++|+++++..... ...++.+++.+
T Consensus 211 ~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~a 288 (347)
T cd06335 211 NGMAKLGWKVPIISHWGLSGGNFIEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHA 288 (347)
T ss_pred HHHHHcCCCCcEecccCCcCchhhhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHH
Confidence 9999999964421 1222100 000 01222222211 3578889999999987532100 11345667899
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhc--ccccceee--EEEeCCCc
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSS--NFTGLSGP--ISFRGGKL 273 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~--~f~G~tG~--i~Fd~~g~ 273 (793)
||+++++++|+++++. .++..+.++|+++ .+.|+.|. +.|++..+
T Consensus 289 Yd~~~~l~~A~~~ag~--~~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 289 YDAVHLLAAAIKQAGS--TDGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred HHHHHHHHHHHHHhcC--CCHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 9999999999999987 4558899999875 46777774 45664433
No 69
>cd06337 PBP1_ABC_ligand_binding_like_4 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=99.90 E-value=1.4e-22 Score=218.97 Aligned_cols=262 Identities=13% Similarity=0.092 Sum_probs=203.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCC-------CCCCCCeEEEecCChHHHHHHHHHHHhh
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPL-------TSTRWPFLVRMANSSAEQITCTAALVGS 73 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l-------~~~~~~~~~r~~p~~~~~~~ai~~ll~~ 73 (793)
|+.+++|.+|||+.+|..+.++++++++.+||+|++.++ .+.+ ....++|+||+.+++..++.+++++++.
T Consensus 64 li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 141 (357)
T cd06337 64 LILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAP--WQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQ 141 (357)
T ss_pred HHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccc--hhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHh
Confidence 566789999999999999999999999999999997653 2111 1234789999999998899999998888
Q ss_pred cC-ceEEEEEEEcCCCccccccHHHHH---HHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC
Q 003821 74 YN-WRKVIIIYEDDATNADTGNLALLS---EALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS 149 (793)
Q Consensus 74 ~~-w~~vaii~~dd~~G~~~~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~ 149 (793)
.+ +++|++++.|+.|| ....+.+. +.+++.|++++..+.+++.. .|+..++.+|+++++|+|++ .+.
T Consensus 142 ~~~~k~v~ii~~~~~~g--~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~D~~~~v~~ik~a~pD~v~~-~~~ 212 (357)
T cd06337 142 LETNKKVGILYPNDPDG--NAFADPVIGLPAALADAGYKLVDPGRFEPGT------DDFSSQINAFKREGVDIVTG-FAI 212 (357)
T ss_pred CCCCceEEEEeecCchh--HHHHHhhhcccHHHHhCCcEEecccccCCCC------CcHHHHHHHHHhcCCCEEEe-CCC
Confidence 77 99999999999999 76666554 56778999999888888876 78999999999999999988 888
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCCcc--cc-----------ceeecccccC-------CchhhhHHHHHHHHhhhh
Q 003821 150 LAMGIHLFREAKEMGLVGPDSVWVIASDTI--TS-----------ALGIKTHFSQ-------DSSSYKIFEDQFRSYFRS 209 (793)
Q Consensus 150 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~--~~-----------~~g~~~~~~~-------~~~~~~~f~~~~~~~~~~ 209 (793)
.+++..++++++++|+..+.+. .. ... .. ++....+.+. .++..++|.++|+++|+.
T Consensus 213 ~~~~~~~~~~~~~~G~~~~~~~--~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~ 289 (357)
T cd06337 213 PPDFATFWRQAAQAGFKPKIVT--IA-KALLFPEDVEALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR 289 (357)
T ss_pred ccHHHHHHHHHHHCCCCCCeEE--Ee-ccccCHHHHHHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC
Confidence 9999999999999999766221 11 111 11 1111111111 123478899999888743
Q ss_pred cCCCCCCCCcchhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeecce
Q 003821 210 EYPEDDVSEPGIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVGKK 288 (793)
Q Consensus 210 ~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~~~ 288 (793)
.|...+.++||++.++++|++++++. .+++.|.++|++++++++.|++.|+++ ...+..|+.+.++.
T Consensus 290 --------~~~~~~~~~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~---~~~~~~~~~~~~~~ 356 (357)
T cd06337 290 --------QWTQPLGYAHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS---PIKNVAKTPLVGGQ 356 (357)
T ss_pred --------CccCcchHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC---CCccccccccccCC
Confidence 23445677999999999999999863 468899999999999999999999865 23456677777654
No 70
>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=99.90 E-value=1.5e-22 Score=218.42 Aligned_cols=263 Identities=22% Similarity=0.341 Sum_probs=216.4
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~va 80 (793)
+.+++|.+|+||.+|..+.+++++++..++|+|++++. ++ ....+++||+.|++..++.++++++ ++++.++++
T Consensus 65 ~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ 139 (343)
T PF13458_consen 65 IDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSAS--SP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVA 139 (343)
T ss_dssp HHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGG--GG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEE
T ss_pred hhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeecc--CC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEE
Confidence 45689999999999999999999999999999996654 32 4667899999999999999999986 568999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+|+.+++|| ....+.+++.+++.|++++....++... .|+...+.++++.++++|++ .+.+.++..+++++
T Consensus 140 iv~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~~~~l~~~~~d~v~~-~~~~~~~~~~~~~~ 210 (343)
T PF13458_consen 140 IVYPDDPYG--RSLAEAFRKALEAAGGKVVGEIRYPPGD------TDFSALVQQLKSAGPDVVVL-AGDPADAAAFLRQL 210 (343)
T ss_dssp EEEESSHHH--HHHHHHHHHHHHHTTCEEEEEEEE-TTS------SHHHHHHHHHHHTTTSEEEE-ESTHHHHHHHHHHH
T ss_pred EEecCchhh--hHHHHHHHHHHhhcCceeccceeccccc------ccchHHHHHHhhcCCCEEEE-eccchhHHHHHHHH
Confidence 999999999 9999999999999999998888888776 78999999999999999877 88999999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc------------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 161 KEMGLVGPDSVWVIASDTITS------------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
.+.|+..+.+....+ ..... +....++.++ .+|..++|.++|++.++.. ..|+.++..+|
T Consensus 211 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y 283 (343)
T PF13458_consen 211 RQLGLKPPRIPLFGT-SLDDASLQQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEE------PPPSLYAAQGY 283 (343)
T ss_dssp HHTTGCSCTEEEEEG-GGSSHHHHHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSST------GGTCHHHHHHH
T ss_pred Hhhccccccceeecc-ccCcHHHHHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCC------CCCchhHHHHH
Confidence 999998654444333 22221 2333334432 3477889999999988431 13788999999
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEee-cc
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMV-GK 287 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~ 287 (793)
|++.++++|+++++. .++..+.++|++..|+|+.|++.|++.+......+.|++++ +|
T Consensus 284 da~~~~~~al~~~g~--~~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 284 DAARLLAQALERAGS--LDREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp HHHHHHHHHHHHHTS--HHHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred HHHHHHHHHHHHhCC--CCHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 999999999999986 78999999999999999999999987666567788899888 44
No 71
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=99.89 E-value=5.4e-22 Score=212.56 Aligned_cols=249 Identities=14% Similarity=0.147 Sum_probs=201.0
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
|+.+++|.+||||.+|.++.+++++++ .+||+|++.+. +.. ...+++||+.+++..++.++++++ +..+|++|
T Consensus 62 Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~--~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v 135 (333)
T cd06358 62 LVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLY--EGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRW 135 (333)
T ss_pred HHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCc--CCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeE
Confidence 456679999999999999999999999 99999997654 221 245899999999999988888766 55799999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
+++++++.|| ....+.+++.+++.|++|+....+++.. .|+..++.++++.++|+|++ ....++...++++
T Consensus 136 ~i~~~~~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~ 206 (333)
T cd06358 136 YLIGNDYVWP--RGSLAAAKRYIAELGGEVVGEEYVPLGT------TDFTSVLERIAASGADAVLS-TLVGQDAVAFNRQ 206 (333)
T ss_pred EEEeccchhh--HHHHHHHHHHHHHcCCEEeeeeeecCCh------HHHHHHHHHHHHcCCCEEEE-eCCCCchHHHHHH
Confidence 9999999999 9999999999999999999888888766 78999999999999999888 6777788899999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc------------ceeeccccc-CCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhH
Q 003821 160 AKEMGLVGPDSVWVIASDTITS------------ALGIKTHFS-QDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRA 226 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~------------~~g~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~ 226 (793)
+++.|+..+.+ .... ..... ++....+.+ ...+..++|.+.|+++|+.. ...++.++..+
T Consensus 207 ~~~~G~~~~~~-~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~-----~~~~~~~~~~~ 279 (333)
T cd06358 207 FAAAGLRDRIL-RLSP-LMDENMLLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDD-----APPLNSLSESC 279 (333)
T ss_pred HHHcCCCccCc-eeec-ccCHHHHHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCC-----CCCCChHHHHH
Confidence 99999976522 1111 11100 222222222 23467888999998887431 12467788999
Q ss_pred hHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCc
Q 003821 227 YDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 227 YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
||+++++++|+++++. .++..|.++|++.+|+|.+|.++|++++.
T Consensus 280 yda~~~~~~A~~~ag~--~~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 280 YEAVHALAAAAERAGS--LDPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred HHHHHHHHHHHHHhCC--CCHHHHHHHhccCeeeCCCcceEEccccc
Confidence 9999999999999887 68899999999999999999999998755
No 72
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.89 E-value=8e-22 Score=211.03 Aligned_cols=251 Identities=13% Similarity=0.102 Sum_probs=199.1
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
||.+++|.+|+|+.+|.++.++.+++++.++|+|..... .. ....+|+||+.+++..++.++++++...+-++++
T Consensus 62 Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~va 136 (334)
T cd06356 62 LALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQY--EG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVY 136 (334)
T ss_pred HHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCc--cC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEE
Confidence 466789999999999999999999999999999986433 22 2235799999999999999999988765448899
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+|++|++|| ....+.+++.+++.|++++....++... .|+..++.++++.++|+|++ .....+...+++++
T Consensus 137 il~~d~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~ 207 (334)
T cd06356 137 TIAADYNFG--QISAEWVRKIVEENGGEVVGEEFIPLDV------SDFGSTIQKIQAAKPDFVMS-ILVGANHLSFYRQW 207 (334)
T ss_pred EECCCchhh--HHHHHHHHHHHHHcCCEEEeeeecCCCc------hhHHHHHHHHHhcCCCEEEE-eccCCcHHHHHHHH
Confidence 999999999 9999999999999999999888888876 78999999999999999998 67777888999999
Q ss_pred HHcCC-CCCCe-EEEEeCCcc--cc--------ceeecccccC-CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 161 KEMGL-VGPDS-VWVIASDTI--TS--------ALGIKTHFSQ-DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 161 ~~~g~-~~~~~-~wi~~~~~~--~~--------~~g~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
++.|+ ..+.. .+... +.. .. +.....+.+. ..|..++|.++|+++|+.. ..++.+++.+|
T Consensus 208 ~~~G~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------p~~~~~~~~~y 280 (334)
T cd06356 208 AAAGLGNIPMASSTLGA-QGYEHKRLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDA------PYINEEAENNY 280 (334)
T ss_pred HHcCCccCceeeeeccc-chhHHhccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCC------CCCCchhHHHH
Confidence 99999 32221 11111 111 00 2222222222 2466888999999887420 11256789999
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhh-cccccceeeEEEeCCCcC
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILS-SNFTGLSGPISFRGGKLL 274 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~-~~f~G~tG~i~Fd~~g~~ 274 (793)
|+++++++|++++++ .++..|.++|++ .+++|..|+++|++.++.
T Consensus 281 ~a~~~~~~A~~~ag~--~~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~ 326 (334)
T cd06356 281 EAIYLYKEAVEKAGT--TDRDAVIEALESGLVCDGPEGKVCIDGKTHH 326 (334)
T ss_pred HHHHHHHHHHHHHCC--CCHHHHHHHHHhCCceeCCCceEEEecCCCc
Confidence 999999999999997 688999999997 568999999999976554
No 73
>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=99.88 E-value=1e-21 Score=207.08 Aligned_cols=220 Identities=23% Similarity=0.369 Sum_probs=180.6
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
.++|.||+||.++..+.+++++++.++||+|+++++ ++.+++ ..+|+++|+.|++..+++++++++++++|++|+++
T Consensus 69 ~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v 146 (298)
T cd06269 69 SRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSAT--SPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLV 146 (298)
T ss_pred CCceEEEECCCCchHHHHHHHHhccCCCcEEecccC--chhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEE
Confidence 378999999999999999999999999999999988 777764 57899999999999999999999999999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
|+++++| ....+.+++.+++.|+++.....++... .++...++++++..+++||+ ++..+++..++++|++
T Consensus 147 ~~~~~~~--~~~~~~~~~~~~~~~~~v~~~~~~~~~~------~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~ 217 (298)
T cd06269 147 YSDDDYG--RRLLELLEEELEKNGICVAFVESIPDGS------EDIRRLLKELKSSTARVIVV-FSSEEDALRLLEEAVE 217 (298)
T ss_pred Eecchhh--HHHHHHHHHHHHHCCeeEEEEEEcCCCH------HHHHHHHHHHHhcCCcEEEE-EechHHHHHHHHHHHH
Confidence 9999999 9999999999999999999888877654 67899999999999999988 7888999999999999
Q ss_pred cCCCCCCeEEEEeCCccccceeeccc-ccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHHHHHHhhcc
Q 003821 163 MGLVGPDSVWVIASDTITSALGIKTH-FSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVVAKSIDGMT 241 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~~~g~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~ 241 (793)
.||+ .+++||.++.+..+....... .... .. .....++.+|||+++
T Consensus 218 ~g~~-~~~~~i~~~~~~~~~~~~~~~~~~~~--~~---------------------~~~~~~~~~~dav~~--------- 264 (298)
T cd06269 218 LGMM-TGYHWIITDLWLTSCLDLELLEYFPG--NL---------------------TGFGEAALVYDAVYA--------- 264 (298)
T ss_pred cCCC-CCeEEEEEChhhccccccCCccccce--EE---------------------EEEEeeEeEEEEEEe---------
Confidence 9999 889999994332210000000 0000 00 000045677888777
Q ss_pred CCCCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEee-cceeEEEEEecC
Q 003821 242 SDNSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMV-GKKYKEIDFWLP 297 (793)
Q Consensus 242 ~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~-~~~~~~VG~w~~ 297 (793)
|.+.+..++++++. ...+++||.|++
T Consensus 265 ------------------------------~~~~~~~~~~~~~~~~~~~~~vg~w~~ 291 (298)
T cd06269 265 ------------------------------GRRANYDLDIIQLTPSGGFVKVGTWSP 291 (298)
T ss_pred ------------------------------cCcCCceEEEEEECCCCCEEEEEEEcC
Confidence 66678888888887 778999999997
No 74
>cd06334 PBP1_ABC_ligand_binding_like_1 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=99.87 E-value=3.7e-21 Score=206.59 Aligned_cols=255 Identities=14% Similarity=0.142 Sum_probs=198.2
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC-CCCCCeEEEecCChHHHHHHHHHHHhhcC----
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT-STRWPFLVRMANSSAEQITCTAALVGSYN---- 75 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~---- 75 (793)
|+.+++|.+|+ +.+|+.+.++++++++.+||+|+++++ ++.++ ...++|+||+.|++..++.++++++...+
T Consensus 62 Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~ 138 (351)
T cd06334 62 LKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYG--ATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKL 138 (351)
T ss_pred HhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccc--hhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCC
Confidence 56677898876 578899999999999999999998876 55555 46689999999999999999999987654
Q ss_pred -ceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 76 -WRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 76 -w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
.++|++|+.|++|| ....+.+++.+++.|++++....++..+ .|+..++.++++.++|+|++ .....++.
T Consensus 139 ~~~kvaiv~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~------~D~~~~v~~i~~~~pd~V~~-~~~~~~~~ 209 (351)
T cd06334 139 KGKKIALVYHDSPFG--KEPIEALKALAEKLGFEVVLEPVPPPGP------NDQKAQWLQIRRSGPDYVIL-WGWGVMNP 209 (351)
T ss_pred CCCeEEEEeCCCccc--hhhHHHHHHHHHHcCCeeeeeccCCCCc------ccHHHHHHHHHHcCCCEEEE-ecccchHH
Confidence 79999999999999 9999999999999999999888888766 78999999999999999998 78888999
Q ss_pred HHHHHHHHcCCCCCCeEEEEeCCcccc-------------ceeeccccc-CCchhhhHHHHHHHHhhhhcCCCCCCCCcc
Q 003821 155 HLFREAKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFS-QDSSSYKIFEDQFRSYFRSEYPEDDVSEPG 220 (793)
Q Consensus 155 ~~l~~a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 220 (793)
.++++++++|+..+ ++.+ .+... +++..++.+ ..+|..++|.+.|++++... +. ....++
T Consensus 210 ~~~~~~~~~G~~~~---~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~-~~-~~~~~~ 283 (351)
T cd06334 210 VAIKEAKRVGLDDK---FIGN-WWSGDEEDVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGS-GN-DKEIGS 283 (351)
T ss_pred HHHHHHHHcCCCce---EEEe-eccCcHHHHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCC-CC-cccccc
Confidence 99999999999543 3333 22211 223333322 23578888999988877421 10 012446
Q ss_pred hhhHhHhHHHHHHHHHHhhccCCCCCh-----------hhHHHhhhhcccccceeeEEEeCCCc
Q 003821 221 IYALRAYDSITVVAKSIDGMTSDNSSS-----------KISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 221 ~~a~~~YDAv~~la~Al~~~~~~~~~g-----------~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
.+++.+||+++++++||++++++.... +.-++.+++.+..|+.|+++|....+
T Consensus 284 ~~~~~gy~a~~~l~~Al~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 284 VYYNRGVVNAMIMVEAIRRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 789999999999999999998742111 12233455667788999999975443
No 75
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.87 E-value=4.8e-21 Score=204.81 Aligned_cols=238 Identities=16% Similarity=0.109 Sum_probs=184.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
++|.+||||.+|..+.++++++.+.+||+|+++++ ++ +.. .+++||+.+++..++.++++++...|+++|++++.
T Consensus 58 ~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~--~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~ 132 (336)
T cd06339 58 EGADIIVGPLLKENVAALAAAAAELGVPVLALNND--ES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAP 132 (336)
T ss_pred cCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCC--cc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEec
Confidence 48999999999999999999999999999998755 33 322 58899999999999999999998889999999999
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---------------------CceEE
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---------------------ESRVF 143 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~vi 143 (793)
+++|| .+..+.+++.+++.|++++....+++.. .|+..++.+|++. ++|+|
T Consensus 133 ~~~~g--~~~~~~f~~~~~~~G~~vv~~~~~~~~~------~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v 204 (336)
T cd06339 133 DGAYG--QRVADAFRQAWQQLGGTVVAIESYDPSP------TDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAI 204 (336)
T ss_pred CChHH--HHHHHHHHHHHHHcCCceeeeEecCCCH------HHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcE
Confidence 99999 9999999999999999999888888766 7899999999987 89998
Q ss_pred EEeccChH-HHHHHHHHHHHcCCCCCCeEEEEeCCcccc----------ceeecccccCCchhhhHHHHHHHHhhhhcCC
Q 003821 144 IILQSSLA-MGIHLFREAKEMGLVGPDSVWVIASDTITS----------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYP 212 (793)
Q Consensus 144 vvl~~~~~-~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~----------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 212 (793)
++ .+.++ .+..+.++++..+.......++.+ ++..+ ..|+....+ ..+...+|.++|+++|+
T Consensus 205 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~g~~~~g~~~~~~-~~~~~~~f~~~y~~~~~---- 277 (336)
T cd06339 205 DA-VALPDGEARLIKPQLLFYYGVPGDVPLYGT-SRWYSGTPAPLRDPDLNGAWFADP-PWLLDANFELRYRAAYG---- 277 (336)
T ss_pred EE-EecChhhhhhhcchhhhhccCcCCCCEEEe-ccccCCCCCcccCcccCCcEEeCC-CcccCcchhhhHHHHhc----
Confidence 88 56665 777777777776541112234554 33221 111110001 11223478888888873
Q ss_pred CCCCCCc-chhhHhHhHHHHHHHHHHhhccCCCCChhhHHHhhh-hcccccceeeEEEeCCCcC
Q 003821 213 EDDVSEP-GIYALRAYDSITVVAKSIDGMTSDNSSSKISLGYIL-SSNFTGLSGPISFRGGKLL 274 (793)
Q Consensus 213 ~~~~~~~-~~~a~~~YDAv~~la~Al~~~~~~~~~g~~l~~~l~-~~~f~G~tG~i~Fd~~g~~ 274 (793)
..| +.+++.+|||+.+++.++++.+.+ . ++. ...|+|++|+++|+++|+.
T Consensus 278 ----~~p~~~~~a~~YDa~~l~~~~~~~~~~~--~------al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 278 ----WPPLSRLAALGYDAYALAAALAQLGQGD--A------ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred ----CCCCchHHHHHHhHHHHHHHHHHccccc--c------ccCCCCccccCcceEEECCCCeE
Confidence 356 789999999999999988877652 2 333 3469999999999998874
No 76
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.87 E-value=3.9e-21 Score=204.20 Aligned_cols=254 Identities=14% Similarity=0.123 Sum_probs=186.4
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+++|.+|+|+.+|+++.++++++.+.++|+|+++++ ++.++. ..++|+||+.|++..++.++++++...+.++|++|
T Consensus 57 ~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~--~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii 134 (347)
T TIGR03863 57 AQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAP--DDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLI 134 (347)
T ss_pred HCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCC--ChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEE
Confidence 467999999999999999999999999999999988 788875 46799999999999999999999977799999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+.|++|| ..+.+.+++.+++.|++++..+.++... .+...++.......+.+++|+|++ .....+....+....
T Consensus 135 ~~~~~~g--~~~~~~~~~~~~~~G~~vv~~~~~~~~~--~~~~~d~s~~~~~~~~s~pDvv~~-~~~~~~~~~~~~~~~- 208 (347)
T TIGR03863 135 QGPLPAD--ALYADAFRRSAKRFGAKIVAERPFTFSG--DPRRTDQSEVPLFTQGADYDVVVV-ADEAGEFARYLPYAT- 208 (347)
T ss_pred eCCCccc--HHHHHHHHHHHHHCCCEEEEeEEeccCC--chhhhhcccCceeecCCCCCEEEE-ecchhhHhhhccccc-
Confidence 9999999 9999999999999999999988887543 112234432222233478999888 444333322111111
Q ss_pred cCCCCCCeEEEEeCCccccceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhHHHHHHHHHHhhccC
Q 003821 163 MGLVGPDSVWVIASDTITSALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYDSITVVAKSIDGMTS 242 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~la~Al~~~~~ 242 (793)
+. .. ..+.+ .+.. ....+.....+..++|.++|+++|+ ..|+.+++.+||++++++.|++++++
T Consensus 209 -~~-~~--~~~g~-~G~~---~~~~~~~~~~~~~~~f~~~f~~~~g--------~~p~~~~a~aY~av~~~a~Ai~~AGs 272 (347)
T TIGR03863 209 -WL-PR--PVAGS-AGLV---PTAWHRAWERWGATQLQSRFEKLAG--------RPMTELDYAAWLAVRAVGEAVTRTRS 272 (347)
T ss_pred -cc-cc--ccccc-cCcc---ccccCCcccchhHHHHHHHHHHHhC--------CCCChHHHHHHHHHHHHHHHHHHhcC
Confidence 11 00 11111 1211 1111112223567899999998873 35677889999999999999999998
Q ss_pred CCCChhhHHHhhhhccc--cccee-eEEEeC-CCcCCCCcEEEEEe
Q 003821 243 DNSSSKISLGYILSSNF--TGLSG-PISFRG-GKLLNSPILRIINM 284 (793)
Q Consensus 243 ~~~~g~~l~~~l~~~~f--~G~tG-~i~Fd~-~g~~~~~~~~I~~~ 284 (793)
.++.++.++|++.++ .+..| +++|++ +++. ...+.+.+.
T Consensus 273 --~d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~-~~~~~~~~~ 315 (347)
T TIGR03863 273 --ADPATLRDYLLSDEFELAGFKGRPLSFRPWDGQL-RQPVLLVHP 315 (347)
T ss_pred --CCHHHHHHHHcCCCceecccCCCcceeeCCCccc-ccceEeccc
Confidence 799999999999877 46777 699985 5554 334444444
No 77
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.84 E-value=4.4e-21 Score=206.30 Aligned_cols=272 Identities=18% Similarity=0.268 Sum_probs=214.5
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC-CCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEc
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT-STRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYED 85 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~d 85 (793)
-..++|+ |++.+..++.-+..++.-+++|+++ +|.++ ..++|++||+.|++..+...+..++++|+|++|+.++.+
T Consensus 114 k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~s--sp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~ 190 (865)
T KOG1055|consen 114 KLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGAS--SPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQT 190 (865)
T ss_pred hheeccC-CCCcchHHHhhccccceeeecccCC--CccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeee
Confidence 4567887 9999999999999999999999999 99998 478999999999999999999999999999999999999
Q ss_pred CC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcC
Q 003821 86 DA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMG 164 (793)
Q Consensus 86 d~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g 164 (793)
.. | ..-.+.+...+.+.|++++....+-. |....+.+++....|+|+- .-+...|+.+++++++.+
T Consensus 191 e~~f---~~~~~dl~~~~~~~~ieiv~~qsf~~---------dp~~~vk~l~~~D~RiI~g-~f~~~~Arkv~C~~Y~~~ 257 (865)
T KOG1055|consen 191 EEVF---SSTLNDLEARLKEAGIEIVFRQSFSS---------DPADSVKNLKRQDARIIVG-LFYETEARKVFCEAYKER 257 (865)
T ss_pred hhhh---cchHHHHHHhhhccccEEEEeecccc---------CHHHHHhhccccchhheec-cchHhhhhHHHHhhchhh
Confidence 87 5 67788899999999999987765543 2345688899889999888 788899999999999999
Q ss_pred CCCCCeEEEEeCCcccc-------------------------ceeecccccCC-----chhhhHHHHHHHHhhhhcCCCC
Q 003821 165 LVGPDSVWVIASDTITS-------------------------ALGIKTHFSQD-----SSSYKIFEDQFRSYFRSEYPED 214 (793)
Q Consensus 165 ~~~~~~~wi~~~~~~~~-------------------------~~g~~~~~~~~-----~~~~~~f~~~~~~~~~~~~~~~ 214 (793)
|.+..|+|+.. .|..+ ...+.+..... ....+.|...+.+..+..+
T Consensus 258 myg~ky~w~~~-g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~--- 333 (865)
T KOG1055|consen 258 LYGRKYVWFLI-GWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP--- 333 (865)
T ss_pred cccceeEEEEE-EeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc---
Confidence 99999999998 66554 00111111110 1122344444443322211
Q ss_pred CCCCcchhhHhHhHHHHHHHHHHhhccCC---------------CCChhhHHHhhhhcccccceeeEEEeCCCcCCCCcE
Q 003821 215 DVSEPGIYALRAYDSITVVAKSIDGMTSD---------------NSSSKISLGYILSSNFTGLSGPISFRGGKLLNSPIL 279 (793)
Q Consensus 215 ~~~~~~~~a~~~YDAv~~la~Al~~~~~~---------------~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~ 279 (793)
.....+..+.++|||+|++|+|++++... ..-.+.+.++|.+++|.|++|.+.|.+ |+| ....
T Consensus 334 ~~~~~~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR-~a~t 411 (865)
T KOG1055|consen 334 EETGGFQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GER-MALT 411 (865)
T ss_pred ccccCcccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhh-HHHH
Confidence 12344567889999999999999987431 022467999999999999999999998 887 4577
Q ss_pred EEEEeecceeEEEEEecCCCC
Q 003821 280 RIINMVGKKYKEIDFWLPKFG 300 (793)
Q Consensus 280 ~I~~~~~~~~~~VG~w~~~~g 300 (793)
.|-+++++.++++|+|+...+
T Consensus 412 ~ieQ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 412 LIEQFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHHHHhCCceEeecccccccc
Confidence 788999999999999987553
No 78
>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=99.83 E-value=3e-19 Score=191.94 Aligned_cols=252 Identities=13% Similarity=0.164 Sum_probs=194.0
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
+.+++|.+|||+.+|..+.++.+++...++|+|+++++ ++.++....+++||+.+++..++..+++++...||+++++
T Consensus 64 ~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~ 141 (336)
T cd06326 64 IEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTG--ASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAV 141 (336)
T ss_pred HhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCC--cHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEE
Confidence 34458999999998888888889999999999998766 4555444568999999999999999999999999999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
|+.++.+| ....+.+++.+++.|+++.....++... .++..++.++++.++++|++ .+....+..++++++
T Consensus 142 l~~~~~~~--~~~~~~~~~~~~~~G~~~~~~~~~~~~~------~d~~~~~~~l~~~~~dav~~-~~~~~~a~~~i~~~~ 212 (336)
T cd06326 142 FYQDDAFG--KDGLAGVEKALAARGLKPVATASYERNT------ADVAAAVAQLAAARPQAVIM-VGAYKAAAAFIRALR 212 (336)
T ss_pred EEecCcch--HHHHHHHHHHHHHcCCCeEEEEeecCCc------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHH
Confidence 99988898 8999999999999999987776677544 56888999999888999888 676778999999999
Q ss_pred HcCCCCCCeEEEEe--CCcccc--------ce--eeccc-ccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhH
Q 003821 162 EMGLVGPDSVWVIA--SDTITS--------AL--GIKTH-FSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYD 228 (793)
Q Consensus 162 ~~g~~~~~~~wi~~--~~~~~~--------~~--g~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 228 (793)
+.|+..+ ..+... .+.+.. ++ +..++ .....|..++|.+.|++.+.. ..|+.++..+||
T Consensus 213 ~~G~~~~-~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~~~~~~~~~~y~ 284 (336)
T cd06326 213 KAGGGAQ-FYNLSFVGADALARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-------APPSYVSLEGYI 284 (336)
T ss_pred hcCCCCc-EEEEeccCHHHHHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-------CCCCeeeehhHH
Confidence 9999654 222211 010000 11 11111 112246677787777766531 256778889999
Q ss_pred HHHHHHHHHhhccCCCCChhhHHHhhhhccc-ccceeeEEEeCCCc
Q 003821 229 SITVVAKSIDGMTSDNSSSKISLGYILSSNF-TGLSGPISFRGGKL 273 (793)
Q Consensus 229 Av~~la~Al~~~~~~~~~g~~l~~~l~~~~f-~G~tG~i~Fd~~g~ 273 (793)
+++++++|+++++.+ .+++.+.++|++++. .+..|.++|++..+
T Consensus 285 ~~~~~~~a~~~~g~~-~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 285 AAKVLVEALRRAGPD-PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred HHHHHHHHHHHcCCC-CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 999999999999864 578999999999875 44445899976433
No 79
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.83 E-value=1.6e-19 Score=184.55 Aligned_cols=209 Identities=22% Similarity=0.344 Sum_probs=175.6
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEec
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILV 413 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~ 413 (793)
.++|+||+. +.|+||.+.+++ ++.|+++||++++++++|.++++... ++|+++++++.|+
T Consensus 24 ~~~l~v~~~--~~~~P~~~~~~g------~~~G~~vdl~~~ia~~lg~~~~~~~~~~~~~~~~l~~G~vDi~~~~~~~t~ 95 (247)
T PRK09495 24 DKKLVVATD--TAFVPFEFKQGD------KYVGFDIDLWAAIAKELKLDYTLKPMDFSGIIPALQTKNVDLALAGITITD 95 (247)
T ss_pred CCeEEEEeC--CCCCCeeecCCC------ceEEEeHHHHHHHHHHhCCceEEEeCCHHHHHHHHhCCCcCEEEecCccCH
Confidence 467999974 458888875433 78999999999999999999555433 8999988899999
Q ss_pred ccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHH
Q 003821 414 NRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWF 493 (793)
Q Consensus 414 ~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 493 (793)
+|.+.++||.||+.+++.++++....
T Consensus 96 ~R~~~~~fs~p~~~~~~~~~~~~~~~------------------------------------------------------ 121 (247)
T PRK09495 96 ERKKAIDFSDGYYKSGLLVMVKANNN------------------------------------------------------ 121 (247)
T ss_pred HHHhhccccchheecceEEEEECCCC------------------------------------------------------
Confidence 99999999999999999999987653
Q ss_pred HHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHh
Q 003821 494 TFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLEN 573 (793)
Q Consensus 494 ~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~ 573 (793)
++++++||. |.++|+..++....++..
T Consensus 122 ---------------------------------------------------~~~~~~dL~--g~~I~v~~g~~~~~~l~~ 148 (247)
T PRK09495 122 ---------------------------------------------------DIKSVKDLD--GKVVAVKSGTGSVDYAKA 148 (247)
T ss_pred ---------------------------------------------------CCCChHHhC--CCEEEEecCchHHHHHHh
Confidence 489999998 889999888777777766
Q ss_pred hcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC-CceEEeCccccccceEEEecCCCcChHHHHHHHH
Q 003821 574 VLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC-KEYTATIPTYRFGGFAFVFQKGSPLAADFSEAIL 652 (793)
Q Consensus 574 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c-~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~ 652 (793)
. .+..++..+.+..+.+.++.+|++|+++.+.....+++++.. ..+...+......+++++++|++.+++.+|++|.
T Consensus 149 ~--~~~~~i~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~n~al~ 226 (247)
T PRK09495 149 N--IKTKDLRQFPNIDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELREKVNGALK 226 (247)
T ss_pred c--CCCCceEEcCCHHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHHHHHHHHH
Confidence 4 445567778889999999999999999999888888776643 3466666666667899999999999999999999
Q ss_pred hhhccCchHHHHHHHcCCC
Q 003821 653 KLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 653 ~l~e~G~~~~~~~~w~~~~ 671 (793)
++.++|.++++.++|+...
T Consensus 227 ~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 227 TLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred HHHHCCcHHHHHHHHcCCC
Confidence 9999999999999999865
No 80
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.83 E-value=1.7e-19 Score=188.55 Aligned_cols=209 Identities=14% Similarity=0.198 Sum_probs=171.7
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHH----HCC---CccceeEE--------------EEeE
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQ----VLK---YDLPYEFS--------------DYDA 404 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~----~ln---~~~~~~~~--------------~~Di 404 (793)
.+.|+||+. +.|+||.+.+++ + .+.||++|+++.|++ ++| ++ ++++ ++|+
T Consensus 39 ~g~L~Vg~~--~~~pP~~f~~~~----g-~~~G~didl~~~ia~~l~~~lg~~~~~--~~~v~~~~~~~i~~L~~G~~Di 109 (302)
T PRK10797 39 NGVIVVGHR--ESSVPFSYYDNQ----Q-KVVGYSQDYSNAIVEAVKKKLNKPDLQ--VKLIPITSQNRIPLLQNGTFDF 109 (302)
T ss_pred CCeEEEEEc--CCCCCcceECCC----C-CEeeecHHHHHHHHHHHHHhhCCCCce--EEEEEcChHhHHHHHHCCCccE
Confidence 467999985 458899887654 3 799999998877765 565 55 5555 9999
Q ss_pred EEecEEEecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCcc
Q 003821 405 AIGDITILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWN 484 (793)
Q Consensus 405 ~~~~~~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~ 484 (793)
+++++++|++|.+.++||.||+.++..+++++..
T Consensus 110 ~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~---------------------------------------------- 143 (302)
T PRK10797 110 ECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG---------------------------------------------- 143 (302)
T ss_pred EecCCccCcchhhcceecccEeeccEEEEEECCC----------------------------------------------
Confidence 9999999999999999999999999999998764
Q ss_pred ccchhHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCc
Q 003821 485 IQIGTALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGD 564 (793)
Q Consensus 485 ~~~~~~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~ 564 (793)
.|++++||. |+++|+..+
T Consensus 144 ------------------------------------------------------------~i~sl~dL~--Gk~V~v~~g 161 (302)
T PRK10797 144 ------------------------------------------------------------DIKDFADLK--GKAVVVTSG 161 (302)
T ss_pred ------------------------------------------------------------CCCChHHcC--CCEEEEeCC
Confidence 378999998 899999888
Q ss_pred hHHHHHHHhhcC--CCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhc--cCCceEEeCccccccceEEEecCC
Q 003821 565 SFVRNYLENVLG--FKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQ--HCKEYTATIPTYRFGGFAFVFQKG 640 (793)
Q Consensus 565 ~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~--~c~~~~~~~~~~~~~~~~~~~~k~ 640 (793)
+....++..... .+..++..+.+.++.+++|.+|++|+++.+...+.+.+.+ ..+.+.++++.+...+++++++|+
T Consensus 162 s~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~ 241 (302)
T PRK10797 162 TTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKD 241 (302)
T ss_pred CcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCC
Confidence 877777665321 2235677889999999999999999999998777654433 233467777777777899999999
Q ss_pred Cc-ChHHHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 641 SP-LAADFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 641 sp-l~~~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
++ ++..+|.+|.+++++|.+++|.++|+...
T Consensus 242 ~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~~ 273 (302)
T PRK10797 242 DPQFKKLMDDTIAQAQTSGEAEKWFDKWFKNP 273 (302)
T ss_pred CHHHHHHHHHHHHHHHhCchHHHHHHHHcCCC
Confidence 87 99999999999999999999999999864
No 81
>PRK11260 cystine transporter subunit; Provisional
Probab=99.80 E-value=9.9e-19 Score=180.69 Aligned_cols=212 Identities=21% Similarity=0.332 Sum_probs=178.3
Q ss_pred CCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEe
Q 003821 345 DAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITIL 412 (793)
Q Consensus 345 ~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t 412 (793)
..++|+||+. ..++||.+.+++ + ++.|+.+|+++.+++++|.+++|... ++|+++++++.+
T Consensus 39 ~~~~l~v~~~--~~~~P~~~~~~~----g-~~~G~~~dl~~~i~~~lg~~~e~~~~~~~~~~~~l~~G~~D~~~~~~~~~ 111 (266)
T PRK11260 39 ERGTLLVGLE--GTYPPFSFQGED----G-KLTGFEVEFAEALAKHLGVKASLKPTKWDGMLASLDSKRIDVVINQVTIS 111 (266)
T ss_pred cCCeEEEEeC--CCcCCceEECCC----C-CEEEehHHHHHHHHHHHCCeEEEEeCCHHHHHHHHhcCCCCEEEeccccC
Confidence 4578999974 358888876654 4 78999999999999999999544443 999998889999
Q ss_pred cccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHH
Q 003821 413 VNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALW 492 (793)
Q Consensus 413 ~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 492 (793)
++|.+.+.||.||+..+..++++.....
T Consensus 112 ~~r~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------------------- 139 (266)
T PRK11260 112 DERKKKYDFSTPYTVSGIQALVKKGNEG---------------------------------------------------- 139 (266)
T ss_pred HHHHhccccCCceeecceEEEEEcCCcC----------------------------------------------------
Confidence 9999999999999999999998876532
Q ss_pred HHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHH
Q 003821 493 FTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLE 572 (793)
Q Consensus 493 ~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~ 572 (793)
.+++++||. +.++|+..++....++.
T Consensus 140 ----------------------------------------------------~~~~~~dL~--g~~Igv~~G~~~~~~l~ 165 (266)
T PRK11260 140 ----------------------------------------------------TIKTAADLK--GKKVGVGLGTNYEQWLR 165 (266)
T ss_pred ----------------------------------------------------CCCCHHHcC--CCEEEEecCCcHHHHHH
Confidence 478999997 88999988887777776
Q ss_pred hhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCCCc-ChHHHHHHH
Q 003821 573 NVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSP-LAADFSEAI 651 (793)
Q Consensus 573 ~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~sp-l~~~in~~i 651 (793)
+. ++..++..+++..+.++++.+|++|+++.+...+.+++++....+.+....+...+++++++|++| ++..+|++|
T Consensus 166 ~~--~~~~~i~~~~~~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~ln~~l 243 (266)
T PRK11260 166 QN--VQGVDVRTYDDDPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLKAVNQAI 243 (266)
T ss_pred Hh--CCCCceEecCCHHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHHHHHHHH
Confidence 64 555677888999999999999999999999888888887765435555556667789999999987 999999999
Q ss_pred HhhhccCchHHHHHHHcCCC
Q 003821 652 LKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 652 ~~l~e~G~~~~~~~~w~~~~ 671 (793)
.++.++|.++++.++|+...
T Consensus 244 ~~~~~~g~~~~i~~k~~~~~ 263 (266)
T PRK11260 244 AEMQKDGTLKALSEKWFGAD 263 (266)
T ss_pred HHHHhCCcHHHHHHHhcCCc
Confidence 99999999999999999864
No 82
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.80 E-value=5.3e-19 Score=178.11 Aligned_cols=211 Identities=23% Similarity=0.319 Sum_probs=170.6
Q ss_pred EEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEecccc
Q 003821 349 LIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILVNRT 416 (793)
Q Consensus 349 lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~~R~ 416 (793)
||||+.. .++||.+.+++ + ...|+++||++++++++|+++++... ++|+++++++.+++|.
T Consensus 1 l~V~~~~--~~~P~~~~~~~----~-~~~G~~~dl~~~i~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~ 73 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDED----G-EPSGIDVDLLRAIAKRLGIKIEFVPMPWSRLLEMLENGKADIIIGGLSITPERA 73 (225)
T ss_dssp EEEEEES--EBTTTBEEETT----S-EEESHHHHHHHHHHHHHTCEEEEEEEEGGGHHHHHHTTSSSEEESSEB-BHHHH
T ss_pred CEEEEcC--CCCCeEEECCC----C-CEEEEhHHHHHHHHhhcccccceeeccccccccccccccccccccccccccccc
Confidence 6899843 47888998865 4 89999999999999999999555544 9999999999999999
Q ss_pred cceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHHHH
Q 003821 417 RFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFTFS 496 (793)
Q Consensus 417 ~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 496 (793)
+.++||.||+..+.++++++.+..
T Consensus 74 ~~~~~s~p~~~~~~~~~~~~~~~~-------------------------------------------------------- 97 (225)
T PF00497_consen 74 KKFDFSDPYYSSPYVLVVRKGDAP-------------------------------------------------------- 97 (225)
T ss_dssp TTEEEESESEEEEEEEEEETTSTC--------------------------------------------------------
T ss_pred ccccccccccchhheeeecccccc--------------------------------------------------------
Confidence 999999999999999999975321
Q ss_pred HHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHhhcC
Q 003821 497 SLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLENVLG 576 (793)
Q Consensus 497 ~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~~ 576 (793)
....+++++||. +.++|+..++....++.+...
T Consensus 98 ---------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~l~~~~~ 130 (225)
T PF00497_consen 98 ---------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADYLKQQYP 130 (225)
T ss_dssp ---------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHHHHHHTH
T ss_pred ---------------------------------------------ccccccchhhhc--CcccccccchhHHHHhhhhcc
Confidence 011577888996 789999888887777776421
Q ss_pred CCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCC-ceEEeCccccccceEEEecCCCc-ChHHHHHHHHhh
Q 003821 577 FKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCK-EYTATIPTYRFGGFAFVFQKGSP-LAADFSEAILKL 654 (793)
Q Consensus 577 ~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~-~~~~~~~~~~~~~~~~~~~k~sp-l~~~in~~i~~l 654 (793)
...++..+.+.+++++++.+|++|+++.+...+.+++++... ............++++++.++.+ +++.||++|.+|
T Consensus 131 -~~~~~~~~~~~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~i~~l 209 (225)
T PF00497_consen 131 -SNINIVEVDSPEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFNKAIREL 209 (225)
T ss_dssp -HTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHHHHHHHH
T ss_pred -chhhhcccccHHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHHHHHHHH
Confidence 145667789999999999999999999999999999888653 22222444555667777776655 999999999999
Q ss_pred hccCchHHHHHHHcCC
Q 003821 655 SENGELRSLEEKWFAP 670 (793)
Q Consensus 655 ~e~G~~~~~~~~w~~~ 670 (793)
.++|.++++.+||+.+
T Consensus 210 ~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 210 KQSGEIQKILKKYLGD 225 (225)
T ss_dssp HHTTHHHHHHHHHHSS
T ss_pred HhCcHHHHHHHHHcCC
Confidence 9999999999999863
No 83
>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=99.79 E-value=4.6e-18 Score=183.02 Aligned_cols=244 Identities=10% Similarity=0.090 Sum_probs=186.0
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+.+++|.+|||+.++..+.++ +++.+.++|+|+++++ ++.+.. .++.|++.+++..++.++++++...+.++++
T Consensus 62 li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~ 136 (341)
T cd06341 62 LVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGT--SAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAV 136 (341)
T ss_pred HHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCC--Cchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEE
Confidence 3455689999999998877766 8999999999998776 555443 5778899999999999999999888999999
Q ss_pred EEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 81 IIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 81 ii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
+++.++. || ....+.+++.+++.|++++....++... .|+...+.++++.++|+|++ ......+..++++
T Consensus 137 ~i~~~~~~~g--~~~~~~~~~~~~~~G~~v~~~~~~~~~~------~d~~~~~~~i~~~~pdaV~~-~~~~~~a~~~~~~ 207 (341)
T cd06341 137 ALVTALSAAV--SAAAALLARSLAAAGVSVAGIVVITATA------PDPTPQAQQAAAAGADAIIT-VLDAAVCASVLKA 207 (341)
T ss_pred EEEeCCcHHH--HHHHHHHHHHHHHcCCccccccccCCCC------CCHHHHHHHHHhcCCCEEEE-ecChHHHHHHHHH
Confidence 9987776 98 8999999999999999988776666544 56888999999999999988 7778899999999
Q ss_pred HHHcCCCCCCeEEEEeCCc-ccc--------ceeecccccC--CchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHhH
Q 003821 160 AKEMGLVGPDSVWVIASDT-ITS--------ALGIKTHFSQ--DSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAYD 228 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~-~~~--------~~g~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 228 (793)
+++.|+..+...-....+. ... ++....+.+. ..|..+.|.+.+++ |... .+..|+.+++.+||
T Consensus 208 ~~~~G~~~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~----~~~~~~~~~~~~yd 282 (341)
T cd06341 208 VRAAGLTPKVVLSGTCYDPALLAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMAR-YAPQ----LDPPEQGFALIGYI 282 (341)
T ss_pred HHHcCCCCCEEEecCCCCHHHHHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHH-hCCC----CCCCcchHHHHHHH
Confidence 9999998763321111000 000 2223333332 45777788765553 3221 23467889999999
Q ss_pred HHHHHHHHHhhccCCCCChhh-HHHhhhhccccccee
Q 003821 229 SITVVAKSIDGMTSDNSSSKI-SLGYILSSNFTGLSG 264 (793)
Q Consensus 229 Av~~la~Al~~~~~~~~~g~~-l~~~l~~~~f~G~tG 264 (793)
+++++++|+++++.. .+++. ++++|++++.....|
T Consensus 283 a~~~~~~a~~~ag~~-~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 283 AADLFLRGLSGAGGC-PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred HHHHHHHHHHhcCCC-CChHHHHHHHhhcCCCCCCCC
Confidence 999999999999874 46777 999999987544434
No 84
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.79 E-value=3.7e-18 Score=175.79 Aligned_cols=212 Identities=20% Similarity=0.273 Sum_probs=166.9
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEec
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILV 413 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~ 413 (793)
.++|+|++. +.|+||.+.+++ + .+.|+++||++++++++|.+++|+.. ++|++++++..|+
T Consensus 25 ~~~l~v~~~--~~~pPf~~~~~~----g-~~~G~~vdl~~~ia~~lg~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~ 97 (260)
T PRK15010 25 PETVRIGTD--TTYAPFSSKDAK----G-DFVGFDIDLGNEMCKRMQVKCTWVASDFDALIPSLKAKKIDAIISSLSITD 97 (260)
T ss_pred CCeEEEEec--CCcCCceeECCC----C-CEEeeeHHHHHHHHHHhCCceEEEeCCHHHHHHHHHCCCCCEEEecCcCCH
Confidence 477999984 358899997654 4 78999999999999999999544433 9999988999999
Q ss_pred ccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHH
Q 003821 414 NRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWF 493 (793)
Q Consensus 414 ~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 493 (793)
+|.+.++||.||+..+.++++++..+.
T Consensus 98 eR~~~~~fs~p~~~~~~~~~~~~~~~~----------------------------------------------------- 124 (260)
T PRK15010 98 KRQQEIAFSDKLYAADSRLIAAKGSPI----------------------------------------------------- 124 (260)
T ss_pred HHHhhcccccceEeccEEEEEECCCCC-----------------------------------------------------
Confidence 999999999999999999999887641
Q ss_pred HHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHh
Q 003821 494 TFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLEN 573 (793)
Q Consensus 494 ~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~ 573 (793)
..+++||. |.+||+..++....++..
T Consensus 125 ----------------------------------------------------~~~~~dl~--g~~Igv~~gs~~~~~~~~ 150 (260)
T PRK15010 125 ----------------------------------------------------QPTLDSLK--GKHVGVLQGSTQEAYANE 150 (260)
T ss_pred ----------------------------------------------------CCChhHcC--CCEEEEecCchHHHHHHH
Confidence 24688887 899999999877777665
Q ss_pred hcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHH-HHhc-cCCceEEeCccc-----cccceEEEecCCCc-ChH
Q 003821 574 VLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERA-FLSQ-HCKEYTATIPTY-----RFGGFAFVFQKGSP-LAA 645 (793)
Q Consensus 574 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~-~c~~~~~~~~~~-----~~~~~~~~~~k~sp-l~~ 645 (793)
.......++..+.+.++.+++|.+|++|+++.+...+.+ +.++ ..+.+......+ ...+++++++++.+ ++.
T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~ 230 (260)
T PRK15010 151 TWRSKGVDVVAYANQDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTA 230 (260)
T ss_pred hcccCCceEEecCCHHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHH
Confidence 432223455667888899999999999999998877654 3333 233344443322 12345789999876 999
Q ss_pred HHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 646 DFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 646 ~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
.+|++|.++.++|.++++.++|+...
T Consensus 231 ~ln~~l~~l~~~G~~~~i~~ky~~~~ 256 (260)
T PRK15010 231 AFNKALGELRQDGTYDKMAKKYFDFN 256 (260)
T ss_pred HHHHHHHHHHhCCcHHHHHHHhcCCc
Confidence 99999999999999999999998753
No 85
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.78 E-value=2.3e-17 Score=168.37 Aligned_cols=259 Identities=14% Similarity=0.126 Sum_probs=185.8
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH------hhcCceE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV------GSYNWRK 78 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll------~~~~w~~ 78 (793)
+.-.+++||.|.-++.+++.+...+++|+||.++- . ++-...+.+-|+.|+....+..+.++. ++++|++
T Consensus 80 ~~gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsf--g--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ 155 (380)
T cd06369 80 RLGCVLLGPSCTYATFQMVDDEFNLSLPIISAGSF--G--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWET 155 (380)
T ss_pred ccCcEEEcCccceehhhhhhhhhcCCCceEecccc--c--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCce
Confidence 34578999999999999999999999999998875 3 333334578899999999999999999 5899986
Q ss_pred EEEEEEcCCCccccc---cHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 79 VIIIYEDDATNADTG---NLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 79 vaii~~dd~~G~~~~---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
.- ||.+++-- +. -+.++....+..+..+.....++.. +++.+.|+..+ ..+||||+ ++++++.+.
T Consensus 156 ay-vyk~~~~~--edCf~~i~al~a~~~~f~~~~~~~~~l~~~-------~~~~~il~~~~-~~sRIiIm-CG~p~~ir~ 223 (380)
T cd06369 156 AY-VYKKQENT--EDCFWYINALEAGVAYFSSALKFKELLRTE-------EELQKLLTDKN-RKSNVIIM-CGTPEDIVN 223 (380)
T ss_pred eE-EEcCCCCc--cceeeEhHhhhhhhhhhhhcccceeeecCc-------hhHHHHHHHhc-cCccEEEE-eCCHHHHHH
Confidence 55 99887421 22 2556666566655555544333332 45777777765 67999999 999999999
Q ss_pred HHHHHHHcCCCCCCeEEEEeCCcccc--------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCc-c
Q 003821 156 LFREAKEMGLVGPDSVWVIASDTITS--------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEP-G 220 (793)
Q Consensus 156 ~l~~a~~~g~~~~~~~wi~~~~~~~~--------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~ 220 (793)
++.+ ++...+|+.|.- |...+ ++.+....|+. +.+++ ..+ .+... .
T Consensus 224 lm~~----~~~~gDYVf~~I-DlF~~sy~~d~~a~~amqsVLvIT~~~p~~-~~~~~-----------~~~--fn~~l~~ 284 (380)
T cd06369 224 LKGD----RAVAEDIVIILI-DLFNDVYYENTTSPPYMRNVLVLTLPPRNS-TNNSS-----------FTT--DNSLLKD 284 (380)
T ss_pred HHhc----CccCCCEEEEEE-ecccchhccCcchHHHHhceEEEecCCCCC-ccccc-----------CCC--CCcchHH
Confidence 9886 555568988887 65533 11111111100 11100 000 11111 2
Q ss_pred hhhHhHhHHHHHHHHHHhhccCCC--CChhhHHHhhhhcccccceeeEEEeCCCcCCCCcEEEEEeec--ceeEEEEEec
Q 003821 221 IYALRAYDSITVVAKSIDGMTSDN--SSSKISLGYILSSNFTGLSGPISFRGGKLLNSPILRIINMVG--KKYKEIDFWL 296 (793)
Q Consensus 221 ~~a~~~YDAv~~la~Al~~~~~~~--~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~~~~~~~~I~~~~~--~~~~~VG~w~ 296 (793)
.+++..||||.++|+||++..... ..+..+.+.|++.+|+|++|.+.+|++||| +.+|.++-+.. ++++.||.|+
T Consensus 285 ~~aa~fyDaVLLYa~AL~EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~ 363 (380)
T cd06369 285 DYVAAYHDGVLLFGHVLKKFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFD 363 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEE
Confidence 789999999999999999874321 234889999999999999999999999997 67999988753 6799999998
Q ss_pred CCC
Q 003821 297 PKF 299 (793)
Q Consensus 297 ~~~ 299 (793)
...
T Consensus 364 t~~ 366 (380)
T cd06369 364 TST 366 (380)
T ss_pred CCC
Confidence 744
No 86
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.78 E-value=8.5e-18 Score=171.54 Aligned_cols=205 Identities=18% Similarity=0.306 Sum_probs=166.2
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEec
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILV 413 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~ 413 (793)
..+|||++. +.++||.+.+.+ + ++.|+++|+++.+++++|.+++|... ++|+++++++.++
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~~----g-~~~G~~~dl~~~i~~~lg~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~ 92 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDAN----N-QIVGFDVDLAQALCKEIDATCTFSNQAFDSLIPSLKFRRVEAVMAGMDITP 92 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCCC----C-CEEeeeHHHHHHHHHHhCCcEEEEeCCHHHHhHHHhCCCcCEEEEcCccCH
Confidence 367999985 457889887654 4 89999999999999999999555432 9999888889999
Q ss_pred ccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHH
Q 003821 414 NRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWF 493 (793)
Q Consensus 414 ~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 493 (793)
+|.+.++||.||+..+..++.+..
T Consensus 93 ~r~~~~~fs~p~~~~~~~~v~~~~-------------------------------------------------------- 116 (243)
T PRK15007 93 EREKQVLFTTPYYDNSALFVGQQG-------------------------------------------------------- 116 (243)
T ss_pred HHhcccceecCccccceEEEEeCC--------------------------------------------------------
Confidence 999999999999998877766543
Q ss_pred HHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHh
Q 003821 494 TFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLEN 573 (793)
Q Consensus 494 ~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~ 573 (793)
.+++++||. +.++|+..++....++.+
T Consensus 117 ---------------------------------------------------~~~~~~dL~--g~~Igv~~g~~~~~~l~~ 143 (243)
T PRK15007 117 ---------------------------------------------------KYTSVDQLK--GKKVGVQNGTTHQKFIMD 143 (243)
T ss_pred ---------------------------------------------------CCCCHHHhC--CCeEEEecCcHHHHHHHH
Confidence 257889997 899999988877788776
Q ss_pred hcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCcc-----ccccceEEEecCCCc-ChHHH
Q 003821 574 VLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPT-----YRFGGFAFVFQKGSP-LAADF 647 (793)
Q Consensus 574 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~-----~~~~~~~~~~~k~sp-l~~~i 647 (793)
. .+..++..+.+.++.+.+|.+|++|+++.+...+.+++++... +..++.. ....+++++++++++ ++..|
T Consensus 144 ~--~~~~~~~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l 220 (243)
T PRK15007 144 K--HPEITTVPYDSYQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPK-LAAVGDKVTDKDYFGTGLGIAVRQGNTELQQKL 220 (243)
T ss_pred h--CCCCeEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCC-ceeecCcccccccCCcceEEEEeCCCHHHHHHH
Confidence 4 4455667788999999999999999999998888877776654 3333321 222357899998875 99999
Q ss_pred HHHHHhhhccCchHHHHHHHcC
Q 003821 648 SEAILKLSENGELRSLEEKWFA 669 (793)
Q Consensus 648 n~~i~~l~e~G~~~~~~~~w~~ 669 (793)
|++|.++.++|.++++.++|+.
T Consensus 221 n~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 221 NTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred HHHHHHHHhCCcHHHHHHHhcC
Confidence 9999999999999999999985
No 87
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.78 E-value=7e-18 Score=172.85 Aligned_cols=205 Identities=17% Similarity=0.262 Sum_probs=163.2
Q ss_pred CCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHC-CCccceeEE--------------EEeEEEecE
Q 003821 345 DAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVL-KYDLPYEFS--------------DYDAAIGDI 409 (793)
Q Consensus 345 ~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~l-n~~~~~~~~--------------~~Di~~~~~ 409 (793)
+.++||||+. ++++||.+.+.+ +.++.||++||++++++++ |..+.+++. ++|++++++
T Consensus 36 ~~g~l~vg~~--~~~pP~~~~~~~----~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 109 (259)
T PRK11917 36 SKGQLIVGVK--NDVPHYALLDQA----TGEIKGFEIDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATF 109 (259)
T ss_pred hCCEEEEEEC--CCCCCceeeeCC----CCceeEeeHHHHHHHHHHhcCCCccEEEEEcChhhHHHHHHCCCccEEEecc
Confidence 4578999996 458899886532 2289999999999999994 754334443 999999999
Q ss_pred EEecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchh
Q 003821 410 TILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGT 489 (793)
Q Consensus 410 ~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 489 (793)
++|++|.+.++||.||+.++..++++...
T Consensus 110 ~~t~eR~~~~~fs~py~~~~~~lvv~~~~--------------------------------------------------- 138 (259)
T PRK11917 110 TITPERKRIYNFSEPYYQDAIGLLVLKEK--------------------------------------------------- 138 (259)
T ss_pred cCChhhhheeeeccCceeeceEEEEECCC---------------------------------------------------
Confidence 99999999999999999999999998765
Q ss_pred HHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHH
Q 003821 490 ALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRN 569 (793)
Q Consensus 490 ~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~ 569 (793)
++++++||. |.++|+..++....
T Consensus 139 -------------------------------------------------------~~~s~~dL~--g~~V~v~~gs~~~~ 161 (259)
T PRK11917 139 -------------------------------------------------------NYKSLADMK--GANIGVAQAATTKK 161 (259)
T ss_pred -------------------------------------------------------CCCCHHHhC--CCeEEEecCCcHHH
Confidence 378999998 89999988776655
Q ss_pred HHHhhcC--CCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCCCc-ChHH
Q 003821 570 YLENVLG--FKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSP-LAAD 646 (793)
Q Consensus 570 ~l~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~sp-l~~~ 646 (793)
.+.+... ....++..+++..+..+++.+|++|+++.+...+..+..+. ..++++.+...+++++++|+++ ++..
T Consensus 162 ~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~k~~~~l~~~ 238 (259)
T PRK11917 162 AIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDK---SEILPDSFEPQSYGIVTKKDDPAFAKY 238 (259)
T ss_pred HHHHhhHhcCCceeEEecCCHHHHHHHHHcCCCcEEEecHHHHHHhhhcC---CeecCCcCCCCceEEEEeCCCHHHHHH
Confidence 5443211 11234566788899999999999999999887766555432 3455666777789999999988 9999
Q ss_pred HHHHHHhhhccCchHHHHHHHc
Q 003821 647 FSEAILKLSENGELRSLEEKWF 668 (793)
Q Consensus 647 in~~i~~l~e~G~~~~~~~~w~ 668 (793)
+|++|.++.. .+++|.+||-
T Consensus 239 ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 239 VDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHH--HHHHHHHHhC
Confidence 9999999865 7999999993
No 88
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.77 E-value=6.8e-20 Score=171.28 Aligned_cols=107 Identities=28% Similarity=0.589 Sum_probs=82.6
Q ss_pred ChhHHHHHHHHHHHHHHHHHhhhcccCCCCCC-------CccccchhHHHHHHHHHhhcc-ccccccchhhHHHHHHHHH
Q 003821 450 TWGMWIVTGAILIYTMSVVWFLEHRWNPEFNG-------PWNIQIGTALWFTFSSLFFAH-RERIYSNLTRLVVVVWLFV 521 (793)
Q Consensus 450 ~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~s~R~l~~~w~~~ 521 (793)
+++||++++++++++++++|++++..+.+++. +...++.+++|++++++++|+ ...|++.+.|++.++|+++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 57899999999999999999999987666554 234468899999999999888 5578999999999999999
Q ss_pred HHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCC
Q 003821 522 VLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASN 556 (793)
Q Consensus 522 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 556 (793)
+++++++|||+|+|+||.++.+++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999998655
No 89
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.75 E-value=2.2e-17 Score=169.35 Aligned_cols=207 Identities=21% Similarity=0.345 Sum_probs=170.0
Q ss_pred CcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEecc
Q 003821 347 KPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILVN 414 (793)
Q Consensus 347 ~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~~ 414 (793)
++|+|++. ..++||.+.+++ + ++.|+++|+++.+++.+|.+++|+.. ++|+++++++.+++
T Consensus 24 ~~l~v~~~--~~~~P~~~~~~~----g-~~~G~~~dl~~~i~~~lg~~~~~~~~~~~~~~~~l~~G~~D~~~~~~~~~~~ 96 (250)
T TIGR01096 24 GSVRIGTE--TGYPPFESKDAN----G-KLVGFDVDLAKALCKRMKAKCKFVEQNFDGLIPSLKAKKVDAIMATMSITPK 96 (250)
T ss_pred CeEEEEEC--CCCCCceEECCC----C-CEEeehHHHHHHHHHHhCCeEEEEeCCHHHHHHHHhCCCcCEEEecCccCHH
Confidence 67999983 457889887654 4 88999999999999999999444333 89999888889999
Q ss_pred cccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHH
Q 003821 415 RTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFT 494 (793)
Q Consensus 415 R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 494 (793)
|.+.+.||.|++..+..++++....
T Consensus 97 r~~~~~~s~p~~~~~~~~~~~~~~~------------------------------------------------------- 121 (250)
T TIGR01096 97 RQKQIDFSDPYYATGQGFVVKKGSD------------------------------------------------------- 121 (250)
T ss_pred HhhccccccchhcCCeEEEEECCCC-------------------------------------------------------
Confidence 9999999999999999999987664
Q ss_pred HHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHhh
Q 003821 495 FSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLENV 574 (793)
Q Consensus 495 ~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~ 574 (793)
.+.+++||. |.++|+..++....++.+.
T Consensus 122 --------------------------------------------------~~~~~~dl~--g~~i~~~~g~~~~~~l~~~ 149 (250)
T TIGR01096 122 --------------------------------------------------LAKTLEDLD--GKTVGVQSGTTHEQYLKDY 149 (250)
T ss_pred --------------------------------------------------cCCChHHcC--CCEEEEecCchHHHHHHHh
Confidence 246888997 8899998888777777765
Q ss_pred cCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCC--ceEEeCccccc-----cceEEEecCCCc-ChHH
Q 003821 575 LGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCK--EYTATIPTYRF-----GGFAFVFQKGSP-LAAD 646 (793)
Q Consensus 575 ~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~--~~~~~~~~~~~-----~~~~~~~~k~sp-l~~~ 646 (793)
... ..++..+.+.++++++|.+|++|+++.+...+.+.+++... .+.+++..+.. ..++++++++++ ++..
T Consensus 150 ~~~-~~~~~~~~s~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 228 (250)
T TIGR01096 150 FKP-GVDIVEYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDTELKAA 228 (250)
T ss_pred ccC-CcEEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCHHHHHH
Confidence 221 45667788999999999999999999999999888776542 35555543322 247899999987 9999
Q ss_pred HHHHHHhhhccCchHHHHHHHc
Q 003821 647 FSEAILKLSENGELRSLEEKWF 668 (793)
Q Consensus 647 in~~i~~l~e~G~~~~~~~~w~ 668 (793)
+|++|.+|.++|.++.+.++|+
T Consensus 229 ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 229 FNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred HHHHHHHHHHCCcHHHHHHhhC
Confidence 9999999999999999999995
No 90
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.74 E-value=4.4e-17 Score=167.65 Aligned_cols=212 Identities=19% Similarity=0.241 Sum_probs=165.8
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEec
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILV 413 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~ 413 (793)
...|+|++. +.++||.+.+++ + ++.|+++|+++++++++|.+++++.. ++|+++++++.|+
T Consensus 25 ~~~l~v~~~--~~~~P~~~~~~~----g-~~~G~~vdi~~~ia~~lg~~i~~~~~pw~~~~~~l~~g~~D~~~~~~~~t~ 97 (259)
T PRK15437 25 PQNIRIGTD--PTYAPFESKNSQ----G-ELVGFDIDLAKELCKRINTQCTFVENPLDALIPSLKAKKIDAIMSSLSITE 97 (259)
T ss_pred CCeEEEEeC--CCCCCcceeCCC----C-CEEeeeHHHHHHHHHHcCCceEEEeCCHHHHHHHHHCCCCCEEEecCCCCH
Confidence 467999974 457888887655 4 79999999999999999999555544 9999989999999
Q ss_pred ccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHH
Q 003821 414 NRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWF 493 (793)
Q Consensus 414 ~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 493 (793)
+|.+.++||.||+..+.++++++..+.
T Consensus 98 eR~~~~~fs~p~~~~~~~~~~~~~~~~----------------------------------------------------- 124 (259)
T PRK15437 98 KRQQEIAFTDKLYAADSRLVVAKNSDI----------------------------------------------------- 124 (259)
T ss_pred HHhhhccccchhhcCceEEEEECCCCC-----------------------------------------------------
Confidence 999999999999999999999887641
Q ss_pred HHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHh
Q 003821 494 TFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLEN 573 (793)
Q Consensus 494 ~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~ 573 (793)
..+++||. |.++|+..++....++..
T Consensus 125 ----------------------------------------------------~~~~~dl~--g~~Igv~~g~~~~~~~~~ 150 (259)
T PRK15437 125 ----------------------------------------------------QPTVESLK--GKRVGVLQGTTQETFGNE 150 (259)
T ss_pred ----------------------------------------------------CCChHHhC--CCEEEEecCcHHHHHHHh
Confidence 24788987 899999999877777765
Q ss_pred hcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHH-HHhcc-CCceEEeC-----ccccccceEEEecCCCc-ChH
Q 003821 574 VLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERA-FLSQH-CKEYTATI-----PTYRFGGFAFVFQKGSP-LAA 645 (793)
Q Consensus 574 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~-c~~~~~~~-----~~~~~~~~~~~~~k~sp-l~~ 645 (793)
.......++..+.+.++.+++|.+|++|+++.+.....+ +.++. -..+.+.+ +.+...+++++++++.+ +++
T Consensus 151 ~~~~~~~~~~~~~~~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~ 230 (259)
T PRK15437 151 HWAPKGIEIVSYQGQDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELRE 230 (259)
T ss_pred hccccCceEEecCCHHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHH
Confidence 432223456778888999999999999999998866653 33332 12233322 12222346788887766 999
Q ss_pred HHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 646 DFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 646 ~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
.+|++|.++..+|.++++.++|+...
T Consensus 231 ~~n~~l~~~~~~G~~~~i~~k~~~~~ 256 (259)
T PRK15437 231 ALNKAFAEMRADGTYEKLAKKYFDFD 256 (259)
T ss_pred HHHHHHHHHHHCCcHHHHHHHhcCCc
Confidence 99999999999999999999998753
No 91
>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=99.74 E-value=6.2e-17 Score=170.64 Aligned_cols=214 Identities=24% Similarity=0.330 Sum_probs=163.4
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC-CCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT-STRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~-~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
+.+++|.+||||.++..+.+++++++..+||+|++.+. ++.+. ...+|++|++.|++..++.++++++++++|++++
T Consensus 63 ~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~ 140 (299)
T cd04509 63 CQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGAT--APGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVA 140 (299)
T ss_pred hcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCC--CcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEE
Confidence 34458999999999999999999999999999999887 55554 2467899999999999999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+++.++.+| ......+++.+++.|+++.....++... +++...+.++++..+++|++ ++....+..+++++
T Consensus 141 iv~~~~~~~--~~~~~~~~~~~~~~g~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~v~~-~~~~~~~~~~~~~~ 211 (299)
T cd04509 141 ILYDDDSYG--RGLLEAFKAAFKKKGGTVVGEEYYPLGT------TDFTSLLQKLKAAKPDVIVL-CGSGEDAATILKQA 211 (299)
T ss_pred EEecCchHH--HHHHHHHHHHHHHcCCEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cccchHHHHHHHHH
Confidence 999999888 8889999999999999987766665543 45778888898888999888 77779999999999
Q ss_pred HHcCCCCCCeEEEEeCCcccc-------------ceeecccccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 161 KEMGLVGPDSVWVIASDTITS-------------ALGIKTHFSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
++.|+. +++.|+.. +.... .+...++.+...+....+...+++.+... .+..|+.+++.+|
T Consensus 212 ~~~g~~-~~~~~i~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~y 285 (299)
T cd04509 212 AEAGLT-GGYPILGI-TLGLSDVLLEAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKK----YEDQPDYFAALAY 285 (299)
T ss_pred HHcCCC-CCCcEEec-ccccCHHHHHHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHH----hCCCCChhhhhhc
Confidence 999998 77888887 44332 22222222222122222221111222111 1346788999999
Q ss_pred HHHHH
Q 003821 228 DSITV 232 (793)
Q Consensus 228 DAv~~ 232 (793)
||+++
T Consensus 286 da~~~ 290 (299)
T cd04509 286 DAVLL 290 (299)
T ss_pred ceeee
Confidence 99987
No 92
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.73 E-value=7.1e-17 Score=167.55 Aligned_cols=212 Identities=15% Similarity=0.145 Sum_probs=168.6
Q ss_pred CCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCc-cceeEE------------EEeEEEecEEE
Q 003821 345 DAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYD-LPYEFS------------DYDAAIGDITI 411 (793)
Q Consensus 345 ~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~-~~~~~~------------~~Di~~~~~~~ 411 (793)
..++|+|++. .++||.+.+.+ + ++.|+++||++++++++|.+ +.++.. ++|++++++++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~~----g-~~~G~~~dl~~~i~~~lg~~~~~~~~~~w~~~~~~l~~G~~Di~~~~~~~ 102 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGAD----G-KVSGAAPDVARAIFKRLGIADVNASITEYGALIPGLQAGRFDAIAAGLFI 102 (275)
T ss_pred hCCcEEEEcc---CCCCceeECCC----C-ceecchHHHHHHHHHHhCCCceeeccCCHHHHHHHHHCCCcCEEeecccC
Confidence 4578999985 36788887654 4 78999999999999999986 344433 89999888999
Q ss_pred ecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHH
Q 003821 412 LVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTAL 491 (793)
Q Consensus 412 t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 491 (793)
|++|.+.++||.||+.++.++++++..+.
T Consensus 103 t~eR~~~~~fs~py~~~~~~~~~~~~~~~--------------------------------------------------- 131 (275)
T TIGR02995 103 KPERCKQVAFTQPILCDAEALLVKKGNPK--------------------------------------------------- 131 (275)
T ss_pred CHHHHhccccccceeecceeEEEECCCCC---------------------------------------------------
Confidence 99999999999999999999999887642
Q ss_pred HHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhh-CCCcccccCchHHHHH
Q 003821 492 WFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKA-SNLNVGFDGDSFVRNY 570 (793)
Q Consensus 492 ~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~-~~~~~g~~~~~~~~~~ 570 (793)
.+++++||.. .+.+||+..++...++
T Consensus 132 -----------------------------------------------------~i~~~~dl~~~~g~~Igv~~g~~~~~~ 158 (275)
T TIGR02995 132 -----------------------------------------------------GLKSYKDIAKNPDAKIAAPGGGTEEKL 158 (275)
T ss_pred -----------------------------------------------------CCCCHHHhccCCCceEEEeCCcHHHHH
Confidence 4788999853 4799999988887777
Q ss_pred HHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC-CceEEeCcccc---ccceEEEecCCCc-ChH
Q 003821 571 LENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC-KEYTATIPTYR---FGGFAFVFQKGSP-LAA 645 (793)
Q Consensus 571 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c-~~~~~~~~~~~---~~~~~~~~~k~sp-l~~ 645 (793)
+.+. ..+..++..+.+.++.+++|.+|++|+++.+...+.+.+++.- ..+..+.+... ...++++++++++ +++
T Consensus 159 l~~~-~~~~~~i~~~~~~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 237 (275)
T TIGR02995 159 AREA-GVKREQIIVVPDGQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRD 237 (275)
T ss_pred HHHc-CCChhhEEEeCCHHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHH
Confidence 7763 2344567788999999999999999999999988888876532 12333322111 1233788888776 999
Q ss_pred HHHHHHHhhhccCchHHHHHHHcC
Q 003821 646 DFSEAILKLSENGELRSLEEKWFA 669 (793)
Q Consensus 646 ~in~~i~~l~e~G~~~~~~~~w~~ 669 (793)
.||++|.++.++|.++++.++|--
T Consensus 238 ~~n~~l~~~~~sG~~~~i~~ky~~ 261 (275)
T TIGR02995 238 AFNVELAKLKESGEFAKIIAPYGF 261 (275)
T ss_pred HHHHHHHHHHhChHHHHHHHHhCC
Confidence 999999999999999999999943
No 93
>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=99.72 E-value=2.8e-16 Score=166.87 Aligned_cols=217 Identities=18% Similarity=0.227 Sum_probs=166.7
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
|+.+++|.+|||+.+|..+.++.+++...++|+|++.++ ++.+. ...+|+||+.|++..++..+++++...||++|+
T Consensus 61 li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~va 137 (312)
T cd06333 61 LIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPA--AAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVA 137 (312)
T ss_pred HHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCC--ccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEE
Confidence 345679999999998888888999999999999998876 43332 456789999999999999999999999999999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
+++.++.+| ....+.+++.+++.|+++.....++... .++..++.++++.++++|++ .+....+..+++++
T Consensus 138 il~~~~~~~--~~~~~~~~~~~~~~G~~v~~~~~~~~~~------~d~~~~~~~l~~~~pdaIi~-~~~~~~~~~~~~~l 208 (312)
T cd06333 138 FIGFSDAYG--ESGLKELKALAPKYGIEVVADERYGRTD------TSVTAQLLKIRAARPDAVLI-WGSGTPAALPAKNL 208 (312)
T ss_pred EEecCcHHH--HHHHHHHHHHHHHcCCEEEEEEeeCCCC------cCHHHHHHHHHhCCCCEEEE-ecCCcHHHHHHHHH
Confidence 999988898 8889999999999999988776776544 45788888988888999888 66667788899999
Q ss_pred HHcCCCCCCeEEEEeCCcccc---------ceee---c------ccccC---CchhhhHHHHHHHHhhhhcCCCCCCCCc
Q 003821 161 KEMGLVGPDSVWVIASDTITS---------ALGI---K------THFSQ---DSSSYKIFEDQFRSYFRSEYPEDDVSEP 219 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~~~~~~~---------~~g~---~------~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 219 (793)
++.|+..+ .+... ..... .-|+ . ...+. ..+..++|.++|+++|+. ..|
T Consensus 209 ~~~g~~~p--~~~~~-~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~-------~~~ 278 (312)
T cd06333 209 RERGYKGP--IYQTH-GVASPDFLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA-------GSV 278 (312)
T ss_pred HHcCCCCC--EEeec-CcCcHHHHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC-------CCC
Confidence 99999765 22221 11111 1111 1 11222 135678899999888743 137
Q ss_pred chhhHhHhHHHHHHHHHHhhcc
Q 003821 220 GIYALRAYDSITVVAKSIDGMT 241 (793)
Q Consensus 220 ~~~a~~~YDAv~~la~Al~~~~ 241 (793)
+.+++.+|||+++++ +.++.
T Consensus 279 ~~~~~~~Yda~~~~~--~~~~~ 298 (312)
T cd06333 279 STFGGHAYDALLLLA--VYNMS 298 (312)
T ss_pred CchhHHHHHHHHHHH--eeccC
Confidence 778999999999999 44443
No 94
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.72 E-value=1.7e-16 Score=162.85 Aligned_cols=249 Identities=12% Similarity=0.130 Sum_probs=175.7
Q ss_pred CCcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHH-hhcCceEE
Q 003821 1 MIKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALV-GSYNWRKV 79 (793)
Q Consensus 1 Li~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll-~~~~w~~v 79 (793)
||.+++|.+|+|.++|..-++|.|+.++.+-.+..+..- .- .+..|.+|-+.+...+|...+++++ .++|-+|+
T Consensus 63 Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~~Y---EG--~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~ 137 (363)
T PF13433_consen 63 LIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPTQY---EG--FECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRF 137 (363)
T ss_dssp HHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEE
T ss_pred HHHhCCccEEEecchhhhHHHHHHHHHhcCceEEecccc---cc--ccCCCceEEcCCCchhhHHHHHHHHHhccCCceE
Confidence 467899999999999999999999999999999865432 11 2445778888888888999888866 77999999
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
.+|-+|..|+ .+.-..+++.+++.|++++.+..+|-+. +++...+.+|++.+||+|+- ....+....|+++
T Consensus 138 ~lvGSdYv~p--re~Nri~r~~l~~~GgevvgE~Y~plg~------td~~~ii~~I~~~~Pd~V~s-tlvG~s~~aF~r~ 208 (363)
T PF13433_consen 138 YLVGSDYVYP--RESNRIIRDLLEARGGEVVGERYLPLGA------TDFDPIIAEIKAAKPDFVFS-TLVGDSNVAFYRA 208 (363)
T ss_dssp EEEEESSHHH--HHHHHHHHHHHHHTT-EEEEEEEE-S-H------HHHHHHHHHHHHHT-SEEEE-E--TTCHHHHHHH
T ss_pred EEecCCccch--HHHHHHHHHHHHHcCCEEEEEEEecCCc------hhHHHHHHHHHhhCCCEEEE-eCcCCcHHHHHHH
Confidence 9999999999 9999999999999999999988888766 89999999999999999887 7788999999999
Q ss_pred HHHcCCCCCCeEEEEeCCcccc-------------ceeeccccc-CCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHh
Q 003821 160 AKEMGLVGPDSVWVIASDTITS-------------ALGIKTHFS-QDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALR 225 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~ 225 (793)
.++.|+..+. .-|++ ...+. .+...+|+. -.+|..++|.++|+++|+. +..++...-.
T Consensus 209 ~~~aG~~~~~-~Pi~S-~~~~E~E~~~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~------~~v~s~~~ea 280 (363)
T PF13433_consen 209 YAAAGLDPER-IPIAS-LSTSEAELAAMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD------DRVTSDPMEA 280 (363)
T ss_dssp HHHHH-SSS----EEE-SS--HHHHTTS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T------T----HHHHH
T ss_pred HHHcCCCccc-CeEEE-EecCHHHHhhcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC------CCCCCcHHHH
Confidence 9999998553 33444 23322 222233332 2358899999999998864 2234556677
Q ss_pred HhHHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCc
Q 003821 226 AYDSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 226 ~YDAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
+|.+|+++|+|++++++ .+.+.++++|....|+...|.+++|+..+
T Consensus 281 aY~~v~l~a~Av~~ags--~d~~~vr~al~g~~~~aP~G~v~id~~n~ 326 (363)
T PF13433_consen 281 AYFQVHLWAQAVEKAGS--DDPEAVREALAGQSFDAPQGRVRIDPDNH 326 (363)
T ss_dssp HHHHHHHHHHHHHHHTS----HHHHHHHHTT--EEETTEEEEE-TTTS
T ss_pred HHHHHHHHHHHHHHhCC--CCHHHHHHHhcCCeecCCCcceEEcCCCC
Confidence 99999999999999998 68999999999999999999999998444
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.69 E-value=5.6e-16 Score=194.37 Aligned_cols=204 Identities=14% Similarity=0.198 Sum_probs=167.4
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE---------------EEeEEEecEE
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS---------------DYDAAIGDIT 410 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~---------------~~Di~~~~~~ 410 (793)
.++|+|++ .+.|+||.+.+++ + ++.||++|+++.|++++|.+ ++++ ++|++ .+++
T Consensus 301 ~~~l~v~~--~~~~pP~~~~d~~----g-~~~G~~~Dll~~i~~~~g~~--~~~v~~~~~~~~~~~l~~g~~D~i-~~~~ 370 (1197)
T PRK09959 301 HPDLKVLE--NPYSPPYSMTDEN----G-SVRGVMGDILNIITLQTGLN--FSPITVSHNIHAGTQLNPGGWDII-PGAI 370 (1197)
T ss_pred CCceEEEc--CCCCCCeeEECCC----C-cEeeehHHHHHHHHHHHCCe--EEEEecCCHHHHHHHHHCCCceEe-eccc
Confidence 46799987 5668999999765 4 89999999999999999999 5544 99987 5667
Q ss_pred EecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhH
Q 003821 411 ILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTA 490 (793)
Q Consensus 411 ~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 490 (793)
.|++|.+.++||.||+.+++++++++...
T Consensus 371 ~t~~r~~~~~fs~py~~~~~~~v~~~~~~--------------------------------------------------- 399 (1197)
T PRK09959 371 YSEDRENNVLFAEAFITTPYVFVMQKAPD--------------------------------------------------- 399 (1197)
T ss_pred CCccccccceeccccccCCEEEEEecCCC---------------------------------------------------
Confidence 89999999999999999999999876532
Q ss_pred HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHH
Q 003821 491 LWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNY 570 (793)
Q Consensus 491 ~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~ 570 (793)
.+.++ . .|.++|+..++....+
T Consensus 400 ------------------------------------------------------~~~~~---~-~g~~vav~~g~~~~~~ 421 (1197)
T PRK09959 400 ------------------------------------------------------SEQTL---K-KGMKVAIPYYYELHSQ 421 (1197)
T ss_pred ------------------------------------------------------Ccccc---c-cCCEEEEeCCcchHHH
Confidence 12222 2 4899999888877787
Q ss_pred HHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC--CceEEeCccccccceEEEecCCCc-ChHHH
Q 003821 571 LENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC--KEYTATIPTYRFGGFAFVFQKGSP-LAADF 647 (793)
Q Consensus 571 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c--~~~~~~~~~~~~~~~~~~~~k~sp-l~~~i 647 (793)
+.+. ++..++..+++..+++.+|.+|++||++.+...+.|+++++. +.+....+.+....++|+++|+.| |+..+
T Consensus 422 ~~~~--~p~~~~~~~~~~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~~~l 499 (1197)
T PRK09959 422 LKEM--YPEVEWIKVDNASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELKDII 499 (1197)
T ss_pred HHHH--CCCcEEEEcCCHHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHHHHH
Confidence 7765 566788899999999999999999999999999999888743 223333333445678999999988 99999
Q ss_pred HHHHHhhhccCchHHHHHHHcCCC
Q 003821 648 SEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 648 n~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
|++|..+.++ .++++.++|+...
T Consensus 500 nk~l~~i~~~-~~~~i~~kW~~~~ 522 (1197)
T PRK09959 500 NKALNAIPPS-EVLRLTEKWIKMP 522 (1197)
T ss_pred HHHHHhCCHH-HHHHHHhhcccCC
Confidence 9999999999 8889999998753
No 96
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.67 E-value=5.4e-16 Score=172.77 Aligned_cols=212 Identities=16% Similarity=0.161 Sum_probs=165.4
Q ss_pred CCCCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE-------------EEeEEEecE
Q 003821 343 PTDAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS-------------DYDAAIGDI 409 (793)
Q Consensus 343 ~~~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~-------------~~Di~~~~~ 409 (793)
..+.++||||+... |+.+.+++ + ...||++||++++++++|.+++++.. ++|++++++
T Consensus 39 I~~~g~LrVg~~~~----P~~~~~~~----~-~~~G~~~DLl~~ia~~LGv~~e~v~~~~~~~ll~aL~~G~iDi~~~~l 109 (482)
T PRK10859 39 IQERGELRVGTINS----PLTYYIGN----D-GPTGFEYELAKRFADYLGVKLEIKVRDNISQLFDALDKGKADLAAAGL 109 (482)
T ss_pred HHhCCEEEEEEecC----CCeeEecC----C-CcccHHHHHHHHHHHHhCCcEEEEecCCHHHHHHHHhCCCCCEEeccC
Confidence 34567899999742 33333332 2 34899999999999999999555533 999998899
Q ss_pred EEecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchh
Q 003821 410 TILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGT 489 (793)
Q Consensus 410 ~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 489 (793)
++|++|.+.++||.||+..+.+++++....
T Consensus 110 t~T~eR~~~~~FS~Py~~~~~~lv~r~~~~-------------------------------------------------- 139 (482)
T PRK10859 110 TYTPERLKQFRFGPPYYSVSQQLVYRKGQP-------------------------------------------------- 139 (482)
T ss_pred cCChhhhccCcccCCceeeeEEEEEeCCCC--------------------------------------------------
Confidence 999999999999999999999999887654
Q ss_pred HHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHH
Q 003821 490 ALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRN 569 (793)
Q Consensus 490 ~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~ 569 (793)
.+++++||. |.++|+..++....
T Consensus 140 -------------------------------------------------------~i~~l~dL~--Gk~I~V~~gS~~~~ 162 (482)
T PRK10859 140 -------------------------------------------------------RPRSLGDLK--GGTLTVAAGSSHVE 162 (482)
T ss_pred -------------------------------------------------------CCCCHHHhC--CCeEEEECCCcHHH
Confidence 478999998 89999988887776
Q ss_pred HHHhhc-CCCCccc--cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCC-Cc-Ch
Q 003821 570 YLENVL-GFKPENI--LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKG-SP-LA 644 (793)
Q Consensus 570 ~l~~~~-~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~-sp-l~ 644 (793)
.+.... .++...+ ..+.+.++.+++|.+|++|+++.+...+.+....+.+ +.+........+++++++|+ ++ |+
T Consensus 163 ~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~-l~v~~~l~~~~~~~~av~k~~~~~L~ 241 (482)
T PRK10859 163 TLQELKKKYPELSWEESDDKDSEELLEQVAEGKIDYTIADSVEISLNQRYHPE-LAVAFDLTDEQPVAWALPPSGDDSLY 241 (482)
T ss_pred HHHHHHHhCCCceEEecCCCCHHHHHHHHHCCCCCEEEECcHHHHHHHHhCCC-ceeeeecCCCceeEEEEeCCCCHHHH
Confidence 665421 1233333 3457889999999999999999988777655444334 55544444556789999994 55 99
Q ss_pred HHHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 645 ADFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 645 ~~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
..+|++|.++.++|.++++.++|+...
T Consensus 242 ~~ln~~L~~i~~~G~l~~L~~kyfg~~ 268 (482)
T PRK10859 242 AALLDFFNQIKEDGTLARLEEKYFGHV 268 (482)
T ss_pred HHHHHHHHHhhcCCHHHHHHHHHhhhh
Confidence 999999999999999999999999864
No 97
>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=99.65 E-value=6.9e-15 Score=154.90 Aligned_cols=208 Identities=26% Similarity=0.351 Sum_probs=162.6
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcC-ceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYN-WRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~-w~~vaii 82 (793)
+++|.+||||.++..+.++++.+...+||+|++.+. .+.+....++++|++.|++..++.++++++...+ |++|+++
T Consensus 64 ~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v 141 (298)
T cd06268 64 DDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGAT--SPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAII 141 (298)
T ss_pred hCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCC--CcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEE
Confidence 358999999999988889999999999999999887 5555444678999999999999999999998888 9999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+.++++| ....+.+.+.+++.|+++.....++... .++...+.++++.++++|++ .+....+..+++++++
T Consensus 142 ~~~~~~~--~~~~~~~~~~~~~~g~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~vi~-~~~~~~~~~~~~~~~~ 212 (298)
T cd06268 142 YDDYAYG--RGLAAAFREALKKLGGEVVAEETYPPGA------TDFSPLIAKLKAAGPDAVFL-AGYGGDAALFLKQARE 212 (298)
T ss_pred EcCCchh--HHHHHHHHHHHHHcCCEEEEEeccCCCC------ccHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHH
Confidence 9999998 8899999999999999988776665443 45788899998888999888 7777899999999999
Q ss_pred cCCCCCCeEEEEeCCcccc-------------ceeecccccC-CchhhhHHH-HHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 163 MGLVGPDSVWVIASDTITS-------------ALGIKTHFSQ-DSSSYKIFE-DQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 163 ~g~~~~~~~wi~~~~~~~~-------------~~g~~~~~~~-~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
.|+. ..|+.. +.... ++...++.+. ..+....|. ..|++.+ +..|+.++..+|
T Consensus 213 ~g~~---~~~~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~y 280 (298)
T cd06268 213 AGLK---VPIVGG-DGAAAPALLELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--------GRPPDSYAAAAY 280 (298)
T ss_pred cCCC---CcEEec-CccCCHHHHHhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--------CCCcccchHHHH
Confidence 9983 345555 33221 2222222222 223334444 5555554 246788999999
Q ss_pred HHHHHHH
Q 003821 228 DSITVVA 234 (793)
Q Consensus 228 DAv~~la 234 (793)
|++++++
T Consensus 281 ~~~~~~~ 287 (298)
T cd06268 281 DAVRLLA 287 (298)
T ss_pred HHHHHHc
Confidence 9999998
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.63 E-value=5e-15 Score=150.80 Aligned_cols=197 Identities=11% Similarity=0.102 Sum_probs=145.3
Q ss_pred cEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE---------------EEeEEEecEEEe
Q 003821 348 PLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS---------------DYDAAIGDITIL 412 (793)
Q Consensus 348 ~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~---------------~~Di~~~~~~~t 412 (793)
+||||+ .+.|+||.+.+ . .||++||+++|++++|++++++.. ++|+++ +++++
T Consensus 1 ~l~vg~--~~~~pPf~~~~------~---~Gfdvdl~~~ia~~lg~~~~~~~~~~~~~~~~~~~L~~g~~Dii~-~~~~t 68 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTKD------G---SGFENKIAAALAAAMGRKVVFVWLAKPAIYLVRDGLDKKLCDVVL-GLDTG 68 (246)
T ss_pred CeEEEe--CCCCCCCccCC------C---CcchHHHHHHHHHHhCCCeEEEEeccchhhHHHHHHhcCCccEEE-eCCCC
Confidence 378998 45689999852 1 599999999999999999555433 799987 58888
Q ss_pred cccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHH
Q 003821 413 VNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALW 492 (793)
Q Consensus 413 ~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 492 (793)
++| +.||.||+.++.++++++.+..
T Consensus 69 ~~r---~~fS~PY~~~~~~~v~~k~~~~---------------------------------------------------- 93 (246)
T TIGR03870 69 DPR---VLTTKPYYRSSYVFLTRKDRNL---------------------------------------------------- 93 (246)
T ss_pred hHH---HhcccCcEEeeeEEEEeCCCCC----------------------------------------------------
Confidence 777 6799999999999999987642
Q ss_pred HHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHH--hhhCCC-cccccCchHHHH
Q 003821 493 FTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGW--LKASNL-NVGFDGDSFVRN 569 (793)
Q Consensus 493 ~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~d--L~~~~~-~~g~~~~~~~~~ 569 (793)
.+++++| |. |. ++|+..++..+.
T Consensus 94 ----------------------------------------------------~~~~~~d~~L~--g~~~vgv~~gs~~~~ 119 (246)
T TIGR03870 94 ----------------------------------------------------DIKSWNDPRLK--KVSKIGVIFGSPAET 119 (246)
T ss_pred ----------------------------------------------------CCCCccchhhc--cCceEEEecCChHHH
Confidence 4788765 55 87 999999998888
Q ss_pred HHHhhcCCC-----Ccccccc-------C--CHHHHHHHhhcCceEEEEechhhHHHHHhccCCceE--EeCccc-----
Q 003821 570 YLENVLGFK-----PENILKV-------D--HEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYT--ATIPTY----- 628 (793)
Q Consensus 570 ~l~~~~~~~-----~~~~~~~-------~--~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~--~~~~~~----- 628 (793)
++++..... ...+..+ . +..+.+++|.+|++||++.+...+.+++.+.-..+. .+++..
T Consensus 120 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 (246)
T TIGR03870 120 MLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDG 199 (246)
T ss_pred HHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEeccccccccCC
Confidence 877632110 0111111 1 357889999999999999987777666654322122 222211
Q ss_pred --c--ccceEEEecCCCc-ChHHHHHHHHhhhccCchHHHHHHH
Q 003821 629 --R--FGGFAFVFQKGSP-LAADFSEAILKLSENGELRSLEEKW 667 (793)
Q Consensus 629 --~--~~~~~~~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~~w 667 (793)
. ..+++++++|+++ |++.||++|.+|. |.+++|..+|
T Consensus 200 ~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 200 AKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred CCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 0 1135899999998 9999999999999 4899999988
No 99
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.59 E-value=2.5e-14 Score=149.01 Aligned_cols=213 Identities=20% Similarity=0.271 Sum_probs=169.1
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCc--cceeEE------------EEeEEEecEEE
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYD--LPYEFS------------DYDAAIGDITI 411 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~--~~~~~~------------~~Di~~~~~~~ 411 (793)
...++|++... ..+||.+.+.. ...+.||++|+.+.+++.++.. +.+... ++|+.++++++
T Consensus 33 ~~~~~v~~~~~-~~~p~~~~~~~----~~~~~G~dvdl~~~ia~~l~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 107 (275)
T COG0834 33 RGKLRVGTEAT-YAPPFEFLDAK----GGKLVGFDVDLAKAIAKRLGGDKKVEFVPVAWDGLIPALKAGKVDIIIAGMTI 107 (275)
T ss_pred cCeEEEEecCC-CCCCcccccCC----CCeEEeeeHHHHHHHHHHhCCcceeEEeccchhhhhHHHhcCCcCEEEecccc
Confidence 46688888633 35588887665 2389999999999999998885 233332 99999999999
Q ss_pred ecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHH
Q 003821 412 LVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTAL 491 (793)
Q Consensus 412 t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 491 (793)
|++|.+.++||.||+..+..++++.....
T Consensus 108 t~er~~~~~fs~py~~~~~~~~~~~~~~~--------------------------------------------------- 136 (275)
T COG0834 108 TPERKKKVDFSDPYYYSGQVLLVKKDSDI--------------------------------------------------- 136 (275)
T ss_pred CHHHhccccccccccccCeEEEEECCCCc---------------------------------------------------
Confidence 99999999999999999999999988753
Q ss_pred HHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchH--HHH
Q 003821 492 WFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSF--VRN 569 (793)
Q Consensus 492 ~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~--~~~ 569 (793)
.+.+++||. |.++|+..++. ...
T Consensus 137 -----------------------------------------------------~~~~~~DL~--gk~v~v~~gt~~~~~~ 161 (275)
T COG0834 137 -----------------------------------------------------GIKSLEDLK--GKKVGVQLGTTDEAEE 161 (275)
T ss_pred -----------------------------------------------------CcCCHHHhC--CCEEEEEcCcchhHHH
Confidence 378999999 89999988887 333
Q ss_pred HHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHH--HhccCCceEEeCccccc-cceEEEecCC--CcCh
Q 003821 570 YLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAF--LSQHCKEYTATIPTYRF-GGFAFVFQKG--SPLA 644 (793)
Q Consensus 570 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~--~~~~c~~~~~~~~~~~~-~~~~~~~~k~--spl~ 644 (793)
..... .+...+..+++..+.+.++++|++|+++.+...+.+. ..+.-............ .+++++++|+ ..++
T Consensus 162 ~~~~~--~~~~~~~~~~~~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 239 (275)
T COG0834 162 KAKKP--GPNAKIVAYDSNAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELL 239 (275)
T ss_pred HHhhc--cCCceEEeeCCHHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCCcHHHH
Confidence 33332 3445778889999999999999999999999998884 33333222223323333 6899999999 4799
Q ss_pred HHHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 645 ADFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 645 ~~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
+.+|.+|.++.++|.++++.++|+...
T Consensus 240 ~~in~~l~~l~~~G~~~~i~~kw~~~~ 266 (275)
T COG0834 240 EAVNKALKELKADGTLQKISDKWFGPD 266 (275)
T ss_pred HHHHHHHHHHHhCccHHHHHHHhcCcc
Confidence 999999999999999999999999854
No 100
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.59 E-value=1e-14 Score=150.90 Aligned_cols=221 Identities=12% Similarity=0.110 Sum_probs=153.8
Q ss_pred CCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHC-CCccceeEE-----------EEeEEEecEEEec
Q 003821 346 AKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVL-KYDLPYEFS-----------DYDAAIGDITILV 413 (793)
Q Consensus 346 ~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~l-n~~~~~~~~-----------~~Di~~~~~~~t~ 413 (793)
.++|++++. .|+||.+.+.+ + ...|+..++++++++++ +++++++.. +.|+++.++++|+
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~~----~-~~~G~~~~i~~~i~~~~~~~~~~~~~~pw~r~l~~l~~~~d~~~~~~~~t~ 88 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSGP----S-KGRGVFDVILQEIRRALPQYEHRFVRVSFARSLKELQGKGGVCTVNLLRTP 88 (268)
T ss_pred cceeEEEec---ccCCeeEeCCC----C-CCCChHHHHHHHHHHHcCCCceeEEECCHHHHHHHHhcCCCeEEeeccCCc
Confidence 467888874 47888887543 3 67899999999999998 888555544 6777777899999
Q ss_pred ccccceeecccccc-cceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHH
Q 003821 414 NRTRFVEFSQPYTE-SGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALW 492 (793)
Q Consensus 414 ~R~~~~dfs~p~~~-~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 492 (793)
+|.+.++||.||+. ...++++++......
T Consensus 89 eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~-------------------------------------------------- 118 (268)
T TIGR02285 89 EREKFLIFSDPTLRALPVGLVLRKELTAGV-------------------------------------------------- 118 (268)
T ss_pred chhhceeecCCccccCCceEEEccchhhhc--------------------------------------------------
Confidence 99999999999975 578888887643100
Q ss_pred HHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhh-hCCCcccccCchHH----
Q 003821 493 FTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLK-ASNLNVGFDGDSFV---- 567 (793)
Q Consensus 493 ~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~-~~~~~~g~~~~~~~---- 567 (793)
...+....++.+|. ..|.++|+..++..
T Consensus 119 -----------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv~~g~~~~~~~ 151 (268)
T TIGR02285 119 -----------------------------------------------RDEQDGDVDLKKLLASKKKRLGVIASRSYGQQI 151 (268)
T ss_pred -----------------------------------------------cccCCCCccHHHHhcCCCeEEEEecceeccHHH
Confidence 00000001233332 23788998765432
Q ss_pred HHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhcc---CCceEEeCccc--cccceEEEecCCC-
Q 003821 568 RNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQH---CKEYTATIPTY--RFGGFAFVFQKGS- 641 (793)
Q Consensus 568 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~---c~~~~~~~~~~--~~~~~~~~~~k~s- 641 (793)
+.++++.......++..+.+..+.+++|..|++|+++.+...+.+++++. ...+....... ...+++++++|++
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~ 231 (268)
T TIGR02285 152 DDILSDSGYQHNTRIIGNAAMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEW 231 (268)
T ss_pred HHHHHhCCcccceeeeccchHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHH
Confidence 34444321111123455677788999999999999999998888887642 22244332111 2235789999974
Q ss_pred --cChHHHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 642 --PLAADFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 642 --pl~~~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
.+++.||++|.+|.++|.++++.++|+...
T Consensus 232 ~~~l~~~in~~L~~l~~dG~~~~i~~k~~~~~ 263 (268)
T TIGR02285 232 GRKVIADIDQALSELNVDPKYYKYFDRWLSPE 263 (268)
T ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHhCCHh
Confidence 499999999999999999999999999764
No 101
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.56 E-value=6.1e-14 Score=141.99 Aligned_cols=198 Identities=14% Similarity=0.123 Sum_probs=148.1
Q ss_pred EEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE--------------EEeEEEecEEEecc
Q 003821 349 LIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS--------------DYDAAIGDITILVN 414 (793)
Q Consensus 349 lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~--------------~~Di~~~~~~~t~~ 414 (793)
|||++ .+.|+||.+. ...||++||++++++++|.++++++. ++|++++ +++
T Consensus 2 l~v~~--~~~~~P~~~~---------~~~G~~~el~~~i~~~~g~~i~~~~~~~~~~~~~~~l~~g~~Di~~~----~~~ 66 (232)
T TIGR03871 2 LRVCA--DPNNLPFSNE---------KGEGFENKIAQLLADDLGLPLEYTWFPQRRGFVRNTLNAGRCDVVIG----VPA 66 (232)
T ss_pred eEEEe--CCCCCCccCC---------CCCchHHHHHHHHHHHcCCceEEEecCcchhhHHHHHhcCCccEEEe----ccC
Confidence 78887 4567888752 23599999999999999999666543 8999865 577
Q ss_pred cccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHH
Q 003821 415 RTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFT 494 (793)
Q Consensus 415 R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 494 (793)
|.+.++||.||+..+.+++++.....
T Consensus 67 r~~~~~fs~py~~~~~~lv~~~~~~~------------------------------------------------------ 92 (232)
T TIGR03871 67 GYEMVLTTRPYYRSTYVFVTRKDSLL------------------------------------------------------ 92 (232)
T ss_pred ccccccccCCcEeeeEEEEEeCCCcc------------------------------------------------------
Confidence 88999999999999999999887532
Q ss_pred HHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHhh
Q 003821 495 FSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLENV 574 (793)
Q Consensus 495 ~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~ 574 (793)
.+++++|+.-.+.++|+..++....++.+.
T Consensus 93 --------------------------------------------------~~~~~~d~~l~g~~V~v~~g~~~~~~l~~~ 122 (232)
T TIGR03871 93 --------------------------------------------------DVKSLDDPRLKKLRIGVFAGTPPAHWLARH 122 (232)
T ss_pred --------------------------------------------------cccchhhhhhcCCeEEEEcCChHHHHHHhc
Confidence 478898832238999998888887877653
Q ss_pred cCCCCcccc---------ccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCcc------ccccceEEEecC
Q 003821 575 LGFKPENIL---------KVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPT------YRFGGFAFVFQK 639 (793)
Q Consensus 575 ~~~~~~~~~---------~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~------~~~~~~~~~~~k 639 (793)
.... ++. ...+..+.+.+|.+|++|+++.+...+.+++++....+.+.... ....++++++++
T Consensus 123 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 (232)
T TIGR03871 123 GLVE--NVVGYSLFGDYRPESPPGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRK 200 (232)
T ss_pred Cccc--ccccccccccccccCCHHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEec
Confidence 2111 211 13467899999999999999998888888776543224333211 122356888999
Q ss_pred CCc-ChHHHHHHHHhhhccCchHHHHHHHcC
Q 003821 640 GSP-LAADFSEAILKLSENGELRSLEEKWFA 669 (793)
Q Consensus 640 ~sp-l~~~in~~i~~l~e~G~~~~~~~~w~~ 669 (793)
+++ ++..+|++|.++. |.++++.+||.-
T Consensus 201 ~~~~l~~~~n~~l~~~~--~~~~~i~~kyg~ 229 (232)
T TIGR03871 201 GDKAWKDELNAVLDRRQ--AEIDAILREYGV 229 (232)
T ss_pred CCHHHHHHHHHHHHHHH--HHHHHHHHHcCC
Confidence 876 9999999999986 478999999953
No 102
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.53 E-value=2.5e-13 Score=135.28 Aligned_cols=204 Identities=23% Similarity=0.377 Sum_probs=165.8
Q ss_pred cEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEeccc
Q 003821 348 PLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILVNR 415 (793)
Q Consensus 348 ~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~~R 415 (793)
+|+||+. +.++||...+.+ + .+.|+.+|+++.+.+++|+++++... ++|+++++...+.+|
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~----g-~~~G~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~~ 73 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADED----G-ELTGFDVDLAKAIAKELGLKVEFVEVSFDNLLTALKSGKIDVVAAGMTITPER 73 (219)
T ss_pred CEEEEec--CCCCCcEEECCC----C-CcccchHHHHHHHHHHhCCeEEEEeccHHHHHHHHHCCcccEEeccccCCHHH
Confidence 4789985 567888887654 4 69999999999999999988444443 999998877778888
Q ss_pred ccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHHH
Q 003821 416 TRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFTF 495 (793)
Q Consensus 416 ~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 495 (793)
...+.++.|+...+.+++++.+.
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------------------- 96 (219)
T smart00062 74 AKQVDFSDPYYKSGQVILVRKDS--------------------------------------------------------- 96 (219)
T ss_pred HhheeeccceeeceeEEEEecCC---------------------------------------------------------
Confidence 88899999999999999888765
Q ss_pred HHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHhhc
Q 003821 496 SSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLENVL 575 (793)
Q Consensus 496 ~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~ 575 (793)
++.+++||. |.++++..++....++...
T Consensus 97 -------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~~~~~~- 124 (219)
T smart00062 97 -------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEELLKKL- 124 (219)
T ss_pred -------------------------------------------------CCCChHHhC--CCEEEEecCccHHHHHHHh-
Confidence 378999997 8899997777666666654
Q ss_pred CCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC-CceEEeCccccc-cceEEEecCCCc-ChHHHHHHHH
Q 003821 576 GFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC-KEYTATIPTYRF-GGFAFVFQKGSP-LAADFSEAIL 652 (793)
Q Consensus 576 ~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c-~~~~~~~~~~~~-~~~~~~~~k~sp-l~~~in~~i~ 652 (793)
....++..+.+..+.+.++.+|++|+++.......+...+.- ..+.++.+.... ..++++++++++ +.+.++++|.
T Consensus 125 -~~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 203 (219)
T smart00062 125 -YPEAKIVSYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDKINKALK 203 (219)
T ss_pred -CCCceEEEcCCHHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHHHHHHHH
Confidence 334466677888999999999999999999888887776642 235555554444 678999999987 9999999999
Q ss_pred hhhccCchHHHHHHHc
Q 003821 653 KLSENGELRSLEEKWF 668 (793)
Q Consensus 653 ~l~e~G~~~~~~~~w~ 668 (793)
++.++|.++++.++|+
T Consensus 204 ~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 204 ELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHhCchHHHHHhccC
Confidence 9999999999999985
No 103
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.51 E-value=3.8e-13 Score=134.06 Aligned_cols=202 Identities=23% Similarity=0.369 Sum_probs=162.1
Q ss_pred EEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE------------EEeEEEecEEEecccc
Q 003821 349 LIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS------------DYDAAIGDITILVNRT 416 (793)
Q Consensus 349 lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~------------~~Di~~~~~~~t~~R~ 416 (793)
|+|++. +.++||.+.+.+ + .+.|++.++++.+++++|.++++... ++|++++....+.+|.
T Consensus 1 l~i~~~--~~~~p~~~~~~~----g-~~~G~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~~~ 73 (218)
T cd00134 1 LTVGTA--GTYPPFSFRDAN----G-ELTGFDVDLAKAIAKELGVKVKFVEVDWDGLITALKSGKVDLIAAGMTITPERA 73 (218)
T ss_pred CEEecC--CCCCCeeEECCC----C-CEEeeeHHHHHHHHHHhCCeEEEEeCCHHHHHHHHhcCCcCEEeecCcCCHHHH
Confidence 567775 357888887544 4 89999999999999999988444444 8999988777889999
Q ss_pred cceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHHHH
Q 003821 417 RFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFTFS 496 (793)
Q Consensus 417 ~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 496 (793)
+.+.|+.|+...+.+++++...+
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------------------- 96 (218)
T cd00134 74 KQVDFSDPYYKSGQVILVKKGSP--------------------------------------------------------- 96 (218)
T ss_pred hhccCcccceeccEEEEEECCCC---------------------------------------------------------
Confidence 99999999999999999998764
Q ss_pred HHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHHHHhhcC
Q 003821 497 SLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNYLENVLG 576 (793)
Q Consensus 497 ~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~~ 576 (793)
+.+++||. |.++++..++....++.+..
T Consensus 97 -------------------------------------------------~~~~~dl~--g~~i~~~~~~~~~~~~~~~~- 124 (218)
T cd00134 97 -------------------------------------------------IKSVKDLK--GKKVAVQKGSTAEKYLKKAL- 124 (218)
T ss_pred -------------------------------------------------CCChHHhC--CCEEEEEcCchHHHHHHHhC-
Confidence 56899997 88999877766666666652
Q ss_pred CCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhcc-CCceEEeCcc--ccccceEEEecCCCc-ChHHHHHHHH
Q 003821 577 FKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQH-CKEYTATIPT--YRFGGFAFVFQKGSP-LAADFSEAIL 652 (793)
Q Consensus 577 ~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-c~~~~~~~~~--~~~~~~~~~~~k~sp-l~~~in~~i~ 652 (793)
....+..+.+.++.++.+.+|++|+++.+.....+..++. ++ +.++... .....++++..++++ +...++++|.
T Consensus 125 -~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~ 202 (218)
T cd00134 125 -PEAKVVSYDDNAEALAALENGRADAVIVDEIALAALLKKHPPE-LKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALK 202 (218)
T ss_pred -CcccEEEeCCHHHHHHHHHcCCccEEEeccHHHHHHHHhcCCC-cEEeccccCCCccceEEEEcCCCHHHHHHHHHHHH
Confidence 2345667888899999999999999999988888877665 44 5555543 334456677777764 9999999999
Q ss_pred hhhccCchHHHHHHHc
Q 003821 653 KLSENGELRSLEEKWF 668 (793)
Q Consensus 653 ~l~e~G~~~~~~~~w~ 668 (793)
.++++|.++.+.++|+
T Consensus 203 ~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 203 ELRADGELKKISKKWF 218 (218)
T ss_pred HHHhCccHHHHHHhhC
Confidence 9999999999999996
No 104
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.51 E-value=1.3e-13 Score=172.98 Aligned_cols=209 Identities=11% Similarity=0.095 Sum_probs=168.6
Q ss_pred CCCcEEEEecCCCCccceEE-eccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE-------------EEeEEEecEE
Q 003821 345 DAKPLIIGVPARTTFDKFVK-LISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS-------------DYDAAIGDIT 410 (793)
Q Consensus 345 ~~~~lrv~~~~~~~~~p~~~-~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~-------------~~Di~~~~~~ 410 (793)
+.++|+||+.. +++|+.+ .+++ + ++.||.+|+++.|++.+|.+++|.-. ++|++++.++
T Consensus 54 ~~~~l~vgv~~--~~~p~~~~~~~~----g-~~~G~~~D~l~~ia~~lG~~~e~v~~~~~~~~l~~l~~g~iDl~~~~~~ 126 (1197)
T PRK09959 54 SKKNLVIAVHK--SQTATLLHTDSQ----Q-RVRGINADYLNLLKRALNIKLTLREYADHQKAMDALEEGEVDIVLSHLV 126 (1197)
T ss_pred hCCeEEEEecC--CCCCCceeecCC----C-ccceecHHHHHHHHHhcCCceEEEeCCCHHHHHHHHHcCCCcEecCccc
Confidence 45789999853 3444444 3444 4 89999999999999999999444322 9999988899
Q ss_pred EecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhH
Q 003821 411 ILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTA 490 (793)
Q Consensus 411 ~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 490 (793)
.+++|.+.++||.||+....+++++...
T Consensus 127 ~~~~r~~~~~fs~py~~~~~~~v~~~~~---------------------------------------------------- 154 (1197)
T PRK09959 127 ASPPLNDDIAATKPLIITFPALVTTLHD---------------------------------------------------- 154 (1197)
T ss_pred cccccccchhcCCCccCCCceEEEeCCC----------------------------------------------------
Confidence 9999999999999999999999998865
Q ss_pred HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHHH
Q 003821 491 LWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRNY 570 (793)
Q Consensus 491 ~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~~ 570 (793)
.+++++|+. ++++++..++....+
T Consensus 155 ------------------------------------------------------~~~~~~~l~--~~~i~~~~g~~~~~~ 178 (1197)
T PRK09959 155 ------------------------------------------------------SMRPLTSSK--PVNIARVANYPPDEV 178 (1197)
T ss_pred ------------------------------------------------------CCCCccccc--CeEEEEeCCCCCHHH
Confidence 356777776 788999888877888
Q ss_pred HHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC-CceEEeCc-cccccceEEEecCCCc-ChHHH
Q 003821 571 LENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC-KEYTATIP-TYRFGGFAFVFQKGSP-LAADF 647 (793)
Q Consensus 571 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c-~~~~~~~~-~~~~~~~~~~~~k~sp-l~~~i 647 (793)
+++. ++..++..|++..++++++.+|++||++.+...+.|+++++. ..+.+.+. ......+.++++|+.| +...+
T Consensus 179 ~~~~--~p~~~i~~~~s~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~l 256 (1197)
T PRK09959 179 IHQS--FPKATIISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVILNEVL 256 (1197)
T ss_pred HHHh--CCCCEEEeCCCHHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHHHHHH
Confidence 7776 677888999999999999999999999999999999888753 23444332 1223446688999988 88999
Q ss_pred HHHHHhhhccCchHHHHHHHcCCC
Q 003821 648 SEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 648 n~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
|++|..+.++|.. .+.++|+...
T Consensus 257 nkal~~i~~~~~~-~i~~kW~~~~ 279 (1197)
T PRK09959 257 NRFVDALTNEVRY-EVSQNWLDTG 279 (1197)
T ss_pred HHHHHhCCHHHHH-HHHHhccCCC
Confidence 9999999999887 8999999753
No 105
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.41 E-value=1.6e-12 Score=119.14 Aligned_cols=124 Identities=28% Similarity=0.382 Sum_probs=106.6
Q ss_pred CCCChHHhhhC-CCcccccCchHHHHHHHhhcCCC------C---ccccccCCHHHHHHHhhcCceEEEEechhhHHHHH
Q 003821 545 NVTDIGWLKAS-NLNVGFDGDSFVRNYLENVLGFK------P---ENILKVDHEYKYITDFESNRIAAAFLELSYERAFL 614 (793)
Q Consensus 545 ~i~sl~dL~~~-~~~~g~~~~~~~~~~l~~~~~~~------~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 614 (793)
+|++++||..+ +.++|+..++..+.++++..... . .++..+++..+++.+|++|+ ||++.+.+.+.++.
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-da~v~d~~~~~~~~ 79 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-YAFLMESTYLDYEL 79 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-CEEEeehHhHHHHH
Confidence 48899999832 48999999999998887652210 0 25667899999999999999 99999999999988
Q ss_pred hccCCceEEeCccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcCC
Q 003821 615 SQHCKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFAP 670 (793)
Q Consensus 615 ~~~c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~~ 670 (793)
++.|+ +.+++..+...+++++++||++|++.+|.+|.+|.++|.++++.++|+.+
T Consensus 80 ~~~~~-~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~~ 134 (134)
T smart00079 80 SQNCD-LMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWKK 134 (134)
T ss_pred hCCCC-eEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhccC
Confidence 88886 78888778888999999999999999999999999999999999999863
No 106
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.09 E-value=5.3e-10 Score=111.84 Aligned_cols=208 Identities=13% Similarity=0.058 Sum_probs=160.1
Q ss_pred CCCcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE---------------EEeEEEecE
Q 003821 345 DAKPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS---------------DYDAAIGDI 409 (793)
Q Consensus 345 ~~~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~---------------~~Di~~~~~ 409 (793)
..+.|||++..+| -. .+.+++ ...|++.++.+.+|+.||.+ .++. ++|++++++
T Consensus 21 ~rGvLrV~tinsp-~s--y~~~~~------~p~G~eYelak~Fa~yLgV~--Lki~~~~n~dqLf~aL~ng~~DL~Aagl 89 (473)
T COG4623 21 ARGVLRVSTINSP-LS--YFEDKG------GPTGLEYELAKAFADYLGVK--LKIIPADNIDQLFDALDNGNADLAAAGL 89 (473)
T ss_pred hcCeEEEEeecCc-cc--eeccCC------CccchhHHHHHHHHHHhCCe--EEEEecCCHHHHHHHHhCCCcceecccc
Confidence 4678999998664 21 122222 45699999999999999999 5554 999999999
Q ss_pred EEecccccceeecccccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchh
Q 003821 410 TILVNRTRFVEFSQPYTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGT 489 (793)
Q Consensus 410 ~~t~~R~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 489 (793)
...++|.+.+.....|+..+..++.++.+.
T Consensus 90 ~~~~~~l~~~~~gP~y~svs~qlVyRkG~~-------------------------------------------------- 119 (473)
T COG4623 90 LYNSERLKNFQPGPTYYSVSQQLVYRKGQY-------------------------------------------------- 119 (473)
T ss_pred cCChhHhcccCCCCceecccHHHHhhcCCC--------------------------------------------------
Confidence 999999999998888999999988888875
Q ss_pred HHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccCchHHHH
Q 003821 490 ALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDGDSFVRN 569 (793)
Q Consensus 490 ~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~~~~~~~ 569 (793)
..+++++|. |.++-+..++....
T Consensus 120 -------------------------------------------------------Rp~~l~~L~--g~~i~v~~gs~~~~ 142 (473)
T COG4623 120 -------------------------------------------------------RPRSLGQLK--GRQITVAKGSAHVE 142 (473)
T ss_pred -------------------------------------------------------CCCCHHHcc--CceeeccCCcHHHH
Confidence 358899998 55665555554333
Q ss_pred HHHh--hcCCCCcccc--ccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCC--CcC
Q 003821 570 YLEN--VLGFKPENIL--KVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKG--SPL 643 (793)
Q Consensus 570 ~l~~--~~~~~~~~~~--~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~--spl 643 (793)
.++. ...++....+ .-...++.++.+..|+++..+.++..+..+.+-+.+ +.+.-++-...+.++++|.+ +.|
T Consensus 143 ~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P~-laVafd~tde~~v~Wy~~~~dd~tL 221 (473)
T COG4623 143 DLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHPE-LAVAFDLTDEQPVAWYLPRDDDSTL 221 (473)
T ss_pred HHHHHHHhhcchhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCcc-ceeeeecccccCceeeccCCchHHH
Confidence 3222 1123333222 234568899999999999999999888877777776 66665566668999999996 459
Q ss_pred hHHHHHHHHhhhccCchHHHHHHHcCCC
Q 003821 644 AADFSEAILKLSENGELRSLEEKWFAPS 671 (793)
Q Consensus 644 ~~~in~~i~~l~e~G~~~~~~~~w~~~~ 671 (793)
...++.++..+.|.|.++++++||+...
T Consensus 222 ~a~ll~F~~~~~e~g~larleeky~gH~ 249 (473)
T COG4623 222 SAALLDFLNEAKEDGLLARLEEKYLGHG 249 (473)
T ss_pred HHHHHHHHHHhhcchHHHHHHHHHhccc
Confidence 9999999999999999999999999754
No 107
>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=99.00 E-value=1.1e-08 Score=105.16 Aligned_cols=162 Identities=23% Similarity=0.311 Sum_probs=125.8
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
++++.+|||+.++.....+...+...++|+|++... .+... .+++++++.|++..+++++++++.+.+|+++++++
T Consensus 56 ~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~ 131 (269)
T cd01391 56 QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDAT--APDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIY 131 (269)
T ss_pred HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCC--CCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEe
Confidence 347999999998877776888999999999999877 44443 56788999999999999999999999999999999
Q ss_pred EcC-CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC-CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDD-ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT-ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd-~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+. .++ ....+.+++.+++.|.++......+... ..++......+++. ++++|++ .+. ..+..+++++.
T Consensus 132 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~ 202 (269)
T cd01391 132 GDDGAYG--RERLEGFKAALKKAGIEVVAIEYGDLDT-----EKGFQALLQLLKAAPKPDAIFA-CND-EMAAGALKAAR 202 (269)
T ss_pred cCCcchh--hHHHHHHHHHHHhcCcEEEeccccCCCc-----cccHHHHHHHHhcCCCCCEEEE-cCc-hHHHHHHHHHH
Confidence 888 566 7778899999999987765443333221 13455556666665 6888887 554 88999999999
Q ss_pred HcCCCCCCeEEEEeCCcc
Q 003821 162 EMGLVGPDSVWVIASDTI 179 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~ 179 (793)
+.|+.+.++.|+.. +..
T Consensus 203 ~~g~~~~~~~ii~~-~~~ 219 (269)
T cd01391 203 EAGLTPGDISIIGF-DGS 219 (269)
T ss_pred HcCCCCCCCEEEec-ccc
Confidence 99998445566655 443
No 108
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=98.58 E-value=4.6e-07 Score=101.52 Aligned_cols=232 Identities=11% Similarity=0.129 Sum_probs=120.6
Q ss_pred ccceEEEEcCCChhhHHHHHHhccC--CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSR--AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~--~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
.+|+..||||..-+....++..-.. ..||++..... +.. .....-|.|.+.| ..+++.+|+.+..-|+++..|
T Consensus 276 ~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~--~~~-~~~~~l~~f~Lsp--EdEA~q~A~~a~~~g~~~alv 350 (536)
T PF04348_consen 276 ADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQP--DNS-QAPPNLYQFGLSP--EDEARQAAQKAFQDGYRRALV 350 (536)
T ss_dssp HTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES-----TT-----TTEEE----H--HHHHHHHHHHHHHTT--S-EE
T ss_pred HcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCC--Ccc-cCccceEEEeCCc--HHHHHHHHHHHHhcCCCCEEE
Confidence 4689999999999888888877654 68999998876 333 2222235556655 568999999999999999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
|+.++++| ....+.|.+..++.|..+.....+.. . .++...++.-.....|.|++ .+.+.+++.+--...
T Consensus 351 l~p~~~~g--~R~~~aF~~~W~~~gg~~~~~~~~~~-~------~~~~~~i~~r~r~d~D~ifl-~a~~~~ar~ikP~l~ 420 (536)
T PF04348_consen 351 LAPQNAWG--QRMAEAFNQQWQALGGQVAEVSYYGS-P------ADLQAAIQPRRRQDIDAIFL-VANPEQARLIKPQLD 420 (536)
T ss_dssp EEESSHHH--HHHHHHHHHHHHHHHSS--EEEEESS-T------THHHHHHHHS--TT--EEEE----HHHHHHHHHHHT
T ss_pred EcCCChHH--HHHHHHHHHHHHHcCCCceeeEecCC-H------HHHHHHHhhcCCCCCCEEEE-eCCHHHHHHHhhhcc
Confidence 99999999 99999999999999988765555553 2 46777877666668999988 788888777655443
Q ss_pred HcCCCCCCeEEEEeCCcccc---------ceee----ccc-ccCCchhhhHHHHHHHHhhhhcCCCCCCCCcchhhHhHh
Q 003821 162 EMGLVGPDSVWVIASDTITS---------ALGI----KTH-FSQDSSSYKIFEDQFRSYFRSEYPEDDVSEPGIYALRAY 227 (793)
Q Consensus 162 ~~g~~~~~~~wi~~~~~~~~---------~~g~----~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~Y 227 (793)
-. ..+.--+|-.+ ..... .-|+ .|+ .....+..+ .+...+.. . .....-.-+++|
T Consensus 421 ~~-~a~~lPvyatS-~~~~g~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~----~~~~~~~~----~-~~~~~RL~AlG~ 489 (536)
T PF04348_consen 421 FH-FAGDLPVYATS-RSYSGSPNPSQDRDLNGVRFSDMPWLLDPNSPLRQ----QLAALWPN----A-SNSLQRLYALGI 489 (536)
T ss_dssp T--T-TT-EEEE-G-GG--HHT-HHHHHHTTT-EEEE-GGGG---SHHHH----HHH-HHTT----T--HHHHHHHHHHH
T ss_pred cc-cCCCCCEEEec-cccCCCCCcchhhhhcCCEEeccccccCCCchHHH----HHHhhccC----C-ccHHHHHHHHHH
Confidence 22 22222233333 22211 1111 111 122222222 22222210 0 001122456788
Q ss_pred HHHHHHHHHHhhccCCCCChhhHHHhhhhcccccceeeEEEeCCCc
Q 003821 228 DSITVVAKSIDGMTSDNSSSKISLGYILSSNFTGLSGPISFRGGKL 273 (793)
Q Consensus 228 DAv~~la~Al~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~Fd~~g~ 273 (793)
||..++.+= .-++.+....+.|+||.+++|++|.
T Consensus 490 DA~~L~~~l------------~~l~~~~~~~~~G~TG~L~~~~~g~ 523 (536)
T PF04348_consen 490 DAYRLAPRL------------PQLRQFPGYRLDGLTGQLSLDEDGR 523 (536)
T ss_dssp HHHHHHHTH------------HHHHHSTT--EEETTEEEEE-TT-B
T ss_pred HHHHHHHHH------------HHHhhCCCCcccCCceeEEECCCCe
Confidence 887775322 1122334457899999999999886
No 109
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.53 E-value=6.2e-07 Score=91.99 Aligned_cols=186 Identities=16% Similarity=0.076 Sum_probs=128.4
Q ss_pred CcEEEEecCCCCccceEEeccCCCCCcceeeeeeHHHHHHHHHHCCCccceeEE-------------EEeEEEecEEEec
Q 003821 347 KPLIIGVPARTTFDKFVKLISSDNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS-------------DYDAAIGDITILV 413 (793)
Q Consensus 347 ~~lrv~~~~~~~~~p~~~~~~~~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~-------------~~Di~~~~~~~t~ 413 (793)
++|+||+. +.++|+ .+.+...++.+.+++++|.+++++.. ++|+++.+.....
T Consensus 32 ~~l~vg~~--~~~~~~------------~~~~~~~~l~~~l~~~~g~~v~~~~~~~~~~~~~~l~~g~~Di~~~~~~~~~ 97 (254)
T TIGR01098 32 KELNFGIL--PGENAS------------NLTRRWEPLADYLEKKLGIKVQLFVATDYSAVIEAMRFGRVDIAWFGPSSYV 97 (254)
T ss_pred CceEEEEC--CCCCHH------------HHHHHHHHHHHHHHHHhCCcEEEEeCCCHHHHHHHHHcCCccEEEECcHHHH
Confidence 56999985 333321 34456779999999999999655543 9999986654433
Q ss_pred ---ccccceeeccccccc------ceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCcc
Q 003821 414 ---NRTRFVEFSQPYTES------GLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWN 484 (793)
Q Consensus 414 ---~R~~~~dfs~p~~~~------~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~ 484 (793)
+|.+..+|+.|+... ...+++++..
T Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~---------------------------------------------- 131 (254)
T TIGR01098 98 LAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS---------------------------------------------- 131 (254)
T ss_pred HHHHhcCCceEEeeccccCCCCceEEEEEEECCC----------------------------------------------
Confidence 566678888886643 2466676654
Q ss_pred ccchhHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCcccccC-
Q 003821 485 IQIGTALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLNVGFDG- 563 (793)
Q Consensus 485 ~~~~~~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~~g~~~- 563 (793)
+|++++||. |.++++..
T Consensus 132 ------------------------------------------------------------~i~~~~dL~--gk~I~~~~~ 149 (254)
T TIGR01098 132 ------------------------------------------------------------PIKSLKDLK--GKTFAFGDP 149 (254)
T ss_pred ------------------------------------------------------------CCCChHHhc--CCEEEeeCC
Confidence 489999997 88888743
Q ss_pred chH-----HHHHHHhhcCCCC----ccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccC---CceEEeCcccccc
Q 003821 564 DSF-----VRNYLENVLGFKP----ENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHC---KEYTATIPTYRFG 631 (793)
Q Consensus 564 ~~~-----~~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c---~~~~~~~~~~~~~ 631 (793)
++. ...++.+..+... ..+....+..+.++++.+|++|+.+.+.+....+..+.. ..+.++.+.....
T Consensus 150 ~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 229 (254)
T TIGR01098 150 ASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIP 229 (254)
T ss_pred CCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEEecCCCC
Confidence 221 1234444332211 234444557789999999999999998888877665542 2467777666666
Q ss_pred ceEEEecCC-Cc-ChHHHHHHHHhh
Q 003821 632 GFAFVFQKG-SP-LAADFSEAILKL 654 (793)
Q Consensus 632 ~~~~~~~k~-sp-l~~~in~~i~~l 654 (793)
+++++++|+ .+ +++.+|++|+.+
T Consensus 230 ~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 230 NDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred CCCEEEECCCCHHHHHHHHHHHhhC
Confidence 789999999 55 999999999864
No 110
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.39 E-value=1.2e-06 Score=90.74 Aligned_cols=152 Identities=14% Similarity=0.136 Sum_probs=119.1
Q ss_pred EEeEEEecEEEecccccceeeccc--ccccceEEEEecCCCCCCcEEecCCChhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 003821 401 DYDAAIGDITILVNRTRFVEFSQP--YTESGLSMVVPAKAEQSPWIFIKPFTWGMWIVTGAILIYTMSVVWFLEHRWNPE 478 (793)
Q Consensus 401 ~~Di~~~~~~~t~~R~~~~dfs~p--~~~~~~~~~v~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~~~~~~~~~~~~~ 478 (793)
++|+++++..++.+|.+.++|+.| |....+++++|...
T Consensus 64 ~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~---------------------------------------- 103 (287)
T PRK00489 64 VVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS---------------------------------------- 103 (287)
T ss_pred CCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC----------------------------------------
Confidence 899999999999999999999998 77778888888776
Q ss_pred CCCCccccchhHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCCCCCCChHHhhhCCCc
Q 003821 479 FNGPWNIQIGTALWFTFSSLFFAHRERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLKPNVTDIGWLKASNLN 558 (793)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~~~ 558 (793)
+|++++||. |.+
T Consensus 104 ------------------------------------------------------------------~i~sl~DL~--Gk~ 115 (287)
T PRK00489 104 ------------------------------------------------------------------DWQGVEDLA--GKR 115 (287)
T ss_pred ------------------------------------------------------------------CCCChHHhC--CCE
Confidence 478999998 889
Q ss_pred ccccCchHHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEec
Q 003821 559 VGFDGDSFVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQ 638 (793)
Q Consensus 559 ~g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~ 638 (793)
+++........|+.+.. . ..++..+.+..+. .+..|..|+++........+.+. . +.++ +.+.....+++.+
T Consensus 116 ia~~~~~~~~~~l~~~g-i-~~~iv~~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~--~-L~~v-~~~~~~~~~li~~ 187 (287)
T PRK00489 116 IATSYPNLTRRYLAEKG-I-DAEVVELSGAVEV--APRLGLADAIVDVVSTGTTLRAN--G-LKIV-EVILRSEAVLIAR 187 (287)
T ss_pred EEEcCcHHHHHHHHHcC-C-ceEEEECCCchhh--hhcCCcccEEEeeHHHHHHHHHC--C-CEEE-EeeeeeeEEEEEc
Confidence 99988888888887742 2 2344556655554 56679999998877776665553 2 5555 3545567899999
Q ss_pred C--CCc-ChHHHHHHHHhhhccCchHHHHHHHcCC
Q 003821 639 K--GSP-LAADFSEAILKLSENGELRSLEEKWFAP 670 (793)
Q Consensus 639 k--~sp-l~~~in~~i~~l~e~G~~~~~~~~w~~~ 670 (793)
| ++| .+..+|..+.++ .|.+..+.++|+..
T Consensus 188 k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 188 KGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred ccccChhHHHHHHHHHHHH--HHHHHhhceEEEEE
Confidence 9 666 888999999999 59999999999975
No 111
>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=97.99 E-value=9.2e-05 Score=76.01 Aligned_cols=154 Identities=16% Similarity=0.146 Sum_probs=108.4
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.++.+||+...+.........+...++|+|..... .+. .++++++.+++...+..+++++...+-++|+++..
T Consensus 54 ~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 126 (264)
T cd01537 54 RGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRD--IPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAG 126 (264)
T ss_pred cCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccC--CCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEEC
Confidence 47888887666555544678888999999998776 332 24556788888889999999998889999999988
Q ss_pred cCC--CccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHHHHH
Q 003821 85 DDA--TNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 85 dd~--~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~l~~ 159 (793)
+++ ++ ....+.+++.+++.| .++........ ...+....+.++.+.+ +++++. .+...+..++++
T Consensus 127 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~ 196 (264)
T cd01537 127 PLGSSTA--RERVAGFKDALKEAGPIEIVLVQEGDW------DAEKGYQAAEELLTAHPDPTAIFA--ANDDMALGALRA 196 (264)
T ss_pred CCCCCcH--HHHHHHHHHHHHHcCCcChhhhccCCC------CHHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHH
Confidence 765 44 666888999998887 43322222222 1245667777777665 566555 455677778999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+.+.|+..+.-+-+++
T Consensus 197 ~~~~g~~i~~~i~i~~ 212 (264)
T cd01537 197 LREAGLRVPDDISVIG 212 (264)
T ss_pred HHHhCCCCCCCeEEEe
Confidence 9999986444344554
No 112
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=97.79 E-value=1.2e-05 Score=61.23 Aligned_cols=38 Identities=32% Similarity=0.631 Sum_probs=28.9
Q ss_pred ceEEeccC--CCCCcceeeeeeHHHHHHHHHHCCCccceeEE
Q 003821 361 KFVKLISS--DNPHKIIYDGYCIELFYKVLQVLKYDLPYEFS 400 (793)
Q Consensus 361 p~~~~~~~--~~~~~~~~~G~~~dll~~ia~~ln~~~~~~~~ 400 (793)
||++..++ +..++.+|+|||+||+++||+.|||+ |++.
T Consensus 1 Pfvm~~~~~~~~~g~~~~eGyciDll~~la~~l~F~--y~i~ 40 (65)
T PF10613_consen 1 PFVMLKEDGENLTGNDRYEGYCIDLLEELAEELNFT--YEIY 40 (65)
T ss_dssp TTBEE-TTSSGSBGGGGEESHHHHHHHHHHHHHT-E--EEEE
T ss_pred CeEEEecCCcccCCCccEEEEHHHHHHHHHHHcCCe--EEEE
Confidence 56666555 22556799999999999999999999 8776
No 113
>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=97.64 E-value=0.00098 Score=68.36 Aligned_cols=155 Identities=16% Similarity=0.136 Sum_probs=104.5
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.++.+|+....+..+.. ...+...+||+|..... .+. +.+..+.+++...++.+++.+...|.+++++++
T Consensus 53 ~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~ 123 (264)
T cd06267 53 SRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRP--LDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIG 123 (264)
T ss_pred HcCcCEEEEecCCcchHH-HHHHHHcCCCEEEeccc--ccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEec
Confidence 347888876555555555 67789999999998766 332 334467777788888888988877999999998
Q ss_pred EcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHHHHH
Q 003821 84 EDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 84 ~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~l~~ 159 (793)
.+.. ++ ....+.+++.+++.|..+.......... ..++....+.++.++. +++|+. .+...+..++++
T Consensus 124 ~~~~~~~~--~~r~~g~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~a 195 (264)
T cd06267 124 GPPDLSTA--RERLEGYREALEEAGIPLDEELIVEGDF----SEESGYEAARELLASGERPTAIFA--ANDLMAIGALRA 195 (264)
T ss_pred CCCccchH--HHHHHHHHHHHHHcCCCCCcceEEeccc----chhhHHHHHHHHHhcCCCCcEEEE--cCcHHHHHHHHH
Confidence 7754 44 6667788889988885433222222111 1244566777766554 666555 455677788999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+..++.+-+++
T Consensus 196 l~~~g~~~~~~i~i~~ 211 (264)
T cd06267 196 LRELGLRVPEDVSVVG 211 (264)
T ss_pred HHHhCCCCCCceEEEe
Confidence 9999986444444554
No 114
>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=97.55 E-value=0.0017 Score=66.79 Aligned_cols=145 Identities=15% Similarity=0.051 Sum_probs=97.5
Q ss_pred cceEEEEcCC-ChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIVGME-TWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aiiGp~-~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.+|.+||+.. ++.........+...++|+|..... .+. .+.+..+.+++...+..+++++... |-+++++
T Consensus 54 ~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~ 126 (267)
T cd01536 54 QGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSD--IDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAI 126 (267)
T ss_pred cCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCC--CCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEE
Confidence 3788887533 3333334556667889999998765 222 2334567778788888888888776 8899999
Q ss_pred EEEcCC--CccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHH
Q 003821 82 IYEDDA--TNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHL 156 (793)
Q Consensus 82 i~~dd~--~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~ 156 (793)
++.+++ ++ ....+.+++.+++.| .++........ +..+....+.++.+.. +++|++ ++...+..+
T Consensus 127 i~~~~~~~~~--~~r~~gf~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~~--~~d~~a~~~ 196 (267)
T cd01536 127 IEGPPGSSNA--QERVKGFRDALKEYPDIEIVAVQDGNW------DREKALQAMEDLLQANPDIDAIFA--ANDSMALGA 196 (267)
T ss_pred EEcccccchH--HHHHHHHHHHHHhCCCcEEEEEecCCC------cHHHHHHHHHHHHHhCCCccEEEE--ecCCchHHH
Confidence 987654 55 667888999999884 66543221111 1234566777776554 455444 555777889
Q ss_pred HHHHHHcCCC
Q 003821 157 FREAKEMGLV 166 (793)
Q Consensus 157 l~~a~~~g~~ 166 (793)
++++++.|+.
T Consensus 197 ~~~l~~~g~~ 206 (267)
T cd01536 197 VAALKAAGRK 206 (267)
T ss_pred HHHHHhcCCC
Confidence 9999999986
No 115
>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=97.42 E-value=0.0023 Score=65.82 Aligned_cols=152 Identities=15% Similarity=0.170 Sum_probs=97.6
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.+|.+||....+.........+...+||+|..... .+ ...++ +..++...+..+++++...|.++++++..
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~--~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (266)
T cd06282 54 QRVDGLILTVADAATSPALDLLDAERVPYVLAYND--PQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAG 124 (266)
T ss_pred cCCCEEEEecCCCCchHHHHHHhhCCCCEEEEecc--CC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEecc
Confidence 56887775333322334567778899999988654 22 22343 34667778888899888889999999974
Q ss_pred c---CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 85 D---DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 85 d---d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+ .+++ ....+.+.+.+++.|+++......+.. ..+....+.++.+. .+++|+. ++...+..++++
T Consensus 125 ~~~~~~~~--~~r~~gf~~~l~~~~~~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~a 194 (266)
T cd06282 125 RLAASDRA--RQRYAGYRAAMRAAGLAPLPPVEIPFN------TAALPSALLALLTAHPAPTAIFC--SNDLLALAVIRA 194 (266)
T ss_pred ccccCchH--HHHHHHHHHHHHHcCCCCCccccCCCc------HHHHHHHHHHHhcCCCCCCEEEE--CCcHHHHHHHHH
Confidence 3 2345 566788899999998765432222211 12234445544333 4677665 667778889999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+..++-+-+++
T Consensus 195 l~~~g~~~p~di~v~g 210 (266)
T cd06282 195 LRRLGLRVPDDLSVVG 210 (266)
T ss_pred HHHcCCCCCCceEEEe
Confidence 9999986544344444
No 116
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=97.41 E-value=0.0014 Score=68.57 Aligned_cols=118 Identities=16% Similarity=0.144 Sum_probs=74.4
Q ss_pred CCCChHHhhhCCCccccc-CchHHH-----HHHHhhcCCCCc---cccccC-CHHHHHHHhhcCceEEEEechhhHHHHH
Q 003821 545 NVTDIGWLKASNLNVGFD-GDSFVR-----NYLENVLGFKPE---NILKVD-HEYKYITDFESNRIAAAFLELSYERAFL 614 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~-~~~~~~-----~~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 614 (793)
+|++++||. |.++++. .++... ..+.+..+.... ....+. +..+.+..|.+|++|+.+.+......+.
T Consensus 126 ~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~vDa~~~~~~~~~~~~ 203 (288)
T TIGR03431 126 PIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRMI 203 (288)
T ss_pred CCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCCCCeEeccHHHHHHHH
Confidence 589999996 8888874 222211 122222222211 123344 5788999999999999998887776666
Q ss_pred hccC----CceEEeCccccccceEEEecCCC-c-ChHHHHHHHHhhhccCchHHHH
Q 003821 615 SQHC----KEYTATIPTYRFGGFAFVFQKGS-P-LAADFSEAILKLSENGELRSLE 664 (793)
Q Consensus 615 ~~~c----~~~~~~~~~~~~~~~~~~~~k~s-p-l~~~in~~i~~l~e~G~~~~~~ 664 (793)
++.. ..+.+..........+++++++- + +++.+++++..+.+++..+++.
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~ 259 (288)
T TIGR03431 204 RKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFEK 259 (288)
T ss_pred HcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHHh
Confidence 5321 11343322112234678899993 4 9999999999999997655443
No 117
>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=97.19 E-value=0.0064 Score=62.85 Aligned_cols=145 Identities=15% Similarity=0.079 Sum_probs=96.0
Q ss_pred cceEEEEcCCCh-hhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIVGMETW-GAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aiiGp~~s-~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
++|.|||....+ .........+...+||+|..... .+. +.+.++.+++...+..+++++... |-+++++
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 130 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGT--VTT------PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLV 130 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecC--CCC------CceeEecCCHHHHHHHHHHHHHHHcCCCceEEE
Confidence 478888874433 33333455667789999998754 221 335678889988999999988765 8889999
Q ss_pred EEEcCC--CccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHH
Q 003821 82 IYEDDA--TNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHL 156 (793)
Q Consensus 82 i~~dd~--~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~ 156 (793)
+..+.. .+ ......+++.+++.| +++........ ..++..+.+.++.++. +++|+. .+.. +..+
T Consensus 131 i~~~~~~~~~--~~R~~g~~~a~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~i~~--~~d~-A~g~ 199 (272)
T cd06300 131 VRGLAGHPVD--EDRYAGAKEVLKEYPGIKIVGEVYGDW------DQAVAQKAVADFLASNPDVDGIWT--QGGD-AVGA 199 (272)
T ss_pred EECCCCCcch--HHHHHHHHHHHHHCCCcEEEeecCCCC------CHHHHHHHHHHHHHhCCCcCEEEe--cCCC-cHHH
Confidence 975432 33 556678889998887 76543211111 1244566777776554 455444 4444 8889
Q ss_pred HHHHHHcCCCCC
Q 003821 157 FREAKEMGLVGP 168 (793)
Q Consensus 157 l~~a~~~g~~~~ 168 (793)
++.+++.|+..+
T Consensus 200 ~~al~~~g~~~p 211 (272)
T cd06300 200 VQAFEQAGRDIP 211 (272)
T ss_pred HHHHHHcCCCCc
Confidence 999999998433
No 118
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=97.14 E-value=0.014 Score=60.48 Aligned_cols=146 Identities=12% Similarity=0.049 Sum_probs=91.2
Q ss_pred cceEEE-EcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVI-VGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~ai-iGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
++|.|| ++|..+.........+...++|+|..... .+ ....+ .+.+++...++.+++++... |.+++++
T Consensus 56 ~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~--~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 127 (275)
T cd06320 56 KGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDK--LI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAI 127 (275)
T ss_pred hCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCC--CC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEE
Confidence 467764 56665544444556677899999987654 21 11122 35677777788888888765 8999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~l~ 158 (793)
+....+......-.+.+.+.+++. |+++..... ... ...+....+.++.+.. +++|+ +.+...+..+++
T Consensus 128 l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~-~~~-----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~ 199 (275)
T cd06320 128 IEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQP-ADW-----DREKAYDVATTILQRNPDLKAIY--CNNDTMALGVVE 199 (275)
T ss_pred EeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecC-CCc-----cHHHHHHHHHHHHHhCCCccEEE--ECCchhHHHHHH
Confidence 986444211134457788999998 887653211 111 1133445666655443 45433 345566777888
Q ss_pred HHHHcCCC
Q 003821 159 EAKEMGLV 166 (793)
Q Consensus 159 ~a~~~g~~ 166 (793)
.+++.|+.
T Consensus 200 al~~~g~~ 207 (275)
T cd06320 200 AVKNAGKQ 207 (275)
T ss_pred HHHhcCCC
Confidence 89999985
No 119
>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=97.00 E-value=0.017 Score=59.39 Aligned_cols=144 Identities=11% Similarity=0.057 Sum_probs=89.5
Q ss_pred cceEE-EEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKV-IVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~a-iiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
+++.| |++|..+.........+...++|+|..... .+. .+.+-.+..++...+..+++++... |-+++++
T Consensus 54 ~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~ 126 (268)
T cd06323 54 RGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDRE--ANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVE 126 (268)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccC--CCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEE
Confidence 45776 556665554444445566789999998765 221 1223346666666778888888776 7899999
Q ss_pred EEEcCC--CccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHH
Q 003821 82 IYEDDA--TNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 82 i~~dd~--~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~ 156 (793)
++.+.. ++ ....+.+++.++++ |+++........ ...+....+.++.+. .+++|+. .+...+..+
T Consensus 127 l~~~~~~~~~--~~r~~g~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~ 196 (268)
T cd06323 127 LQGIPGASAA--RERGKGFHEVVDKYPGLKVVASQPADF------DRAKGLNVMENILQAHPDIKGVFA--QNDEMALGA 196 (268)
T ss_pred EeCCCCCccH--HHHHHHHHHHHHhCCCcEEEecccCCC------CHHHHHHHHHHHHHHCCCcCEEEE--cCCchHHHH
Confidence 987543 34 55678888899884 776542211111 112333455555433 3565443 556666678
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++++.|+
T Consensus 197 ~~~l~~~g~ 205 (268)
T cd06323 197 IEALKAAGK 205 (268)
T ss_pred HHHHHHcCC
Confidence 999999998
No 120
>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=96.79 E-value=0.012 Score=61.21 Aligned_cols=144 Identities=13% Similarity=0.072 Sum_probs=92.8
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC----CCCCCeEEEecCChHHHHHHHHHHHhhc--Cce
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT----STRWPFLVRMANSSAEQITCTAALVGSY--NWR 77 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~----~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~ 77 (793)
+++|.+||+..++. ...+ .+...++|+|..+.. .+... ....+....+..++...+..+++++... |.+
T Consensus 58 ~~~vd~iI~~~~~~-~~~~--~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~ 132 (281)
T cd06325 58 ADKPDLIVAIATPA-AQAA--ANATKDIPIVFTAVT--DPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAK 132 (281)
T ss_pred hcCCCEEEEcCcHH-HHHH--HHcCCCCCEEEEecC--CccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCc
Confidence 35788898865432 2222 256789999988754 33211 1111111223445556677888888765 999
Q ss_pred EEEEEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 78 KVIIIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 78 ~vaii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
++++++.+.. ++ ....+.+++.+++.|+++.... . .. ..++.+.++++.+. +++|++ .....+..+
T Consensus 133 ~i~~l~~~~~~~~--~~r~~g~~~~~~~~g~~~~~~~-~-~~------~~~~~~~~~~~~~~-~dai~~--~~d~~a~~~ 199 (281)
T cd06325 133 TVGVLYNPSEANS--VVQVKELKKAAAKLGIEVVEAT-V-SS------SNDVQQAAQSLAGK-VDAIYV--PTDNTVASA 199 (281)
T ss_pred EEEEEeCCCCccH--HHHHHHHHHHHHhCCCEEEEEe-c-CC------HHHHHHHHHHhccc-CCEEEE--cCchhHHhH
Confidence 9999987654 55 6667889999999998876532 1 11 24566777777643 677666 455677788
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|+
T Consensus 200 ~~~~~~~~~ 208 (281)
T cd06325 200 MEAVVKVAN 208 (281)
T ss_pred HHHHHHHHH
Confidence 888888876
No 121
>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=96.71 E-value=0.016 Score=59.66 Aligned_cols=152 Identities=17% Similarity=0.123 Sum_probs=94.4
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||............+.+...++|+|..... .+. ...++ +..+....+..+++.+...|.++++++.
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~--~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~ 125 (270)
T cd01545 54 RSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPG--TPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIA 125 (270)
T ss_pred HCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecC--CCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEe
Confidence 467888887544333345556677899999988765 332 22233 4456666778888888778999999998
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+..+.........+++.+++.|+++.......... + ..+-...+.++.+. .+++|+. ++...+..+++.++
T Consensus 126 ~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~~~~ 199 (270)
T cd01545 126 GPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDF---T-FESGLEAAEALLALPDRPTAIFA--SNDDMAAGVLAVAH 199 (270)
T ss_pred CCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCC---C-hhhHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHH
Confidence 665542113345778888888887652111111111 1 12223444555433 4676665 66678889999999
Q ss_pred HcCCCCCC
Q 003821 162 EMGLVGPD 169 (793)
Q Consensus 162 ~~g~~~~~ 169 (793)
+.|...+.
T Consensus 200 ~~g~~~p~ 207 (270)
T cd01545 200 RRGLRVPD 207 (270)
T ss_pred HcCCCCCC
Confidence 99986443
No 122
>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=96.65 E-value=0.048 Score=56.38 Aligned_cols=146 Identities=13% Similarity=0.042 Sum_probs=89.9
Q ss_pred cceEEE-EcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc------Cce
Q 003821 5 KEVKVI-VGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY------NWR 77 (793)
Q Consensus 5 ~~V~ai-iGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~------~w~ 77 (793)
.++.+| ++|..+.....+...+...++|+|..... .+ . ..++..+.+++..-+..+++++... |-+
T Consensus 54 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~--~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~ 126 (277)
T cd06319 54 KGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIG--AE---G--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADG 126 (277)
T ss_pred cCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecC--CC---C--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCC
Confidence 456666 57766655556667788899999987643 11 1 1233346666666666777766443 668
Q ss_pred EEEEEEEcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHH
Q 003821 78 KVIIIYEDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMG 153 (793)
Q Consensus 78 ~vaii~~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~ 153 (793)
+++++..+.. .+ ....+.+++.+++.|.++... ... .. .+..+....+.++.++. +++|+. .+...+
T Consensus 127 ~i~~i~~~~~~~~~--~~r~~gf~~~l~~~~~~~~~~-~~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a 197 (277)
T cd06319 127 KVGMVAIPQKRKNG--QKRTKGFKEAMKEAGCDLAGI-RQQ-KD---FSYQETFDYTNDLLTANPDIRAIWL--QGSDRY 197 (277)
T ss_pred cEEEEeccCCCccH--HHHHHHHHHHHHhcCCceEee-ccC-CC---CCHHHHHHHHHHHHHhCCCCCEEEE--CCCccc
Confidence 9999985432 34 566788899999999875422 111 11 01123345555655443 445443 555566
Q ss_pred HHHHHHHHHcCCC
Q 003821 154 IHLFREAKEMGLV 166 (793)
Q Consensus 154 ~~~l~~a~~~g~~ 166 (793)
..+++++++.|+.
T Consensus 198 ~g~~~al~~~g~~ 210 (277)
T cd06319 198 QGALDAIATAGKT 210 (277)
T ss_pred hHHHHHHHHcCCC
Confidence 7899999999986
No 123
>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=96.56 E-value=0.035 Score=57.00 Aligned_cols=158 Identities=12% Similarity=0.081 Sum_probs=96.2
Q ss_pred cccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 3 KEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 3 ~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
.+.+|.+||...+..... ....+...++|+|..... .+ ....++ +.+++...+..+++++...|-++++++
T Consensus 56 ~~~~vdgiii~~~~~~~~-~~~~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i 126 (268)
T cd06271 56 ESGLVDGVIISRTRPDDP-RVALLLERGFPFVTHGRT--EL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALL 126 (268)
T ss_pred HcCCCCEEEEecCCCCCh-HHHHHHhcCCCEEEECCc--CC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEe
Confidence 345688777543322222 234556789999988654 22 123444 456777777888888877899999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a 160 (793)
.............+.+.+.+++.|..+.....+.... ......+.+.++.+. .+++|+. .+...+..+++.+
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al 200 (268)
T cd06271 127 NPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDM----TEEGGYAAAAELLALPDRPTAIVC--SSELMALGVLAAL 200 (268)
T ss_pred cCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHH
Confidence 7654321114457788899998887643222222111 112234455555433 3677665 5666777899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
++.|+..++-+-+++
T Consensus 201 ~~~g~~vp~~i~iig 215 (268)
T cd06271 201 AEAGLRPGRDVSVVG 215 (268)
T ss_pred HHhCCCCCcceeEEE
Confidence 999987554444554
No 124
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=96.55 E-value=0.024 Score=60.71 Aligned_cols=98 Identities=9% Similarity=0.115 Sum_probs=77.0
Q ss_pred cccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 3 KEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 3 ~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
.++|+..|+||.--....++..--. ..||++....+ +..-...+ -..|-+.|.| +++..|+.+-.-|.+...++
T Consensus 316 qq~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~--~n~r~~~~-~cyfaLSPED--Ea~~AA~~l~~qG~R~plvl 389 (604)
T COG3107 316 QQDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQP--ENSRNPAQ-LCYFALSPED--EARDAANHLWDQGKRNPLVL 389 (604)
T ss_pred HhcCCcEEeccccchhHHHHHhCcC-CCCceeeecCC--ccccCccc-ceeeecChhH--HHHHHHHHHHHccccCceEE
Confidence 4578999999999888777665444 88999988776 33222222 2345777775 68889999988999999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCce
Q 003821 83 YEDDATNADTGNLALLSEALQISNSE 108 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~ 108 (793)
...+++| +...+.|.+..++.|..
T Consensus 390 vPr~~lG--~Rv~~AF~~~Wq~~gg~ 413 (604)
T COG3107 390 VPRNDLG--DRVANAFNQEWQKLGGG 413 (604)
T ss_pred ecchHHH--HHHHHHHHHHHHHhcCC
Confidence 9999999 99999999999998873
No 125
>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=96.54 E-value=0.034 Score=57.20 Aligned_cols=152 Identities=16% Similarity=0.216 Sum_probs=94.4
Q ss_pred cceEEEE--cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 5 KEVKVIV--GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 5 ~~V~aii--Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
.+|.||| |+..+ ..+...+...++|+|..... .+. ...++ +..++...+..+++.+...|.++|++|
T Consensus 54 ~~vdgiii~~~~~~---~~~~~~l~~~~iPvv~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i 122 (268)
T cd06273 54 RGVDGLALIGLDHS---PALLDLLARRGVPYVATWNY--SPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMI 122 (268)
T ss_pred cCCCEEEEeCCCCC---HHHHHHHHhCCCCEEEEcCC--CCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEE
Confidence 3565544 44322 23345667789999998654 221 22333 556778888889998877799999999
Q ss_pred EEcC---CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHH
Q 003821 83 YEDD---ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 83 ~~dd---~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l 157 (793)
.... .++ ......+.+.+++.++++.....+.... ..++..+.+.++.+. .+++|+. ++...+..++
T Consensus 123 ~~~~~~~~~~--~~r~~gf~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~~~~ 194 (268)
T cd06273 123 FGPTQGNDRA--RARRAGVRAALAEAGLELPELWQVEAPY----SIADGRAALRQLLEQPPRPTAVIC--GNDVLALGAL 194 (268)
T ss_pred eccccCCccH--HHHHHHHHHHHHHcCCCCCHHHeeeCCC----cHHHHHHHHHHHHcCCCCCCEEEE--cChHHHHHHH
Confidence 8542 234 5567888999999886643322222111 112334455565443 4777665 6677788899
Q ss_pred HHHHHcCCCCCCeEEEEe
Q 003821 158 REAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~ 175 (793)
+++++.|+..+.-+-+++
T Consensus 195 ~~l~~~g~~~p~~i~vig 212 (268)
T cd06273 195 YEARRLGLSVPEDLSIVG 212 (268)
T ss_pred HHHHHcCCCCCCceEEEe
Confidence 999999986554343333
No 126
>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=96.34 E-value=0.083 Score=54.49 Aligned_cols=151 Identities=15% Similarity=0.084 Sum_probs=88.0
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEE-ecCChHHHHHHHHHHHhhc--CceEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVR-MANSSAEQITCTAALVGSY--NWRKVI 80 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r-~~p~~~~~~~ai~~ll~~~--~w~~va 80 (793)
.+|.||| .|..+.........+...++|+|..... .+ ....+++.. +.+++...+...++.+... |-++|+
T Consensus 55 ~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~--~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~ 129 (275)
T cd06317 55 QKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSN--IS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIV 129 (275)
T ss_pred cCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCC--CC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEE
Confidence 4677774 4544444444556667899999987654 21 122344322 3445556667777776554 778999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccChHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~~~~~~~l 157 (793)
++..+.+++....-.+.+++.++++|..+....... .. .+. .+....+.++.+. .+++|++ ++...+..++
T Consensus 130 ~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~-~~--~~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~a~g~~ 203 (275)
T cd06317 130 VIAGQPGNGTAIERQKGFEDELAEVCPGVEVLDTQP-AD--WDR-EKAQVAMEALITKFGDDIDGVYA--GDDNMARGAL 203 (275)
T ss_pred EEecCCCCchHHHHHHHHHHHHHhhCCCCEEEeccC-CC--CCH-HHHHHHHHHHHHhCCCCccEEEE--CCCcHHHHHH
Confidence 998654433113445778889988864333221111 11 111 2233344444332 3677665 6666788899
Q ss_pred HHHHHcCCC
Q 003821 158 REAKEMGLV 166 (793)
Q Consensus 158 ~~a~~~g~~ 166 (793)
+++++.|+.
T Consensus 204 ~~l~~~g~~ 212 (275)
T cd06317 204 NAAKEAGLA 212 (275)
T ss_pred HHHHhcCCc
Confidence 999999986
No 127
>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=96.30 E-value=0.1 Score=53.79 Aligned_cols=151 Identities=11% Similarity=0.038 Sum_probs=91.9
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.+|.++| .|..+.....+...+...+||+|..... .+.. .+.+..+..++...+..+++++... +-+++++
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~--~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~ 128 (272)
T cd06301 55 QGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRR--PENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAI 128 (272)
T ss_pred cCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCC--CCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEE
Confidence 4677664 6655554455556678999999987654 2211 1223457778778888888887654 4579999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
+....+......-.+.+.+.+++.| .++... ..... ........+.++.+. .+++|+. .+...+..+++
T Consensus 129 i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~ 200 (272)
T cd06301 129 LMGPLGQSAQIDRTKGVEEVLAKYPDIKVVEE--QTANW----SRAEAMDLMENWLSSGGKIDAVVA--NNDEMALGAIM 200 (272)
T ss_pred EECCCCCccHHHHHHHHHHHHHHCCCcEEEec--CCCCc----cHHHHHHHHHHHHHhCCCCCEEEE--CCCchHHHHHH
Confidence 9765432111444677888998888 433211 11111 112233455554433 4576544 66677778999
Q ss_pred HHHHcCCCCCC
Q 003821 159 EAKEMGLVGPD 169 (793)
Q Consensus 159 ~a~~~g~~~~~ 169 (793)
.+++.|+.+++
T Consensus 201 ~l~~~g~~~~d 211 (272)
T cd06301 201 ALKAAGKSDKD 211 (272)
T ss_pred HHHHcCCCCCC
Confidence 99999987424
No 128
>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=96.26 E-value=0.15 Score=52.64 Aligned_cols=159 Identities=11% Similarity=0.062 Sum_probs=96.3
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
++|.||| .|............+...+||+|..... .+. ....+++.++.+++...+..+++.+... |-+++++
T Consensus 54 ~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 129 (273)
T cd06309 54 QGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRG--VDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVE 129 (273)
T ss_pred cCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecC--cCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEE
Confidence 4566554 4544443334445677889999998764 221 1113456678888888888888888776 8899999
Q ss_pred EEEcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccChHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~~~~~~~l 157 (793)
+..+.+......-.+.+.+.++++ +.++... .. .. ....+..+.+.++.+. .+++|+. .+...+..++
T Consensus 130 i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~--~~-~~---~~~~~~~~~~~~~l~~~~~~~~aI~~--~~d~~a~g~~ 201 (273)
T cd06309 130 LQGTVGSSVAIDRKKGFAEVIKKYPNMKIVAS--QT-GD---FTRAKGKEVMEALLKAHGDDIDAVYA--HNDEMALGAI 201 (273)
T ss_pred EeCCCCCchHHHHHHHHHHHHHHCCCCEEeec--cC-Cc---ccHHHHHHHHHHHHHhCCCCccEEEE--CCcHHHHHHH
Confidence 986543211134467788888876 3443321 11 11 1112333445555433 3566544 5666777799
Q ss_pred HHHHHcCCCCCCeEEEEe
Q 003821 158 REAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~ 175 (793)
+.+.+.|+..++-+-+++
T Consensus 202 ~a~~~~g~~ip~di~iig 219 (273)
T cd06309 202 QAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred HHHHHcCCCCCCCeEEEe
Confidence 999999997554455555
No 129
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=96.09 E-value=0.12 Score=54.12 Aligned_cols=146 Identities=13% Similarity=0.143 Sum_probs=86.1
Q ss_pred cceE-EEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCce-EEEE
Q 003821 5 KEVK-VIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWR-KVII 81 (793)
Q Consensus 5 ~~V~-aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~-~vai 81 (793)
.++. .|++|..+.........+...++|+|..... .. ..+.+..+.+++..-+..+++++.. .+.+ ++++
T Consensus 81 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~--~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~ 153 (295)
T PRK10653 81 RGTKILLINPTDSDAVGNAVKMANQANIPVITLDRG--AT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQ 153 (295)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccC--CC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEE
Confidence 3554 4556665555445566777889999998754 11 1122345666666666888887755 3543 5666
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~~l~~ 159 (793)
+..+..........+.+.+.+++.|.++... .. .. ....+....+.++.+.. +++++ +.+...+..++++
T Consensus 154 ~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~--~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~A~g~l~a 225 (295)
T PRK10653 154 LEGIAGTSAARERGEGFKQAVAAHKFNVLAS--QP-AD---FDRTKGLNVMQNLLTAHPDVQAVF--AQNDEMALGALRA 225 (295)
T ss_pred EEccCCCccHHHHHHHHHHHHhhCCCEEEEe--cC-CC---CCHHHHHHHHHHHHHhCCCcCEEE--ECCChhHHHHHHH
Confidence 6543221111456788999999999876421 11 11 11123444555665443 45543 3556666678999
Q ss_pred HHHcCC
Q 003821 160 AKEMGL 165 (793)
Q Consensus 160 a~~~g~ 165 (793)
+++.|+
T Consensus 226 l~~~G~ 231 (295)
T PRK10653 226 LQTAGK 231 (295)
T ss_pred HHHcCC
Confidence 999998
No 130
>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=96.04 E-value=0.091 Score=53.94 Aligned_cols=153 Identities=18% Similarity=0.171 Sum_probs=95.5
Q ss_pred ccceEEEE--cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIV--GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aii--Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
+.+|.||| ++.. ...+...+...++|+|..... .+ ....+ .+.+++...+..+++++...|-+++++
T Consensus 53 ~~~vdgiii~~~~~---~~~~~~~l~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~ 121 (268)
T cd06298 53 AKQVDGIIFMGGKI---SEEHREEFKRSPTPVVLAGSV--DE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAF 121 (268)
T ss_pred HhcCCEEEEeCCCC---cHHHHHHHhcCCCCEEEEccc--cC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEE
Confidence 34676666 4322 223445566789999998754 22 12223 356777778888888888789999999
Q ss_pred EEEcCC---CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC-ceEEEEeccChHHHHHHH
Q 003821 82 IYEDDA---TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE-SRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 82 i~~dd~---~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivvl~~~~~~~~~~l 157 (793)
+..+.. .+ ....+.+++.+++.|.++.....+.... +. ......+.++.+.. +++|+. ++...+..++
T Consensus 122 l~~~~~~~~~~--~~r~~gf~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~ai~~--~~d~~a~~~~ 193 (268)
T cd06298 122 ISGPLEDSING--DERLAGYKEALSEANIEFDESLIFEGDY---TY-ESGYELAEELLEDGKPTAAFV--TDDELAIGIL 193 (268)
T ss_pred EeCCcccccch--hHHHHHHHHHHHHcCCCCCHHHeEeCCC---Ch-hHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHH
Confidence 985543 34 6667888899999887643221111111 11 22334555665544 677665 5666678899
Q ss_pred HHHHHcCCCCCCeEEEEe
Q 003821 158 REAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~~ 175 (793)
+.+++.|+.-+.-+-+++
T Consensus 194 ~~l~~~g~~vp~di~vvg 211 (268)
T cd06298 194 NAAQDAGLKVPEDFEIIG 211 (268)
T ss_pred HHHHHcCCCCccceEEEe
Confidence 999999986554333333
No 131
>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=95.94 E-value=0.1 Score=53.60 Aligned_cols=158 Identities=15% Similarity=0.130 Sum_probs=94.2
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||...+......+...+...++|+|..... .+. ...+ .+.+++...+..+++.+...|-++|+++.
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~ 124 (268)
T cd06289 53 EHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVARE--VAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIG 124 (268)
T ss_pred HcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEecc--CCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEec
Confidence 356777776444333333556677889999988654 221 2223 35566777788888888777999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+..........+.+.+.+++.|.++.....+.... + .....+.+.++.+. .+++|+. .+...+..+++.++
T Consensus 125 ~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~ 198 (268)
T cd06289 125 GLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPP---S-RQGGAEAVAQLLDLPPRPTAIVC--FNDLVAFGAMSGLR 198 (268)
T ss_pred CCccccchHHHHHHHHHHHHHcCCCCCchhEEecCc---c-hhhHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHH
Confidence 644321115567888889988885433221221111 1 12233445554433 4576554 56666778899999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|+..+.-+-+++
T Consensus 199 ~~g~~~p~di~iig 212 (268)
T cd06289 199 RAGLTPGRDIAVVG 212 (268)
T ss_pred HcCCCCCcceEEEe
Confidence 99986543333443
No 132
>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=95.94 E-value=0.19 Score=51.73 Aligned_cols=149 Identities=13% Similarity=0.101 Sum_probs=92.8
Q ss_pred cceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCceEEEEE
Q 003821 5 KEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWRKVIII 82 (793)
Q Consensus 5 ~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~~vaii 82 (793)
.+|.+||. |............+...++|+|..... .+... ..+.+..+..++...+..+++++.. .|-++++++
T Consensus 56 ~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~--~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i 131 (271)
T cd06312 56 AKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAG--DPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCV 131 (271)
T ss_pred hCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCC--CCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEE
Confidence 46777765 333332334445566789999998754 22211 1233456788888899999999988 899999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a 160 (793)
..+.+........+.+.+.++++++.+.. .....+ ..+....+.++.+. .+++|+. .+...+..+++.+
T Consensus 132 ~g~~~~~~~~~r~~g~~~~~~~~~~~~~~--~~~~~~-----~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al 202 (271)
T cd06312 132 IHEPGNVTLEDRCAGFADGLGGAGITEEV--IETGAD-----PTEVASRIAAYLRANPDVDAVLT--LGAPSAAPAAKAL 202 (271)
T ss_pred ecCCCCccHHHHHHHHHHHHHhcCceeeE--eecCCC-----HHHHHHHHHHHHHhCCCccEEEE--eCCccchHHHHHH
Confidence 75433211155677888888888765321 111111 12344455555433 3566554 5666778889999
Q ss_pred HHcCCC
Q 003821 161 KEMGLV 166 (793)
Q Consensus 161 ~~~g~~ 166 (793)
++.|+.
T Consensus 203 ~~~g~~ 208 (271)
T cd06312 203 KQAGLK 208 (271)
T ss_pred HhcCCC
Confidence 999986
No 133
>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=95.81 E-value=0.39 Score=49.43 Aligned_cols=147 Identities=14% Similarity=0.033 Sum_probs=86.7
Q ss_pred cceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.++.+||- +............+...++|+|..... .+ . ..+ +--+.+++...+..+++++... |.+++++
T Consensus 56 ~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~--~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~ 128 (273)
T cd06310 56 RGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSG--LN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAV 128 (273)
T ss_pred hCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCC--CC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEE
Confidence 45776664 332222233445556789999998654 11 1 111 2235566666677888888666 8999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
+....++.......+.+++.+++. |+++... .... . ...+-...+.++.+. .+++|+ +.+...+..+++
T Consensus 129 i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~-~~~~-~----~~~~~~~~~~~~l~~~~~~~~i~--~~~d~~a~g~~~ 200 (273)
T cd06310 129 ISFVPGSSTTDQREEGFLEGLKEYPGIEIVAT-QYSD-S----DYAKALDITEDLLTANPDLKGIF--GANEGSAVGAAR 200 (273)
T ss_pred EeCCCCCccHHHHHHHHHHHHHhCCCcEEEec-ccCC-c----CHHHHHHHHHHHHHhCCCceEEE--ecCchhHHHHHH
Confidence 975544321134567788889888 7765431 1111 1 112333455555443 355543 356777888999
Q ss_pred HHHHcCCC
Q 003821 159 EAKEMGLV 166 (793)
Q Consensus 159 ~a~~~g~~ 166 (793)
.+++.|+.
T Consensus 201 ~l~~~g~~ 208 (273)
T cd06310 201 AVRQAGKA 208 (273)
T ss_pred HHHhcCCC
Confidence 99999985
No 134
>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=95.80 E-value=0.15 Score=54.33 Aligned_cols=151 Identities=16% Similarity=0.136 Sum_probs=93.5
Q ss_pred cceEEEE--cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 5 KEVKVIV--GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 5 ~~V~aii--Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
.+|.+|| |+.. ...+...+...++|+|..... .+ ....+ .+..++..-+..+++++...|.++++++
T Consensus 114 ~~vdGiIi~~~~~---~~~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i 182 (329)
T TIGR01481 114 KQVDGIIFMGGTI---TEKLREEFSRSPVPVVLAGTV--DK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFV 182 (329)
T ss_pred CCCCEEEEeCCCC---ChHHHHHHHhcCCCEEEEecC--CC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 4566655 4322 223445566779999987654 21 12233 3566776677778888888899999999
Q ss_pred EEcCC---CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHH
Q 003821 83 YEDDA---TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 83 ~~dd~---~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~ 159 (793)
..+.. .+ ..-.+.+.+.+++.|+++.....+.... ...+-...+.++.+..+++|+. .+...+..++++
T Consensus 183 ~g~~~~~~~~--~~R~~Gf~~~l~~~g~~~~~~~~~~~~~----~~~~~~~~~~~ll~~~p~ai~~--~~d~~A~g~~~a 254 (329)
T TIGR01481 183 GGPLSDSING--EDRLEGYKEALNKAGIQFGEDLVCEGKY----SYDAGYKAFAELKGSLPTAVFV--ASDEMAAGILNA 254 (329)
T ss_pred ecCcccccch--HHHHHHHHHHHHHcCCCCCcceEEecCC----ChHHHHHHHHHHhCCCCCEEEE--cCcHHHHHHHHH
Confidence 65332 23 4556778899999998654322221111 1122344556665556787665 566788899999
Q ss_pred HHHcCCCCCCeEEEE
Q 003821 160 AKEMGLVGPDSVWVI 174 (793)
Q Consensus 160 a~~~g~~~~~~~wi~ 174 (793)
+++.|+.-|+-+=++
T Consensus 255 l~~~g~~vP~dvsvv 269 (329)
T TIGR01481 255 AMDAGIKVPEDLEVI 269 (329)
T ss_pred HHHcCCCCCCceEEE
Confidence 999999655433333
No 135
>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=95.75 E-value=0.18 Score=51.36 Aligned_cols=151 Identities=15% Similarity=0.139 Sum_probs=96.5
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCc-eEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNW-RKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w-~~vai 81 (793)
+++.||| .|..+........-+...+||+|..... .....+....+.++....+..+++++.. .+= .+|++
T Consensus 54 ~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~------~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~ 127 (257)
T PF13407_consen 54 QGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD------EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLI 127 (257)
T ss_dssp TTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST------HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEE
T ss_pred hcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc------ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEe
Confidence 4576665 7777777777778899999999996543 1111233346677888888999998754 222 68888
Q ss_pred EEEcCCCccccccHHHHHHHHHh-cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC-ceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQI-SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE-SRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivvl~~~~~~~~~~l~~ 159 (793)
+....++.......+.+.+.+++ .++++......... ..+...+.+.++.+.+ .++|+ .++...+..+++.
T Consensus 128 ~~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~-----~~~~a~~~~~~~l~~~~~~~i~--~~~~~~~~g~~~a 200 (257)
T PF13407_consen 128 LSGSPGNPNTQERLEGFRDALKEYPGVEIVDEYEYTDW-----DPEDARQAIENLLQANPVDAII--ACNDGMALGAAQA 200 (257)
T ss_dssp EESSTTSHHHHHHHHHHHHHHHHCTTEEEEEEEEECTT-----SHHHHHHHHHHHHHHTTEEEEE--ESSHHHHHHHHHH
T ss_pred ccCCCCchHHHHHHHHHHHHHhhcceeeeeeeeeccCC-----CHHHHHHHHHHhhhcCCceEEE--eCCChHHHHHHHH
Confidence 86665543224467778888888 45555543222122 2344555566655554 44433 5778888889999
Q ss_pred HHHcCCCCC
Q 003821 160 AKEMGLVGP 168 (793)
Q Consensus 160 a~~~g~~~~ 168 (793)
.++.|+.++
T Consensus 201 l~~~g~~~~ 209 (257)
T PF13407_consen 201 LQQAGRAGK 209 (257)
T ss_dssp HHHTTCTTT
T ss_pred HHHcCCccc
Confidence 999999655
No 136
>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=95.63 E-value=0.26 Score=50.73 Aligned_cols=147 Identities=10% Similarity=-0.032 Sum_probs=88.8
Q ss_pred cceEEEEcC-CChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh--cCceEEEE
Q 003821 5 KEVKVIVGM-ETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS--YNWRKVII 81 (793)
Q Consensus 5 ~~V~aiiGp-~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~--~~w~~vai 81 (793)
.+|.|||.. ..+.....+...+...+||+|..... .+. +.+..+.+++...++.+++++.. .|.++|++
T Consensus 54 ~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~--~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 125 (273)
T cd06305 54 QKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVD--SDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGY 125 (273)
T ss_pred cCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCC--CCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEE
Confidence 468877763 33333344445567889999988764 221 22234667778888888888765 58999999
Q ss_pred EEEcCC-CccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCc----eEEEEeccChHHHHH
Q 003821 82 IYEDDA-TNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTES----RVFIILQSSLAMGIH 155 (793)
Q Consensus 82 i~~dd~-~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~----~vivvl~~~~~~~~~ 155 (793)
+...+. .. ..-...+.+.+++.+ .++......... ...++..+.+.++....+ ++|+. .+...+..
T Consensus 126 i~~~~~~~~--~~R~~g~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g 197 (273)
T cd06305 126 VNVAGFPPL--DRRYDVWQAVLKAYPGIKEVAELGDVSN----NTAQDAAAQVEAVLKKYPKGGIDAIWA--AWDEFAKG 197 (273)
T ss_pred EEccCCchH--HHHHHHHHHHHHHCCCcEEecccccccc----cchhHHHHHHHHHHHHCCCcccCeEEE--cChhhhHH
Confidence 976421 22 334557778888877 554332211111 111334455666544433 54443 55667788
Q ss_pred HHHHHHHcCCCC
Q 003821 156 LFREAKEMGLVG 167 (793)
Q Consensus 156 ~l~~a~~~g~~~ 167 (793)
+++.+++.|+..
T Consensus 198 ~~~~l~~~g~~~ 209 (273)
T cd06305 198 AKQALDEAGRTD 209 (273)
T ss_pred HHHHHHHcCCCC
Confidence 899999999863
No 137
>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=95.54 E-value=0.29 Score=50.05 Aligned_cols=153 Identities=16% Similarity=0.136 Sum_probs=91.8
Q ss_pred ccceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+.+|.||| .+...... .+.. +...+||+|..... .+ ...+ .+..++..-++.+++.+...|-++|+++
T Consensus 54 ~~~vdgiii~~~~~~~~-~~~~-~~~~~ipvv~~~~~--~~----~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i 122 (264)
T cd01574 54 AQRVDGVIVNAPLDDAD-AALA-AAPADVPVVFVDGS--PS----PRVS---TVSVDQEGGARLATEHLLELGHRTIAHV 122 (264)
T ss_pred hcCCCEEEEeCCCCChH-HHHH-HHhcCCCEEEEecc--CC----CCCC---EEEeCcHHHHHHHHHHHHHCCCCEEEEE
Confidence 34577765 22222222 3333 34688999998754 21 2233 3667777788888898888899999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC-CceEEEEeccChHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT-ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
..+..........+.+.+.+++.|+.+..... ... ..+.-.+.+.++.+. .+++|+. ++...+..+++.++
T Consensus 123 ~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~-~~~-----~~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~g~~~~~~ 194 (264)
T cd01574 123 AGPEEWLSARARLAGWRAALEAAGIAPPPVLE-GDW-----SAESGYRAGRELLREGDPTAVFA--ANDQMALGVLRALH 194 (264)
T ss_pred ecCCccchHHHHHHHHHHHHHHCCCCcceeee-cCC-----CHHHHHHHHHHHHhCCCCcEEEE--cCcHHHHHHHHHHH
Confidence 76544221134556788888888876543211 111 112233445555443 3676554 66777888999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|..-++-+-+++
T Consensus 195 ~~g~~ip~~i~ii~ 208 (264)
T cd01574 195 ELGLRVPDDVSVVG 208 (264)
T ss_pred HcCCCCccceEEec
Confidence 99975443344444
No 138
>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=95.47 E-value=0.16 Score=52.67 Aligned_cols=154 Identities=14% Similarity=0.113 Sum_probs=100.2
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceE-EEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRK-VIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~-vaii 82 (793)
+.+|.|||=.........+..+.+. ++|+|..... ... ....+++ ..++..-+..+++.|...|-++ |+++
T Consensus 54 ~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~--~~~--~~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i 125 (279)
T PF00532_consen 54 QRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRY--IDN--PEGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFI 125 (279)
T ss_dssp HTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS---SCT--TCTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEE
T ss_pred hcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEec--cCC--cccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEE
Confidence 3456665522222223556666666 9999987665 111 1234543 4556666778888999999999 9999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCce--EEEEeccChHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESR--VFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~--vivvl~~~~~~~~~~l~~a 160 (793)
..+.+......-.+.+.+++++.|+++.......... +.++-.+.++++.+..|+ +|+. ++...|.-+++.+
T Consensus 126 ~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~----~~~~g~~~~~~ll~~~p~idai~~--~nd~~A~ga~~~l 199 (279)
T PF00532_consen 126 GGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDF----DYESGYEAARELLESHPDIDAIFC--ANDMMAIGAIRAL 199 (279)
T ss_dssp EESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSS----SHHHHHHHHHHHHHTSTT-SEEEE--SSHHHHHHHHHHH
T ss_pred ecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCC----CHHHHHHHHHHHHhhCCCCEEEEE--eCHHHHHHHHHHH
Confidence 9887642114556678999999999665554433221 224445666777666666 7654 7888899999999
Q ss_pred HHcC-CCCCCeE
Q 003821 161 KEMG-LVGPDSV 171 (793)
Q Consensus 161 ~~~g-~~~~~~~ 171 (793)
++.| +..++-+
T Consensus 200 ~~~gr~~ip~di 211 (279)
T PF00532_consen 200 RERGRLKIPEDI 211 (279)
T ss_dssp HHTT-TCTTTEE
T ss_pred HHcCCcccChhh
Confidence 9999 7666543
No 139
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=95.47 E-value=0.056 Score=54.77 Aligned_cols=121 Identities=17% Similarity=0.247 Sum_probs=72.8
Q ss_pred CCCChHHhhhCCCcccccCch-----HHHHH-HHhhcCCCCc---cccccCCHHHHHHHhhcCceEEEEechhhHHHHHh
Q 003821 545 NVTDIGWLKASNLNVGFDGDS-----FVRNY-LENVLGFKPE---NILKVDHEYKYITDFESNRIAAAFLELSYERAFLS 615 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~~~~-----~~~~~-l~~~~~~~~~---~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 615 (793)
+|++++||+ |.++++...+ ....+ |.+..+.... ......+..+.+..|.+|++|+.+......+-+..
T Consensus 96 ~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~~Da~~~~~~~~~~~~~ 173 (243)
T PF12974_consen 96 PITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGKADAAAIPSDAFERLEA 173 (243)
T ss_dssp S--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTSSSEEEEEHHHHHHHHH
T ss_pred CCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCCccEEEEechhHHHHHH
Confidence 589999998 8888873222 22222 3122222211 22234577889999999999999988777666554
Q ss_pred cc---CCceEEeCccccccceEEEecCCCc--ChHHHHHHHHhhhccCchHHHHHHH
Q 003821 616 QH---CKEYTATIPTYRFGGFAFVFQKGSP--LAADFSEAILKLSENGELRSLEEKW 667 (793)
Q Consensus 616 ~~---c~~~~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~~w 667 (793)
.. .+.++++...-......++..++-| .++.+-.+++.+..+-.-..+.+.+
T Consensus 174 ~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 174 EGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp H-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred ccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 42 3456776644444456777887754 8999999999999864444554444
No 140
>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=95.44 E-value=0.5 Score=48.53 Aligned_cols=146 Identities=15% Similarity=0.136 Sum_probs=87.1
Q ss_pred ceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEEE
Q 003821 6 EVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVIII 82 (793)
Q Consensus 6 ~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vaii 82 (793)
+|.||| .|............+...++|+|..... .+ +. .+...+..++...+...++++... |-++++++
T Consensus 56 ~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l 128 (270)
T cd06308 56 GVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRK--IL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEI 128 (270)
T ss_pred CCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCC--CC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEE
Confidence 454443 3433322223334455789999988654 11 11 223346677777888888888765 88999999
Q ss_pred EEcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
...........-.+.+.+.++++ |+++.... ... .+. ......+.++.++ .+++|+. .+...+..+++.
T Consensus 129 ~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~-~~~----~~~-~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~a 200 (270)
T cd06308 129 WGLEGSSPAIERHDGFKEALSKYPKIKIVAQQ-DGD----WLK-EKAEEKMEELLQANPDIDLVYA--HNDPMALGAYLA 200 (270)
T ss_pred ECCCCCchHHHHHHHHHHHHHHCCCCEEEEec-CCC----ccH-HHHHHHHHHHHHhCCCCcEEEe--CCcHHHHHHHHH
Confidence 86544321134467788889888 87654321 111 111 2223444554332 4676554 677778889999
Q ss_pred HHHcCCC
Q 003821 160 AKEMGLV 166 (793)
Q Consensus 160 a~~~g~~ 166 (793)
+++.|+.
T Consensus 201 l~~~g~~ 207 (270)
T cd06308 201 AKRAGRE 207 (270)
T ss_pred HHHcCCC
Confidence 9999987
No 141
>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=95.39 E-value=0.24 Score=50.72 Aligned_cols=154 Identities=16% Similarity=0.119 Sum_probs=91.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.+|.+||--.+.... .....+...++|+|..... .+. .. +..+.+++...+..+++.+...|-++|+++..
T Consensus 53 ~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~--~~~---~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 123 (266)
T cd06278 53 YRVDGVIVTSGTLSS-ELAEECRRNGIPVVLINRY--VDG---PG---VDAVCSDNYEAGRLAAELLLAKGCRRIAFIGG 123 (266)
T ss_pred cCCCEEEEecCCCCH-HHHHHHhhcCCCEEEECCc--cCC---CC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEcC
Confidence 467666642222222 3355567789999998654 221 11 23477788888888999888889999999986
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHH
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+..........+.+.+.+++.|..+... .....+ .....+.+.++.+. .+++|+. .+...+..+++.+++
T Consensus 124 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~~-----~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~l~~ 195 (266)
T cd06278 124 PADTSTSRERERGFRDALAAAGVPVVVE-EAGDYS-----YEGGYEAARRLLASRPRPDAIFC--ANDLLAIGVMDAARQ 195 (266)
T ss_pred CCcccchHHHHHHHHHHHHHcCCChhhh-ccCCCC-----HHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHH
Confidence 6442211445677888898888764221 111111 12334455555443 4676555 556667777888877
Q ss_pred c-CCCCCCeEEEEe
Q 003821 163 M-GLVGPDSVWVIA 175 (793)
Q Consensus 163 ~-g~~~~~~~wi~~ 175 (793)
. ++.-++-+.+++
T Consensus 196 ~~~~~~p~di~i~~ 209 (266)
T cd06278 196 EGGLRVPEDVSVIG 209 (266)
T ss_pred hcCCCCccceEEEE
Confidence 5 443232233444
No 142
>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=95.38 E-value=0.19 Score=51.48 Aligned_cols=154 Identities=16% Similarity=0.114 Sum_probs=90.6
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||......... ..... ..++|+|..... .+ ... +..+..++...++.+++.+..-|.++++++.
T Consensus 53 ~~~vdgiii~~~~~~~~-~~~~~-~~~ipvv~~~~~--~~---~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~ 122 (267)
T cd06284 53 RKQADGIILLDGSLPPT-ALTAL-AKLPPIVQACEY--IP---GLA---VPSVSIDNVAAARLAVDHLISLGHRRIALIT 122 (267)
T ss_pred HcCCCEEEEecCCCCHH-HHHHH-hcCCCEEEEecc--cC---CCC---cceEEecccHHHHHHHHHHHHcCCceEEEEc
Confidence 45788777532221222 22223 359999987543 11 112 2235667777888888888888999999997
Q ss_pred EcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 84 EDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 84 ~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
.+.. .+ ....+.|.+.+++.|+++....... .. .+. ++..+.+.++.+. .+++|+. ++...+..++++
T Consensus 123 ~~~~~~~~--~~r~~gf~~~~~~~~~~~~~~~~~~-~~--~~~-~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~a 194 (267)
T cd06284 123 GPRDNPLA--RDRLEGYRQALAEAGLPADEELIQE-GD--FSL-ESGYAAARRLLALPDRPTAIFC--FSDEMAIGAISA 194 (267)
T ss_pred CCccchhH--HHHHHHHHHHHHHcCCCCCcceEEe-CC--CCh-HHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHH
Confidence 6533 34 5567788889998886543221111 11 011 2234455555433 4677665 566667789999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+..+.-+-+++
T Consensus 195 l~~~g~~~p~~v~v~g 210 (267)
T cd06284 195 LKELGLRVPEDISVVG 210 (267)
T ss_pred HHHcCCCCccceeEEE
Confidence 9999986443333333
No 143
>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=95.35 E-value=0.54 Score=48.12 Aligned_cols=151 Identities=17% Similarity=0.069 Sum_probs=90.6
Q ss_pred ccceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEE
Q 003821 4 EKEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVI 80 (793)
Q Consensus 4 ~~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~va 80 (793)
+.++.|||- |..+.........+...+||+|..... .+ ..+.+..+.+++..-+...++++... |-++++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~--~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~ 125 (267)
T cd06322 53 TKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIA--AE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVA 125 (267)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEccc--CC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEE
Confidence 346776654 444333233334466789999998644 21 11223346677777777888888665 788999
Q ss_pred EEEEcCC-CccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHH
Q 003821 81 IIYEDDA-TNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 81 ii~~dd~-~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~ 156 (793)
+++..+. .. ..-.+.+++++++. |+++... .... +. +...+.+.++.+. ++++|+. ++...+..+
T Consensus 126 ~i~~~~~~~~--~~R~~gf~~~~~~~~~~~~~~~---~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~ 194 (267)
T cd06322 126 IIDYPTVQSV--VDRVRGFKEALADYPNIKIVAV---QPGI---TR-AEALTAAQNILQANPDLDGIFA--FGDDAALGA 194 (267)
T ss_pred EEecCCCccH--HHHHHHHHHHHHhCCCcEEEEe---cCCC---Ch-HHHHHHHHHHHHhCCCCCEEEE--cCCcHHHHH
Confidence 9975432 22 44567788899888 8875321 1111 11 2233445554433 4676554 666677788
Q ss_pred HHHHHHcCCCCCCeEEEEe
Q 003821 157 FREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 157 l~~a~~~g~~~~~~~wi~~ 175 (793)
++.+++.|+ +. +.+++
T Consensus 195 ~~al~~~g~-~d--i~vvg 210 (267)
T cd06322 195 VSAIKAAGR-DN--VKVIG 210 (267)
T ss_pred HHHHHHCCC-CC--eEEEE
Confidence 999999998 22 44555
No 144
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=95.34 E-value=0.093 Score=55.51 Aligned_cols=111 Identities=18% Similarity=0.107 Sum_probs=61.4
Q ss_pred CCCChHHhhhCCCcccccCchHHHHHHHhh---cCCCCccc-cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCc
Q 003821 545 NVTDIGWLKASNLNVGFDGDSFVRNYLENV---LGFKPENI-LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKE 620 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~---~~~~~~~~-~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~ 620 (793)
+|.+++||. |.++++..++..+.++... .+.....+ ..+.+..+...++.+|++|+++...++......+....
T Consensus 120 ~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~vDa~~~~ep~~~~~~~~~~~~ 197 (314)
T PRK11553 120 PIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGNVDAWAIWDPYYSAALLQGGVR 197 (314)
T ss_pred CCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCCCCEEEEcCcHHHHHHhcCCcE
Confidence 478999998 7889886665555443332 22222222 23446678889999999999988777766555443221
Q ss_pred eEEeCccccccceEEEecCC--CcChHHHHHHHHhhhcc
Q 003821 621 YTATIPTYRFGGFAFVFQKG--SPLAADFSEAILKLSEN 657 (793)
Q Consensus 621 ~~~~~~~~~~~~~~~~~~k~--spl~~~in~~i~~l~e~ 657 (793)
+...+..+...+..+++... ....+.+++.+..+.+.
T Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A 236 (314)
T PRK11553 198 VLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEA 236 (314)
T ss_pred EeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHH
Confidence 22222222222222333222 12445555555555554
No 145
>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=95.31 E-value=0.2 Score=51.61 Aligned_cols=155 Identities=15% Similarity=0.175 Sum_probs=93.0
Q ss_pred ccceEEEE--cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIV--GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aii--Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
+.++.||| ++... . .....+...+||+|..... .+. ...+ .+.+++...+...++++...|.+++++
T Consensus 62 ~~~~dgiii~~~~~~--~-~~~~~~~~~~ipvV~~~~~--~~~---~~~~---~V~~d~~~~g~~~a~~l~~~g~~~i~~ 130 (275)
T cd06295 62 SGRADGVILIGQHDQ--D-PLPERLAETGLPFVVWGRP--LPG---QPYC---YVGSDNVGGGRLATEHLLARGRRRIAF 130 (275)
T ss_pred hCCCCEEEEeCCCCC--h-HHHHHHHhCCCCEEEECCc--cCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEE
Confidence 34566665 33222 2 2234567899999988754 222 2233 466777778888888888889999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+..+...-....-.+.+.+.+++.|.++.......... ........+.++.++ .+++|+. ++...+..+++.
T Consensus 131 i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~~ 204 (275)
T cd06295 131 LGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDF----TEESGRAAMRALLERGPDFDAVFA--ASDLMALGALRA 204 (275)
T ss_pred EcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHH
Confidence 98654321014456778889988885443221111111 112234445554433 4677665 556677788899
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+.-+.-+.+++
T Consensus 205 l~~~g~~ip~~i~ii~ 220 (275)
T cd06295 205 LREAGRRVPEDVAVVG 220 (275)
T ss_pred HHHhCCCCccceEEEe
Confidence 9999986444344554
No 146
>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=95.28 E-value=0.27 Score=50.05 Aligned_cols=153 Identities=12% Similarity=0.078 Sum_probs=94.2
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.++.++|...... ...+...+...++|+|..... .+ ..+ .+.++....+..+++++..-|-++++++.
T Consensus 53 ~~~~dgii~~~~~~-~~~~~~~~~~~~ipvv~~~~~--~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~ 121 (259)
T cd01542 53 RQKVDGIILLATTI-TDEHREAIKKLNVPVVVVGQD--YP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLG 121 (259)
T ss_pred hcCCCEEEEeCCCC-CHHHHHHHhcCCCCEEEEecc--CC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEc
Confidence 35677777533322 234455667779999998654 22 223 35667777888899988888899999996
Q ss_pred EcC-CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC-ceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDD-ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE-SRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd-~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivvl~~~~~~~~~~l~~a~ 161 (793)
... +........+.+++.+++.|.+.. .......+ . ..-.+.+.++.+.. +++|+. ++...+..+++.++
T Consensus 122 ~~~~~~~~~~~r~~gf~~~~~~~~~~~~-~~~~~~~~----~-~~~~~~~~~~l~~~~~~~i~~--~~d~~a~g~~~~l~ 193 (259)
T cd01542 122 VSESDIAVGILRKQGYLDALKEHGICPP-NIVETDFS----Y-ESAYEAAQELLEPQPPDAIVC--ATDTIALGAMKYLQ 193 (259)
T ss_pred CCcccchhHHHHHHHHHHHHHHcCCChH-HeeeccCc----h-hhHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHH
Confidence 432 211003456778888988887111 11111111 1 22334555554444 677665 66677888999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|+.-++-+.+++
T Consensus 194 ~~g~~vp~di~v~g 207 (259)
T cd01542 194 ELGRRIPEDISVAG 207 (259)
T ss_pred HcCCCCCCceEEEe
Confidence 99997655555555
No 147
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=95.25 E-value=0.46 Score=50.60 Aligned_cols=148 Identities=16% Similarity=0.166 Sum_probs=101.3
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.+||=-. ..........+...++|+|..... .+ ....+ .+..++..-++.+++++...|-+++++|.
T Consensus 112 ~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~--~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~ 182 (333)
T COG1609 112 QKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRS--PP---GLGVP---SVGIDNFAGAYLATEHLIELGHRRIAFIG 182 (333)
T ss_pred HcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCC--Cc---cCCCC---EEEEChHHHHHHHHHHHHHCCCceEEEEe
Confidence 45677666322 334445556666779999988765 33 23333 46788888889999999999999999999
Q ss_pred EcC--CCccccccHHHHHHHHHhcCcee-eEEeecCCCCCCCCChHHHHHHHHHhhcC--C-ceEEEEeccChHHHHHHH
Q 003821 84 EDD--ATNADTGNLALLSEALQISNSEI-EYRLVLPPISYLTDPKQFLQEKLLKLLRT--E-SRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 84 ~dd--~~G~~~~~~~~l~~~l~~~g~~v-~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~-~~vivvl~~~~~~~~~~l 157 (793)
... ..+ ..-.+.+.+++++.|+.. ...+.....+ ..+-...+.++... . +++|+. ++...|..++
T Consensus 183 ~~~~~~~~--~~R~~Gf~~al~~~~~~~~~~~i~~~~~~-----~~~g~~~~~~ll~~~~~~ptAif~--~nD~~Alg~l 253 (333)
T COG1609 183 GPLDSSAS--RERLEGYRAALREAGLPINPEWIVEGDFS-----EESGYEAAERLLARGEPRPTAIFC--ANDLMALGAL 253 (333)
T ss_pred CCCccccH--hHHHHHHHHHHHHCCCCCCcceEEecCCC-----hHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHH
Confidence 874 234 566788999999999875 2222211111 13344555555543 2 777665 7888999999
Q ss_pred HHHHHcCCCCCC
Q 003821 158 REAKEMGLVGPD 169 (793)
Q Consensus 158 ~~a~~~g~~~~~ 169 (793)
+.+.+.|+..|+
T Consensus 254 ~~~~~~g~~vP~ 265 (333)
T COG1609 254 RALRELGLRVPE 265 (333)
T ss_pred HHHHHcCCCCCC
Confidence 999999997664
No 148
>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=95.14 E-value=0.64 Score=47.85 Aligned_cols=148 Identities=9% Similarity=0.024 Sum_probs=85.8
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.+|.||| .|............+...+||+|..... .+. .. .....+.+++...+...++++... |-++|++
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~--~~~---~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~ 132 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRG--LSS---PG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVV 132 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCC--CCC---Cc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEE
Confidence 3565554 3444333223334456789999998654 211 11 111235677777778888887665 8899999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+..... .....-.+.+.+.+++.|+++... ..... +. ......+.++.+. .+++|+. .+...+..+++.
T Consensus 133 ~~g~~~-~~~~~R~~gf~~~l~~~~~~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~a 203 (274)
T cd06311 133 LRGIPT-PIDNERVDAFDAAIAKYPIKILDR--QYANW---NR-DDAFSVMQDLLTKFPKIDAVWA--HDDDMAVGVLAA 203 (274)
T ss_pred EECCCC-cchhHHHHHHHHHHhhCCcEEEec--cCCCC---cH-HHHHHHHHHHHHhCCCcCEEEE--CCCcHHHHHHHH
Confidence 976543 211344677888998888765432 11111 11 2233444444333 3566544 555667788999
Q ss_pred HHHcCCCC
Q 003821 160 AKEMGLVG 167 (793)
Q Consensus 160 a~~~g~~~ 167 (793)
+++.|+..
T Consensus 204 l~~~g~~~ 211 (274)
T cd06311 204 IKQAGRTD 211 (274)
T ss_pred HHHcCCCC
Confidence 99999863
No 149
>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=95.09 E-value=0.28 Score=50.35 Aligned_cols=157 Identities=13% Similarity=0.138 Sum_probs=90.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.++.|||-..... .......+...++|+|..... .+. ....+ .+..++...++.+++.+...|-++++++..
T Consensus 59 ~~~dgiii~~~~~-~~~~~~~~~~~~ipvV~~~~~--~~~--~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 130 (270)
T cd06294 59 KRVDGFILLYSRE-DDPIIDYLKEEKFPFVVIGKP--EDD--KENIT---YVDNDNIQAGYDATEYLIKLGHKKIAFVGG 130 (270)
T ss_pred cCcCEEEEecCcC-CcHHHHHHHhcCCCEEEECCC--CCC--CCCCC---eEEECcHHHHHHHHHHHHHcCCccEEEecC
Confidence 3466654321111 123344457789999988754 221 12223 345566677778888887779999999975
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHH
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
...+.......+.+.+.+++.|+.+.......... +. ....+.+.++.+. .+++|+. .+...+..+++.+++
T Consensus 131 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~ 204 (270)
T cd06294 131 DLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDF---SE-EGGYKALKKLLEQHPRPTAIVA--TDDLLALGVLKVLNE 204 (270)
T ss_pred CcccHHHHHHHHHHHHHHHHcCCCCCcceEEecCC---ch-HHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHH
Confidence 54421113456778889998886432111111111 11 2334455555443 3676555 566788889999999
Q ss_pred cCCCCCCeEEEEe
Q 003821 163 MGLVGPDSVWVIA 175 (793)
Q Consensus 163 ~g~~~~~~~wi~~ 175 (793)
.|+.-++-+-+++
T Consensus 205 ~g~~iP~dv~vig 217 (270)
T cd06294 205 LGLKVPEDLSIIG 217 (270)
T ss_pred cCCCCCcceEEEe
Confidence 9986443333333
No 150
>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=95.09 E-value=0.21 Score=51.25 Aligned_cols=155 Identities=15% Similarity=0.077 Sum_probs=93.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.++.|||-....... +.......++|+|..... .+. ...+ .+.+++...+..+++++...|-++++++..
T Consensus 55 ~~~dgiii~~~~~~~--~~~~~~~~~ipvv~~~~~--~~~---~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~ 124 (269)
T cd06288 55 HRVDGIIYATMYHRE--VTLPPELLSVPTVLLNCY--DAD---GALP---SVVPDEEQGGYDATRHLLAAGHRRIAFING 124 (269)
T ss_pred cCCCEEEEecCCCCh--hHHHHHhcCCCEEEEecc--cCC---CCCC---eEEEccHHHHHHHHHHHHHcCCceEEEEeC
Confidence 356666653322111 122234578999987654 221 2223 466788888888898887779999999986
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHH
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+..........+.+.+.++++|+++.....+.... + ..+....+.++.+. .+++|+. ++...+..+++.+++
T Consensus 125 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~ 198 (269)
T cd06288 125 EPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDW---S-ADDGYEAAAALLDLDDRPTAIFC--GNDRMAMGAYQALLE 198 (269)
T ss_pred CccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--eCcHHHHHHHHHHHH
Confidence 54321114457778888988886543211111111 1 12334455665544 4677655 677778889999999
Q ss_pred cCCCCCCeEEEEe
Q 003821 163 MGLVGPDSVWVIA 175 (793)
Q Consensus 163 ~g~~~~~~~wi~~ 175 (793)
.|+.-+.-+.+++
T Consensus 199 ~g~~vp~di~v~g 211 (269)
T cd06288 199 RGLRIPQDVSVVG 211 (269)
T ss_pred cCCCCcccceEEe
Confidence 9987554455655
No 151
>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=95.02 E-value=1 Score=46.31 Aligned_cols=148 Identities=11% Similarity=0.031 Sum_probs=89.1
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.+|.+|| -|..+......-.-+...+||+|..... .+. ...+.+..+.+++...+..+++++... |.+++++
T Consensus 54 ~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~~---~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 128 (272)
T cd06313 54 QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL--IAP---LQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAM 128 (272)
T ss_pred cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC--CCC---CCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEE
Confidence 4555443 4444443333334456679999998764 221 111223346788888888899988766 8899999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
+..+........-.+.+.+.+++.+ .++... ..... ......+.+.++.+. .+++|+. .+...+..+++
T Consensus 129 l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~ 200 (272)
T cd06313 129 LQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANW----DVSKAARIWETWLTKYPQLDGAFC--HNDSMALAAYQ 200 (272)
T ss_pred EECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCC----CHHHHHHHHHHHHHhCCCCCEEEE--CCCcHHHHHHH
Confidence 9865432211345778888888876 554321 11111 112344555555443 3566544 66777788899
Q ss_pred HHHHcCC
Q 003821 159 EAKEMGL 165 (793)
Q Consensus 159 ~a~~~g~ 165 (793)
.+++.|+
T Consensus 201 al~~~g~ 207 (272)
T cd06313 201 IMKAAGR 207 (272)
T ss_pred HHHHcCC
Confidence 9999998
No 152
>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=95.01 E-value=0.37 Score=49.28 Aligned_cols=154 Identities=14% Similarity=0.128 Sum_probs=92.2
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.+|.|||--..... ......+...++|+|..... .+ ... ...+..+....+..+++.+...|-+++++|..
T Consensus 54 ~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~--~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 124 (268)
T cd01575 54 RRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDL--PP---DPI---DMAVGFSHAEAGRAMARHLLARGYRRIGFLGA 124 (268)
T ss_pred cCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecC--CC---CCC---CCeEEeCcHHHHHHHHHHHHHCCCCcEEEecC
Confidence 45766653221111 23334456679999987543 11 111 12355677778888888888889999999987
Q ss_pred cCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHH
Q 003821 85 DDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 85 dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a 160 (793)
+.. .. ....+.+++.+++.|............. ......+.+.++.+. .+++|+. ++...+..+++.+
T Consensus 125 ~~~~~~~--~~r~~gf~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l 196 (268)
T cd01575 125 RMDDTRA--QQRLEGFRAALRAAGLDPPLVVTTPEPS----SFALGRELLAELLARWPDLDAVFC--SNDDLALGALFEC 196 (268)
T ss_pred CCCcccH--HHHHHHHHHHHHHcCCCCCceeEeccCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHH
Confidence 653 32 4456778889988886433222221111 112334555555433 4677555 6667777899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
.+.|..-++-+-+++
T Consensus 197 ~~~g~~~p~di~vig 211 (268)
T cd01575 197 QRRGISVPEDIAIAG 211 (268)
T ss_pred HHhCCCCCcceEEEe
Confidence 999986554444444
No 153
>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=94.94 E-value=0.35 Score=49.61 Aligned_cols=156 Identities=13% Similarity=0.086 Sum_probs=89.9
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||-..... ..+...+...++|+|..... .+ ....++ +..++...++..++.+...|.++++++.
T Consensus 56 ~~~vdgiii~~~~~--~~~~~~l~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~ 125 (268)
T cd06277 56 DGKVDGIILLGGIS--TEYIKEIKELGIPFVLVDHY--IP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVG 125 (268)
T ss_pred HCCCCEEEEeCCCC--hHHHHHHhhcCCCEEEEccC--CC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEEC
Confidence 35677776422221 12355567789999987654 22 122333 4455666666677777777999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
.+........-.+.+.+.+++.|+++.....+.... .......+.+..+. ..+++|+. ++...+..+++.+++.
T Consensus 126 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~-~~~~ai~~--~~d~~a~g~~~a~~~~ 199 (268)
T cd06277 126 DPLYSPSFEERYEGYKKALLDHGIPFNEDYDITEKE---EDEEDIGKFIDELK-PLPTAFFC--SNDGVAFLLIKVLKEM 199 (268)
T ss_pred CCCCCcchHHHHHHHHHHHHHcCCCCCcceEEEcch---hHHHHHHHHHhcCC-CCCCEEEE--CCcHHHHHHHHHHHHc
Confidence 665422113456678889988887654322221111 11223333333322 24777665 6667777888899999
Q ss_pred CCCCCCeEEEEe
Q 003821 164 GLVGPDSVWVIA 175 (793)
Q Consensus 164 g~~~~~~~wi~~ 175 (793)
|+..++-+-+++
T Consensus 200 g~~~p~di~vig 211 (268)
T cd06277 200 GIRVPEDVSVIG 211 (268)
T ss_pred CCCCCCcceEEe
Confidence 986443333333
No 154
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=94.85 E-value=0.51 Score=50.50 Aligned_cols=149 Identities=9% Similarity=0.067 Sum_probs=89.8
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.++.||| -|.. .........+...++|+|..... .+ ....++ +..++...+..++++|...|.+++++|.
T Consensus 119 ~~vdgiIi~~~~-~~~~~~~~~l~~~~iPvV~~~~~--~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~ 189 (342)
T PRK10014 119 QGVDGVVIAGAA-GSSDDLREMAEEKGIPVVFASRA--SY---LDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLG 189 (342)
T ss_pred CCCCEEEEeCCC-CCcHHHHHHHhhcCCCEEEEecC--CC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEc
Confidence 4566665 2222 22234445667789999987643 11 122333 5667777788888988888999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+........-...+.+++++.|+++.....+.... ........+.++.+. .+++|+. .+...+..+++.+.
T Consensus 190 g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~~l~ 263 (342)
T PRK10014 190 GQSSSLTRAERVGGYCATLLKFGLPFHSEWVLECTS----SQKQAAEAITALLRHNPTISAVVC--YNETIAMGAWFGLL 263 (342)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCCCcceEecCCC----ChHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHH
Confidence 544321003345678889999997654322221111 112233455555443 4566554 67777888899999
Q ss_pred HcCCCCC
Q 003821 162 EMGLVGP 168 (793)
Q Consensus 162 ~~g~~~~ 168 (793)
+.|+.-+
T Consensus 264 ~~g~~vp 270 (342)
T PRK10014 264 RAGRQSG 270 (342)
T ss_pred HcCCCCC
Confidence 9998654
No 155
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=94.84 E-value=0.71 Score=49.05 Aligned_cols=155 Identities=8% Similarity=0.069 Sum_probs=90.9
Q ss_pred ccceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
+.+|.|||= +........+ ..+...++|+|..... .+ ....+ .+..++...+..+++.|...|-++|+++
T Consensus 115 ~~~vdgiIi~~~~~~~~~~~-~~l~~~~iPvV~v~~~--~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i 185 (328)
T PRK11303 115 QRQVDALIVSTSLPPEHPFY-QRLQNDGLPIIALDRA--LD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLL 185 (328)
T ss_pred HcCCCEEEEcCCCCCChHHH-HHHHhcCCCEEEECCC--CC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEE
Confidence 345666652 2222222223 3345679999987654 21 12233 3456777777888888888899999999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a 160 (793)
....+......-.+.+.+.+++.|+.+... ..... +. .+-...+.++.+. .+++|+. ++...+..+++++
T Consensus 186 ~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al 257 (328)
T PRK11303 186 GALPELSVSFEREQGFRQALKDDPREVHYL--YANSF---ER-EAGAQLFEKWLETHPMPDALFT--TSYTLLQGVLDVL 257 (328)
T ss_pred eCccccccHHHHHHHHHHHHHHcCCCceEE--EeCCC---Ch-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHH
Confidence 765432101445677889999998754321 11111 11 2233445555443 4677665 5666788899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
.+.|+.-|+-+=+++
T Consensus 258 ~~~g~~vP~disv~g 272 (328)
T PRK11303 258 LERPGELPSDLAIAT 272 (328)
T ss_pred HHcCCCCCCceEEEE
Confidence 999986554333333
No 156
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=94.84 E-value=0.15 Score=41.24 Aligned_cols=55 Identities=18% Similarity=0.356 Sum_probs=46.9
Q ss_pred cccchhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHHHHHhhhheeee
Q 003821 484 NIQIGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLT 538 (793)
Q Consensus 484 ~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt 538 (793)
..++.+++|+++.++...| ++ .|.+..+|++...+.+.++.+.....+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3458999999999999999 76 5788889999999999999999999999988764
No 157
>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=94.81 E-value=0.65 Score=47.61 Aligned_cols=157 Identities=15% Similarity=0.122 Sum_probs=93.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.++.|||--.+......+..+. ..++|+|..... .+. ...+ .+.+++...+..+++.+...|-++++++.
T Consensus 53 ~~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~--~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~ 123 (269)
T cd06293 53 TNHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDED--VPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVG 123 (269)
T ss_pred HCCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCC--CCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEe
Confidence 34677776422221222333333 357999988754 221 1122 46678888888899988888999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+........-.+.+.+.+++.|..+.....+.... ..+...+.+.++.+. .+++|+. ++...+..+++.++
T Consensus 124 ~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~ 197 (269)
T cd06293 124 GPDALISARERYAGYREALAEAHIPEVPEYVCFGDY----TREFGRAAAAQLLARGDPPTAIFA--ASDEIAIGLLEVLR 197 (269)
T ss_pred cCcccccHHHHHHHHHHHHHHcCCCCChheEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHH
Confidence 554321013446788899998887543211111111 112333455555433 4677665 67777888999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|..-|+-+-|++
T Consensus 198 ~~g~~vp~di~i~g 211 (269)
T cd06293 198 ERGLSIPGDMSLVG 211 (269)
T ss_pred HcCCCCccceEEEe
Confidence 99986555455555
No 158
>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=94.70 E-value=0.68 Score=47.29 Aligned_cols=138 Identities=14% Similarity=0.161 Sum_probs=85.4
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC-CccccccHHHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA-TNADTGNLALLSEAL 102 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~-~G~~~~~~~~l~~~l 102 (793)
..+...++|+|..... .+. ...+ .+..++...+..+++.+...|-++++++..... ..........+.+.+
T Consensus 72 ~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 72 QRLAKNGKPVVLVDRK--IPE---LGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred HHHhcCCCCEEEEcCC--CCC---CCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 4456789999998764 221 2223 345566677888888888889999999976543 211124567788888
Q ss_pred HhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 103 QISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 103 ~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
++.|............. +.....+.+.++.+. .+++|+. ++...+..+++.+++.|+..+.-+-+++
T Consensus 144 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~v~g 212 (267)
T cd06283 144 AEHGIGVNEELIEIDDE----DADELDERLRQLLNKPKKKTAIFA--ANGLILLEVLKALKELGIRIPEDVGLIG 212 (267)
T ss_pred HHcCCCCCcceeEeccc----chHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEEEE
Confidence 88875432221111111 113345566666544 3677665 5667777889999999986554444444
No 159
>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=94.70 E-value=0.88 Score=46.48 Aligned_cols=155 Identities=13% Similarity=0.146 Sum_probs=91.5
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.+|.||| -|.... ...+. .+...++|+|..... .+ ....++ +..++..-+..+++.+...|-++++++.
T Consensus 54 ~~vdgiii~~~~~~-~~~~~-~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~ 123 (264)
T cd06274 54 RQVDALIVAGSLPP-DDPYY-LCQKAGLPVVALDRP--GD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLG 123 (264)
T ss_pred cCCCEEEEcCCCCc-hHHHH-HHHhcCCCEEEecCc--cC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEe
Confidence 4566555 332222 22233 456688999998665 22 222333 4556666667788888778999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccChHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~~~~~~~l~~a 160 (793)
.+........-.+.+++.+++.|..+.......... +. ..-...+.++.+. .+++|+. ++...+..+++++
T Consensus 124 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~A~g~~~al 197 (264)
T cd06274 124 GLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGY---SP-ESGYQLMAELLARLGRLPRALFT--TSYTLLEGVLRFL 197 (264)
T ss_pred CCCcccchHHHHHHHHHHHHHcCCCCCcceeecCCC---Ch-HHHHHHHHHHHccCCCCCcEEEE--cChHHHHHHHHHH
Confidence 654321114456788889998886533222221111 11 2233445554433 3677665 5667788899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
++.|+.-++-+-+++
T Consensus 198 ~~~g~~ip~dv~v~g 212 (264)
T cd06274 198 RERPGLAPSDLRIAT 212 (264)
T ss_pred HHcCCCCCcceEEEE
Confidence 999987555455555
No 160
>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=94.69 E-value=0.79 Score=46.97 Aligned_cols=156 Identities=11% Similarity=0.011 Sum_probs=92.5
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYE 84 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~ 84 (793)
.+|.+||--.+... ...-..+...++|+|..... .+. ...++ +..++...++.+++++...|-+++++|..
T Consensus 54 ~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 124 (268)
T cd06270 54 RRCDALILHSKALS-DDELIELAAQVPPLVLINRH--IPG---LADRC---IWLDNEQGGYLATEHLIELGHRKIACITG 124 (268)
T ss_pred cCCCEEEEecCCCC-HHHHHHHhhCCCCEEEEecc--CCC---CCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeC
Confidence 45666653222111 12134456789999998764 221 12232 56777788888999888889999999976
Q ss_pred cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHH
Q 003821 85 DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 85 dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+........-.+.+++.+++.|+++.....+.... ...+..+.+.++.+. .+++|+. ++...+..+++.+++
T Consensus 125 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~ 198 (268)
T cd06270 125 PLTKEDARLRLQGYRDALAEAGIALDESLIIEGDF----TEEGGYAAMQELLARGAPFTAVFC--ANDEMAAGAISALRE 198 (268)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCCCcceEEECCC----CHHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHH
Confidence 53321113446678888988887643221111111 113345556665544 3676555 666777889999999
Q ss_pred cCCCCCCeEEEEe
Q 003821 163 MGLVGPDSVWVIA 175 (793)
Q Consensus 163 ~g~~~~~~~wi~~ 175 (793)
.|+.-|+-+-+++
T Consensus 199 ~g~~ip~di~v~g 211 (268)
T cd06270 199 HGISVPQDVSIIG 211 (268)
T ss_pred cCCCCCCceeEEE
Confidence 9986443333443
No 161
>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=94.64 E-value=0.52 Score=48.30 Aligned_cols=138 Identities=13% Similarity=0.071 Sum_probs=83.8
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQ 103 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~ 103 (793)
.+....++|+|..... .+ ....++ +..++...++.+++++...|-++++++.............+.+.+.++
T Consensus 73 ~l~~~~~ipvV~i~~~--~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 73 MLERYRHIPMVVMDWG--PE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHhcCCCCEEEEecc--cC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 3444579999988754 22 122333 456666677788888888899999999754332111345677888898
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.|+++.....+.... + .....+.+.++.+. .+++|+. ++...+..+++.+++.|..-|.-+-+++
T Consensus 145 ~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~vvg 212 (269)
T cd06275 145 EAGLPVNPGWIVEGDF---E-CEGGYEAMQRLLAQPKRPTAVFC--GNDLMAMGALCAAQEAGLRVPQDLSIIG 212 (269)
T ss_pred HcCCCCCHHHhccCCC---C-hHHHHHHHHHHHcCCCCCcEEEE--CChHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 8887653211111111 1 12234455665444 4576554 6677777899999999986554444444
No 162
>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=94.37 E-value=0.92 Score=46.32 Aligned_cols=157 Identities=18% Similarity=0.170 Sum_probs=89.9
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||=......... ..-+...++|+|..... .+ ....+++ ..++..-+..+++++...|-++|+++.
T Consensus 53 ~~~vdgiIi~~~~~~~~~-~~~l~~~~ipvV~~~~~--~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~ 123 (265)
T cd06299 53 SQRVDGIIVVPHEQSAEQ-LEDLLKRGIPVVFVDRE--IT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYIS 123 (265)
T ss_pred hcCCCEEEEcCCCCChHH-HHHHHhCCCCEEEEecc--cC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 346666653222222333 45556689999988765 22 2233443 344444555666777777999999996
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
.....-....-...+.+.+++.|.++.......... ........+.++.+..+++|+. ++...+..+++.+++.
T Consensus 124 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~av~~--~~d~~a~gv~~al~~~ 197 (265)
T cd06299 124 GPQDTSTGRERLEAFRQACASLGLEVNEDLVVLGGY----SQESGYAGATKLLDQGATAIIA--GDSMMTIGAIRAIHDA 197 (265)
T ss_pred CCCCcccHHHHHHHHHHHHHHCCCCCChHhEEecCc----chHHHHHHHHHHHcCCCCEEEE--cCcHHHHHHHHHHHHh
Confidence 554311013445778889988886543221111111 1122344555555445787665 6667788899999999
Q ss_pred CCCCCCeEEEEe
Q 003821 164 GLVGPDSVWVIA 175 (793)
Q Consensus 164 g~~~~~~~wi~~ 175 (793)
|+.-++-+.+++
T Consensus 198 g~~vp~dv~v~g 209 (265)
T cd06299 198 GLVIGEDISLIG 209 (265)
T ss_pred CCCCCcceeEEE
Confidence 986443344444
No 163
>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=94.29 E-value=1.3 Score=46.50 Aligned_cols=159 Identities=18% Similarity=0.071 Sum_probs=91.2
Q ss_pred ceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC--------CCCCCeEEEecCChHHHHHHHHHHHhhcCc
Q 003821 6 EVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT--------STRWPFLVRMANSSAEQITCTAALVGSYNW 76 (793)
Q Consensus 6 ~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~--------~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w 76 (793)
+|.||| .|... ....+...+...++|+|..... .+... .....++-.+.+++..-++.+++.+...|-
T Consensus 58 ~vdgiIi~~~~~-~~~~~~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~ 134 (305)
T cd06324 58 KPDALIFTNEKS-VAPELLRLAEGAGVKLFLVNSG--LTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQAR 134 (305)
T ss_pred CCCEEEEcCCcc-chHHHHHHHHhCCCeEEEEecC--CCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhh
Confidence 666654 33322 2333445677799999998765 22111 001123456778888888889998877776
Q ss_pred eE--------EEEEEEcCCCccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEE
Q 003821 77 RK--------VIIIYEDDATNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFII 145 (793)
Q Consensus 77 ~~--------vaii~~dd~~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivv 145 (793)
++ ++++...........-.+.+++.++++| ..+.. .+.... ....-...+.++.+. .+++|+.
T Consensus 135 ~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~ 208 (305)
T cd06324 135 SVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPDVRLRQ--VVYAGW----SEDEAYEQAENLLKRYPDVRLIWA 208 (305)
T ss_pred cccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCCceEee--eecCCC----CHHHHHHHHHHHHHHCCCccEEEE
Confidence 64 7767643321111445677888998887 33321 111111 112334455565443 4566544
Q ss_pred eccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 146 LQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 146 l~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
.+...+..+++++++.|+.-++-+-+++
T Consensus 209 --~~d~~A~g~~~al~~~g~~vp~di~vig 236 (305)
T cd06324 209 --ANDQMAFGALRAAKEAGRKPGRDVLFGG 236 (305)
T ss_pred --CCchHHHHHHHHHHHcCCCcCCCEEEEe
Confidence 5667778899999999986443333333
No 164
>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=94.15 E-value=0.71 Score=47.09 Aligned_cols=137 Identities=12% Similarity=0.141 Sum_probs=84.9
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQ 103 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~ 103 (793)
..+...++|+|..... .+ ...++ +..++...+..+++.+...|-++++++...........-...+++.++
T Consensus 68 ~~~~~~~ipvV~~~~~--~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 68 LYKIKLAIPVVSYGVD--YD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHcCCCEEEEccc--CC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 4455789999987654 22 22333 566777778888998888899999999765432111344677888998
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.|+.+.......... ........+.++.+. .+++|+. ++...+..+++.+++.|+.-++-+-+++
T Consensus 139 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~dv~vvg 206 (261)
T cd06272 139 ENGISISDSHIDVDGL----SAEGGDNAAKKLLKESDLPTAIIC--GSYDIALGVLSALNKQGISIPEDIEIIS 206 (261)
T ss_pred HcCCCCCHHHeeeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCCceEEEe
Confidence 8886433221111111 112234455555444 3677554 6677788899999999986554344444
No 165
>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=94.10 E-value=0.89 Score=48.26 Aligned_cols=153 Identities=10% Similarity=0.044 Sum_probs=89.1
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.+|.+|| -|........+ ..+...++|+|..... .+. ...++ +.+++..-+..+++.+...|.++++++.
T Consensus 115 ~~vdgiIi~~~~~~~~~~~-~~l~~~~iPvV~~~~~--~~~---~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~ 185 (327)
T TIGR02417 115 RQVDALIVASCMPPEDAYY-QKLQNEGLPVVALDRS--LDD---EHFCS---VISDDVDAAAELIERLLSQHADEFWYLG 185 (327)
T ss_pred cCCCEEEEeCCCCCChHHH-HHHHhcCCCEEEEccc--cCC---CCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEe
Confidence 4566654 33322122223 3445679999987654 221 22333 5566666677777888888999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccChHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~~~~~~~l~~a 160 (793)
...+......-.+.+.+.+++.|+...... ....+ .++-.+.+.++.+. .+++|+. ++...+..+++.+
T Consensus 186 ~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~-~~~~~-----~~~~~~~~~~ll~~~~~~~~Ai~~--~~D~~A~g~~~al 257 (327)
T TIGR02417 186 AQPELSVSRDRLAGFRQALKQATLEVEWVY-GGNYS-----RESGYQMFAKLCARLGRLPQALFT--TSYTLLEGVLDYM 257 (327)
T ss_pred CcccchhHHHHHHHHHHHHHHcCCChHhEE-eCCCC-----hHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHH
Confidence 654321014456778889988887532111 11111 12233455555443 3677655 5667788899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
++.| .-|+-+-+++
T Consensus 258 ~~~g-~vP~dvsvig 271 (327)
T TIGR02417 258 LERP-LLDSQLHLAT 271 (327)
T ss_pred HHcC-CCCCcceEEE
Confidence 9999 5554344444
No 166
>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=94.04 E-value=0.56 Score=48.11 Aligned_cols=156 Identities=14% Similarity=0.108 Sum_probs=90.4
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||--.+......+...+.+.++|+|..... .+ ...++ +..++..-+...++.+...|-++++++.
T Consensus 53 ~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~--~~----~~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~ 123 (269)
T cd06281 53 QRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRD--MG----GGADA---VLFDHAAGMRQAVEYLISLGHRRIALVG 123 (269)
T ss_pred HcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecc--cC----CCCCE---EEECcHHHHHHHHHHHHHCCCcEEEEec
Confidence 346776664222222334455667789999998765 32 12232 4555555556677777777999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
..........-...+.+.+++.|+.+.....+... ....-.+.+.++.+. .+++++. .+...+..+++.+.
T Consensus 124 ~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~ 196 (269)
T cd06281 124 GGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLST-----PAASGFDATRALLALPDRPTAIIA--GGTQVLVGVLRALR 196 (269)
T ss_pred CccccccHHHHHHHHHHHHHHcCCCCCHHHeecCc-----HHHHHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHH
Confidence 64332211344577888998888754211111111 012233445554433 4677654 56667778999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|+.-+.-+-+++
T Consensus 197 ~~g~~ip~dv~iig 210 (269)
T cd06281 197 EAGLRIPRDLSVIS 210 (269)
T ss_pred HcCCCCCcceeEEE
Confidence 99986544333444
No 167
>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=94.00 E-value=2.1 Score=44.29 Aligned_cols=151 Identities=9% Similarity=0.051 Sum_probs=84.9
Q ss_pred cceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh--cCceEEEE
Q 003821 5 KEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS--YNWRKVII 81 (793)
Q Consensus 5 ~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~--~~w~~vai 81 (793)
.+|.|||= |........+.. +...++|.|...... .+.......+..-.+.+++..-+..+++.+.. .|.+++++
T Consensus 59 ~~vDgiIv~~~~~~~~~~~~~-l~~~~~p~V~i~~~~-~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~ 136 (280)
T cd06303 59 SKPDYLIFTLDSLRHRKLIER-VLASGKTKIILQNIT-TPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAM 136 (280)
T ss_pred cCCCEEEEcCCchhhHHHHHH-HHhCCCCeEEEeCCC-CCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEE
Confidence 45666653 322222233334 334677776653320 12100000112234677777777888888876 79999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
|.....+. ...-.+.+++.+++. |+++... +.... ...+-...+.++.+. .+++|+. ++...+..+++
T Consensus 137 l~~~~~~~-~~~R~~gf~~al~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~l~ 207 (280)
T cd06303 137 LYFSPGYI-STARGDTFIDCVHARNNWTLTSE--FYTDA----TRQKAYQATSDILSNNPDVDFIYA--CSTDIALGASD 207 (280)
T ss_pred EECCCCcc-hhHHHHHHHHHHHhCCCceEEEe--ecCCC----CHHHHHHHHHHHHHhCCCCcEEEE--CCcHHHHHHHH
Confidence 97654321 144567788889887 6654321 11111 112334455555433 3566554 67777888999
Q ss_pred HHHHcCCC
Q 003821 159 EAKEMGLV 166 (793)
Q Consensus 159 ~a~~~g~~ 166 (793)
.+++.|+.
T Consensus 208 al~~~G~~ 215 (280)
T cd06303 208 ALKELGRE 215 (280)
T ss_pred HHHHcCCC
Confidence 99999985
No 168
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=93.91 E-value=0.81 Score=48.94 Aligned_cols=137 Identities=15% Similarity=0.144 Sum_probs=83.2
Q ss_pred HhccC-CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC--CccccccHHHHHH
Q 003821 24 DIGSR-AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA--TNADTGNLALLSE 100 (793)
Q Consensus 24 ~i~~~-~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~--~G~~~~~~~~l~~ 100 (793)
..+.. .++|+|..... .+. ..... .+.++....+...++.+...|-+++++|..... .+ ..-.+.+.+
T Consensus 132 ~~l~~~~~iPvV~~d~~--~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~Gf~~ 202 (341)
T PRK10703 132 AMLEEYRHIPMVVMDWG--EAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTG--AGRLAGFMK 202 (341)
T ss_pred HHHHhcCCCCEEEEecc--cCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccch--HHHHHHHHH
Confidence 33444 79999987654 221 11112 245555556777888887779999999965432 22 445677888
Q ss_pred HHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 101 ALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 101 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
.+++.|+++.......... ...+....+.++.+. .+++|+. ++...+..+++++.+.|..-++-+.+++
T Consensus 203 ~l~~~gi~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~~ip~dv~vvg 273 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGDF----EPESGYEAMQQILSQKHRPTAVFC--GGDIMAMGAICAADEMGLRVPQDISVIG 273 (341)
T ss_pred HHHHcCCCCChHHeEeCCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999998754321111111 112344555565443 4677655 6677778899999999986554455555
No 169
>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=93.81 E-value=2.9 Score=43.81 Aligned_cols=156 Identities=13% Similarity=0.116 Sum_probs=83.5
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--Cce----
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWR---- 77 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~---- 77 (793)
.+|.+|| .|..+.....+...+...+||+|..... .+.......+-+..+.+++..-++..++++... +-+
T Consensus 56 ~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~ 133 (303)
T cd01539 56 KGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNRE--PEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALD 133 (303)
T ss_pred cCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCC--CcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccc
Confidence 4566544 5555444344555567789999988754 221111111123346677766777777777543 221
Q ss_pred -----E--EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEec
Q 003821 78 -----K--VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQ 147 (793)
Q Consensus 78 -----~--vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~ 147 (793)
+ ++++..+........-.+.+++.+++.|.++.......... ..+...+.+.++... .+++|+.
T Consensus 134 ~~~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~L~~~~~~~~ai~~-- 207 (303)
T cd01539 134 KNGDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEELASDTANW----DRAQAKDKMDALLLKYGDKIEAVIA-- 207 (303)
T ss_pred cCCCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEEEeecCCC----CHHHHHHHHHHHHHhcCCCccEEEE--
Confidence 2 34454433221013345668889988887653221211111 112233445554433 2566554
Q ss_pred cChHHHHHHHHHHHHcCCCCC
Q 003821 148 SSLAMGIHLFREAKEMGLVGP 168 (793)
Q Consensus 148 ~~~~~~~~~l~~a~~~g~~~~ 168 (793)
.+...+..+++++++.|+..+
T Consensus 208 ~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 208 NNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred CCchHHHHHHHHHHHcCCCcC
Confidence 566667788899999998654
No 170
>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=93.70 E-value=0.8 Score=46.92 Aligned_cols=156 Identities=13% Similarity=0.119 Sum_probs=91.9
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.++.||| .|.... . .....+...++|+|..... ... ....+ .+.+++...++..++.+...|.++++++.
T Consensus 54 ~~~dgiii~~~~~~-~-~~~~~~~~~~ipvV~i~~~--~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~ 124 (270)
T cd06296 54 RRTDGVILVTPELT-S-AQRAALRRTGIPFVVVDPA--GDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFIT 124 (270)
T ss_pred cCCCEEEEecCCCC-h-HHHHHHhcCCCCEEEEecc--cCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEc
Confidence 4566664 333322 2 2345567789999998764 211 12233 36677777888888888778999999997
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+..........+.+.+.+++.|..+....... .. . ..+.....+.++.+. .+++|+. .+...+..+++.++
T Consensus 125 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~-~~--~-~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~ 198 (270)
T cd06296 125 GPPDLLCSRARLDGYRAALAEAGIPVDPALVRE-GD--F-STESGFRAAAELLALPERPTAIFA--GNDLMALGVYEAAR 198 (270)
T ss_pred CCCcchhHHHHHHHHHHHHHHcCCCCChHHhee-CC--C-CHHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHH
Confidence 643321114556778888888876543211111 11 0 112233445554433 4566555 66777788999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|+.-++-+-+++
T Consensus 199 ~~g~~~p~~i~v~~ 212 (270)
T cd06296 199 ERGLRIPEDLSVVG 212 (270)
T ss_pred HhCCCCCCceEEEE
Confidence 99986443333333
No 171
>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=93.69 E-value=2.1 Score=43.91 Aligned_cols=154 Identities=16% Similarity=0.124 Sum_probs=91.7
Q ss_pred cccceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 3 KEKEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 3 ~~~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
...+|.++|= +... ....+. .+...++|+|..... ... ....++ +..++..-+..+++.+...|-+++++
T Consensus 53 ~~~~vdgiIi~~~~~-~~~~~~-~l~~~~iPvV~i~~~--~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~ 123 (269)
T cd06287 53 DALDIDGAILVEPMA-DDPQVA-RLRQRGIPVVSIGRP--PGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIAL 123 (269)
T ss_pred hccCcCeEEEecCCC-CCHHHH-HHHHcCCCEEEeCCC--CCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEE
Confidence 3456776552 2211 122233 345679999988654 210 122333 44566667778888888889999999
Q ss_pred EEEcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHH
Q 003821 82 IYEDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 82 i~~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l 157 (793)
|..... .+ ..-...+.+++++.|+.... ..+.... ..++-.+.++++.+. .+++|+. ++...+..++
T Consensus 124 i~~~~~~~~~--~~R~~gf~~a~~~~g~~~~~-~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~gvl 194 (269)
T cd06287 124 IVGSARRNSY--LEAEAAYRAFAAEHGMPPVV-LRVDEAG----GEEAGYAACAQLLAQHPDLDALCV--PVDAFAVGAV 194 (269)
T ss_pred EeCCcccccH--HHHHHHHHHHHHHcCCCcce-eEecCCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHH
Confidence 975432 22 44567788899988876432 1111111 112233455555433 4677665 6778888999
Q ss_pred HHHHHcCCCCCCeEEEE
Q 003821 158 REAKEMGLVGPDSVWVI 174 (793)
Q Consensus 158 ~~a~~~g~~~~~~~wi~ 174 (793)
+.+++.|+.-|.-+=++
T Consensus 195 ~al~~~gl~vP~dvsvi 211 (269)
T cd06287 195 RAATELGRAVPDQLRVV 211 (269)
T ss_pred HHHHHcCCCCCCceEEE
Confidence 99999999766434333
No 172
>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=93.66 E-value=2.1 Score=43.93 Aligned_cols=143 Identities=11% Similarity=-0.024 Sum_probs=85.6
Q ss_pred cceEEE-EcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVI-VGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~ai-iGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.++.|| +.|............+...++|+|..... .+. .. ..+..++...++.+++++... |.+++++
T Consensus 56 ~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~--~~~----~~---~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 126 (271)
T cd06321 56 AKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVA--AEG----AD---ATVTTDNVQAGEISCQYLADRLGGKGNVAI 126 (271)
T ss_pred hCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCC--CCC----cc---ceeeechHHHHHHHHHHHHHHhCCCceEEE
Confidence 345444 44444332233334455679999998765 221 11 246677777888888888777 9999999
Q ss_pred EEEcCC-CccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHH
Q 003821 82 IYEDDA-TNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 82 i~~dd~-~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l 157 (793)
+..+.. .. ..-.+.+.+.+++. +++.... ...... +. ..-...+.++.+. .+++|+. .+...+..++
T Consensus 127 i~g~~~~~~--~~R~~g~~~~~~~~~~~~~~~~-~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~ 197 (271)
T cd06321 127 LNGPPVSAV--LDRVAGCKAALAKYPGIKLLSD-DQNGKG---SR-DGGLRVMQGLLTRFPKLDGVFA--INDPTAIGAD 197 (271)
T ss_pred EeCCCCchH--HHHHHHHHHHHHhCCCcEEEee-ecCCCC---Ch-hhHHHHHHHHHHhCCCCCEEEE--CCchhHHHHH
Confidence 976543 22 44467788888887 5643221 111111 11 1123345555433 4677555 6666777899
Q ss_pred HHHHHcCC
Q 003821 158 REAKEMGL 165 (793)
Q Consensus 158 ~~a~~~g~ 165 (793)
+.+++.|+
T Consensus 198 ~al~~~g~ 205 (271)
T cd06321 198 LAAKQAGR 205 (271)
T ss_pred HHHHHcCC
Confidence 99999998
No 173
>PRK09526 lacI lac repressor; Reviewed
Probab=93.58 E-value=1.7 Score=46.48 Aligned_cols=151 Identities=16% Similarity=0.118 Sum_probs=89.5
Q ss_pred cceEEEE--cCCChhhHHHHHHhc-cCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 5 KEVKVIV--GMETWGAATMVADIG-SRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 5 ~~V~aii--Gp~~s~~~~~va~i~-~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
.+|.+|| +|..+... ..+. ...++|+|..... + ....+ .+.+++..-+..++++|...|-+++++
T Consensus 119 ~~vdGiii~~~~~~~~~---~~~~~~~~~iPvV~~d~~---~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~ 186 (342)
T PRK09526 119 QRVSGVIINVPLEDADA---EKIVADCADVPCLFLDVS---P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIAL 186 (342)
T ss_pred cCCCEEEEecCCCcchH---HHHHhhcCCCCEEEEecc---C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEE
Confidence 4566655 44443222 2222 2358999987542 1 11222 356677777788888888889999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+...........-...+++.+++.|+++.... ....+ . ..-...+.++.+. .+++|+. ++...+..+++.
T Consensus 187 l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~~~-~~~~~----~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~a 258 (342)
T PRK09526 187 LAGPESSVSARLRLAGWLEYLTDYQLQPIAVR-EGDWS----A-MSGYQQTLQMLREGPVPSAILV--ANDQMALGVLRA 258 (342)
T ss_pred EeCCCccccHHHHHHHHHHHHHHcCCCcceEE-eCCCc----h-HHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHH
Confidence 97643321013446778889999998643221 11111 1 2223445555433 4676554 677778889999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+.-|+-+-+++
T Consensus 259 l~~~g~~vP~disvig 274 (342)
T PRK09526 259 LHESGLRVPGQISVIG 274 (342)
T ss_pred HHHcCCCCCCceEEEe
Confidence 9999997654444444
No 174
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=93.56 E-value=1.4 Score=47.04 Aligned_cols=132 Identities=14% Similarity=0.073 Sum_probs=79.2
Q ss_pred Ccc-EEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCce
Q 003821 30 QVP-VLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSE 108 (793)
Q Consensus 30 ~iP-~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~ 108 (793)
++| +|..... .+ ....++ +.+++..-+..+++.+...|.+++++|...........-.+.+.+.+++.|+.
T Consensus 137 ~~p~vV~i~~~--~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~ 208 (343)
T PRK10727 137 QIPGMVLINRI--LP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIP 208 (343)
T ss_pred cCCCEEEEecC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHHHHHHHCCCC
Confidence 677 7766543 11 112232 55666667777788888889999999975543211144567888999999986
Q ss_pred eeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 109 IEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 109 v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.......... +. ..-...+.++.+. .+++|+. .+...+..+++.+++.|+.-|+-+-+++
T Consensus 209 ~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~G~~vP~disVig 271 (343)
T PRK10727 209 ANDRLVTFGEP---DE-SGGEQAMTELLGRGRNFTAVAC--YNDSMAAGAMGVLNDNGIDVPGEISLIG 271 (343)
T ss_pred CChhhEEeCCC---Ch-hHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEEe
Confidence 53221111111 11 1223445555433 3676554 6677788999999999996554444444
No 175
>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=93.54 E-value=2.1 Score=43.93 Aligned_cols=136 Identities=12% Similarity=0.098 Sum_probs=83.4
Q ss_pred HHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC-------CccccccH
Q 003821 23 ADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA-------TNADTGNL 95 (793)
Q Consensus 23 a~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~-------~G~~~~~~ 95 (793)
...+...++|+|..... .. ....+ .+..++...+..+++.+...|-++++++..... .. ..-.
T Consensus 67 ~~~~~~~~~pvV~~~~~--~~---~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~--~~R~ 136 (270)
T cd01544 67 LAKLAKLNPNLVFVDSN--PA---PDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIE--DPRE 136 (270)
T ss_pred HHHHHhhCCCEEEECCC--CC---CCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhh--hHHH
Confidence 34455678999987654 11 22334 366777778888888888889999999986542 22 3446
Q ss_pred HHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC----CceEEEEeccChHHHHHHHHHHHHcCCCCCCeE
Q 003821 96 ALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT----ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSV 171 (793)
Q Consensus 96 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~ 171 (793)
..+.+.+++.|.. .....+.... ....-...+.++.+. .+++|+. ++...+..+++.+++.|+.-+.-+
T Consensus 137 ~gf~~~~~~~~~~-~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di 209 (270)
T cd01544 137 TAFREYMKEKGLY-DPELIYIGDF----TVESGYQLMKEALKSLGDNLPTAFFI--ASDPMAIGALRALQEAGIKVPEDV 209 (270)
T ss_pred HHHHHHHHHcCCC-ChheEeeCCC----CHHHHHHHHHHHHhccCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCce
Confidence 7788889888842 1111111111 112223444444332 3566554 677778889999999998655444
Q ss_pred EEEe
Q 003821 172 WVIA 175 (793)
Q Consensus 172 wi~~ 175 (793)
.|++
T Consensus 210 ~v~g 213 (270)
T cd01544 210 SVIS 213 (270)
T ss_pred EEEE
Confidence 4554
No 176
>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=93.53 E-value=1.1 Score=45.74 Aligned_cols=147 Identities=18% Similarity=0.149 Sum_probs=89.3
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.++.+|| .|... .... ...+...+||+|..... .+ ..++ +..++..-+..+++.+...|-++++++.
T Consensus 54 ~~~dgiii~~~~~-~~~~-~~~~~~~~iPvv~~~~~--~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~ 121 (265)
T cd06285 54 RRVDGLILGDARS-DDHF-LDELTRRGVPFVLVLRH--AG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLA 121 (265)
T ss_pred cCCCEEEEecCCC-ChHH-HHHHHHcCCCEEEEccC--CC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEe
Confidence 4565554 44332 2233 34456689999988654 21 2333 4566667777888888888999999998
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.+..........+.+.+.+++.|+++.....+.... + ...-...+.++.+. .+++|+. .+...+..+++.++
T Consensus 122 ~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~ 195 (265)
T cd06285 122 GPDYASTARDRLAGFRAALAEAGIEVPPERIVYSGF---D-IEGGEAAAEKLLRSDSPPTAIFA--VNDFAAIGVMGAAR 195 (265)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCCChhhEEeCCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHH
Confidence 654321114557778888988887653221111111 1 12233455555433 4676554 67777888999999
Q ss_pred HcCCCCCC
Q 003821 162 EMGLVGPD 169 (793)
Q Consensus 162 ~~g~~~~~ 169 (793)
+.|+.-++
T Consensus 196 ~~g~~~p~ 203 (265)
T cd06285 196 DRGLRVPD 203 (265)
T ss_pred HcCCCCCc
Confidence 99986443
No 177
>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=93.40 E-value=3.3 Score=43.06 Aligned_cols=151 Identities=9% Similarity=-0.006 Sum_probs=84.9
Q ss_pred cceEEE-EcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEE
Q 003821 5 KEVKVI-VGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVII 81 (793)
Q Consensus 5 ~~V~ai-iGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vai 81 (793)
.++.+| +.|........+...+...+||+|..... .+.... ..+++.-+..++..-+..+++++... |-+++++
T Consensus 55 ~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 131 (294)
T cd06316 55 QKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNV--PSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGL 131 (294)
T ss_pred hCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCC--Cccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEE
Confidence 345544 44444332233445566789999988764 222211 11233346666666678888888665 7899999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+..+.+......-.+.+.+.+++.+..+...... ... +. ....+.++++... .+++|+. .+...+..+++.
T Consensus 132 l~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~-~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~ 204 (294)
T cd06316 132 IYHGADYFVTNQRDQGFKETIKKNYPDITIVAEK-GID---GP-SKAEDIANAMLTQNPDLKGIYA--VWDVPAEGVIAA 204 (294)
T ss_pred EeCCCCcccHHHHHHHHHHHHHHhCCCcEEEeec-CCc---ch-hHHHHHHHHHHHhCCCeeEEEe--CCCchhHHHHHH
Confidence 9765443211334677778887665432111111 111 01 2233445554433 4565554 566778889999
Q ss_pred HHHcCC
Q 003821 160 AKEMGL 165 (793)
Q Consensus 160 a~~~g~ 165 (793)
+++.|+
T Consensus 205 l~~~g~ 210 (294)
T cd06316 205 LRAAGR 210 (294)
T ss_pred HHHcCC
Confidence 999998
No 178
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=93.25 E-value=2 Score=45.52 Aligned_cols=131 Identities=12% Similarity=0.064 Sum_probs=80.9
Q ss_pred CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC--CccccccHHHHHHHHHhcC
Q 003821 29 AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA--TNADTGNLALLSEALQISN 106 (793)
Q Consensus 29 ~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~--~G~~~~~~~~l~~~l~~~g 106 (793)
.++|+|..... .. ..... .+..++..-+..+++.+...|-+++++|..+.. .. ..-.+.+.+++++.|
T Consensus 135 ~~iPvV~i~~~--~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~Gf~~al~~~~ 204 (327)
T PRK10423 135 PSVPTVMMDWA--PF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPA--RLRLEGYRAAMKRAG 204 (327)
T ss_pred CCCCEEEECCc--cC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccch--HHHHHHHHHHHHHcC
Confidence 48999988643 11 11112 244555555778888888889999999965433 22 445678899999999
Q ss_pred ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 107 SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 107 ~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+++.....+.... + ...-.+.+.++.+. .+++|+. ++...+..+++.+++.|+.-|.-+-+++
T Consensus 205 ~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 205 LNIPDGYEVTGDF---E-FNGGFDAMQQLLALPLRPQAVFT--GNDAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred CCCCcceEEeCCC---C-hHHHHHHHHHHhcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 7653322222111 1 12233455555433 4676555 6777778899999999987665454554
No 179
>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=93.19 E-value=1.3 Score=45.37 Aligned_cols=136 Identities=15% Similarity=0.120 Sum_probs=85.8
Q ss_pred HHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC--------Ccccc
Q 003821 21 MVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA--------TNADT 92 (793)
Q Consensus 21 ~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~--------~G~~~ 92 (793)
.....+...++|+|..... .+ ..++ +.+++..-+...++.|... .++++++..... .+ .
T Consensus 69 ~~~~~l~~~~iPvv~~~~~--~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~--~ 135 (269)
T cd06297 69 RLAERRLPTERPVVLVDAE--NP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVF--A 135 (269)
T ss_pred HHHHHHhhcCCCEEEEccC--CC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccH--H
Confidence 3445566789999988654 21 2233 4467777777888877666 899999864321 22 4
Q ss_pred ccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCe
Q 003821 93 GNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDS 170 (793)
Q Consensus 93 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~ 170 (793)
.-.+.+++.+++.|+++.....+.... ...+..+.+.++.+. .+++|+. ++...+..+++.+++.|..-|+-
T Consensus 136 ~R~~gf~~~~~~~g~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vP~d 209 (269)
T cd06297 136 ERRAGFQQALKDAGRPFSPDLLAITDH----SEEGGRLAMRHLLEKASPPLAVFA--SADQQALGALQEAVELGLTVGED 209 (269)
T ss_pred HHHHHHHHHHHHcCCCCChhhEEeCCC----ChhhHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCc
Confidence 457888899999888654322222111 112344556665433 4677665 66778888999999999865654
Q ss_pred EEEEe
Q 003821 171 VWVIA 175 (793)
Q Consensus 171 ~wi~~ 175 (793)
+-+++
T Consensus 210 i~vvg 214 (269)
T cd06297 210 VRVVG 214 (269)
T ss_pred eEEEE
Confidence 55555
No 180
>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=93.15 E-value=2.8 Score=42.90 Aligned_cols=144 Identities=14% Similarity=0.026 Sum_probs=85.4
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCc-----eE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNW-----RK 78 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w-----~~ 78 (793)
.++.+|| -|........+ ..+...+||+|..... .+ .. ...-.+..++...++.+++++...+- ++
T Consensus 56 ~~vdgiI~~~~~~~~~~~~-~~~~~~giPvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~ 127 (268)
T cd06306 56 WGADAILLGAVSPDGLNEI-LQQVAASIPVIALVND--IN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAK 127 (268)
T ss_pred cCCCEEEEcCCChhhHHHH-HHHHHCCCCEEEeccC--CC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCce
Confidence 4566554 33332222223 3456799999987543 11 11 12224677777788888898877666 89
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~ 156 (793)
++++....+......-.+.+++.+++.++++... ..... +.+.-.+.+.++.+. .+++|+. ....+..+
T Consensus 128 i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~-~~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~---~d~~a~~~ 198 (268)
T cd06306 128 VAWFPGPKGAGWVKAVEKGFRDALAGSAIEISAI-KYGDT-----GKEVQRKLVEEALEAHPDIDYIVG---SAVAAEAA 198 (268)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHhhcCcEEeee-ccCCc-----cHHHHHHHHHHHHHhCCCcCEEee---cchhhhHH
Confidence 9999865442111445677888998888876532 11111 112334555555433 4566543 36667788
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+++.|+
T Consensus 199 ~~~l~~~g~ 207 (268)
T cd06306 199 VGILRQRGL 207 (268)
T ss_pred HHHHHhcCC
Confidence 999999997
No 181
>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=93.14 E-value=4.1 Score=42.17 Aligned_cols=158 Identities=13% Similarity=0.074 Sum_probs=85.6
Q ss_pred cceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHh----hcCc--e
Q 003821 5 KEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVG----SYNW--R 77 (793)
Q Consensus 5 ~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~----~~~w--~ 77 (793)
.+|.+||= |..+.........+...+||+|..... .+.......+.+-.+..+....+...++++. ..|+ +
T Consensus 53 ~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~ 130 (289)
T cd01540 53 QGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDR--LVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPK 130 (289)
T ss_pred cCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCC--CcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCc
Confidence 45655542 333334455566677899999988654 2211100011122355666666666666553 4677 7
Q ss_pred EEEEEEE-cC--CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHH
Q 003821 78 KVIIIYE-DD--ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAM 152 (793)
Q Consensus 78 ~vaii~~-dd--~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~ 152 (793)
++++|.. .. ... ..-.+.+++.+++.|+............ .+. +.-...+.++..+. ++...+++.+...
T Consensus 131 ~i~~i~~~~~~~~~~--~~R~~G~~~~l~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~~~~i~~~~d~~ 205 (289)
T cd01540 131 EVGALRITYDELDTA--KPRTDGALEALKAPGFPEANIFQAPQKT--TDT-EGAFDAAASTLTKNPNVKNWIIYGLNDET 205 (289)
T ss_pred ceEEEEecCCCCcch--hhHHHHHHHHHhcCCCCcceEecccccC--cch-hhHHHHHHHHHHhCCCcCeeEEEeCCcHH
Confidence 8888853 22 233 5567788889988887533222111111 111 12233445554333 4532332566677
Q ss_pred HHHHHHHHHHcCCCCCC
Q 003821 153 GIHLFREAKEMGLVGPD 169 (793)
Q Consensus 153 ~~~~l~~a~~~g~~~~~ 169 (793)
+..+++.+++.|+..++
T Consensus 206 a~g~~~al~~~g~~~~d 222 (289)
T cd01540 206 VLGAVRATEQSGIAAAD 222 (289)
T ss_pred HHHHHHHHHHcCCCCcc
Confidence 88899999999997433
No 182
>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=93.10 E-value=1.9 Score=44.24 Aligned_cols=139 Identities=19% Similarity=0.207 Sum_probs=85.3
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQ 103 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~ 103 (793)
.-+...++|+|..... .+. ....+ .+..++...+..+++.+...|-++++++....+......-.+.+.+.++
T Consensus 77 ~~~~~~~ipvV~i~~~--~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 149 (273)
T cd06292 77 ERLAERGLPVVLVNGR--APP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRAALE 149 (273)
T ss_pred HHHHhCCCCEEEEcCC--CCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3456789999998765 221 12233 3667777888888898888899999999755332111345677888888
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
++|++......+.... +.......+.++....+++|+. ++...+..+++...+.|+.-+.-+-+++
T Consensus 150 ~~~~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~di~ii~ 215 (273)
T cd06292 150 EAGLEPPEALVARGMF----SVEGGQAAAVELLGSGPTAIVA--ASDLMALGAIRAARRRGLRVPEDVSVVG 215 (273)
T ss_pred HcCCCCChhheEeCCC----CHHHHHHHHHHHhcCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 8886432111111111 1122233444444444887665 6677778899999999986554444554
No 183
>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=93.03 E-value=1.5 Score=45.43 Aligned_cols=157 Identities=16% Similarity=0.129 Sum_probs=93.2
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.++.|||--...... .....+...++|+|..... .+ ...+ .+..++...+...++++...|-++++++.
T Consensus 54 ~~~~dgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~--~~----~~~~---~v~~d~~~~g~~~~~~L~~~g~~~i~~i~ 123 (283)
T cd06279 54 SALVDGFIVYGVPRDD-PLVAALLRRGLPVVVVDQP--LP----PGVP---SVGIDDRAAAREAARHLLDLGHRRIGILG 123 (283)
T ss_pred hcCCCEEEEeCCCCCh-HHHHHHHHcCCCEEEEecC--CC----CCCC---EEeeCcHHHHHHHHHHHHHcCCCcEEEec
Confidence 4567777653322222 3344567789999988654 21 1223 46677777888888988888999999997
Q ss_pred EcCC-----------------CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEE
Q 003821 84 EDDA-----------------TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFI 144 (793)
Q Consensus 84 ~dd~-----------------~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv 144 (793)
.+.+ ........+.+.+.+++.|++......+.... . ........+.++.++ .+++|+
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~l~~~~~~~ai~ 200 (283)
T cd06279 124 LRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPE--N-DRASGEEAARELLDASPRPTAIL 200 (283)
T ss_pred CcccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEecCC--C-chHHHHHHHHHHHcCCCCCcEEE
Confidence 5421 11003446778888888886542211121111 0 113344555565443 356655
Q ss_pred EeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 145 ILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 145 vl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
. ++...+..+++.+++.|+.-+.-+=+++
T Consensus 201 ~--~~d~~a~gv~~al~~~g~~ip~di~vig 229 (283)
T cd06279 201 C--MSDVLALGALQVARELGLRVPEDLSVVG 229 (283)
T ss_pred E--CCcHHHHHHHHHHHHcCCCCCCceEEee
Confidence 4 6667778899999999986444333443
No 184
>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=92.93 E-value=1.8 Score=44.18 Aligned_cols=133 Identities=16% Similarity=0.111 Sum_probs=80.6
Q ss_pred CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCce
Q 003821 29 AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSE 108 (793)
Q Consensus 29 ~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~ 108 (793)
.++|+|..... .+. ...++ +..++..-+..+++.+...|-++++++..+..........+.+.+.+++.|..
T Consensus 76 ~~iPvV~i~~~--~~~---~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~ 147 (265)
T cd06290 76 EEIPVLAVGRR--VPG---PGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLE 147 (265)
T ss_pred cCCCEEEECCC--cCC---CCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCC
Confidence 48999988765 221 22333 55677777788888887779999999976533211144567788888888876
Q ss_pred eeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 109 IEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 109 v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.....+.... ........+.++.+. .+++|+. ++...+..+++.+++.|+.-++-+-+++
T Consensus 148 ~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~aii~--~~~~~a~~~~~~l~~~g~~ip~di~vi~ 210 (265)
T cd06290 148 VQPDLIVQGDF----EEESGLEAVEELLQRGPDFTAIFA--ANDQTAYGARLALYRRGLRVPEDVSLIG 210 (265)
T ss_pred CCHHHEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEee
Confidence 43211111111 112233445555443 4677665 6777888899999999986443333333
No 185
>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=92.80 E-value=4.6 Score=41.42 Aligned_cols=147 Identities=15% Similarity=0.083 Sum_probs=81.7
Q ss_pred ceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc-Cc--eEEEE
Q 003821 6 EVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY-NW--RKVII 81 (793)
Q Consensus 6 ~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~-~w--~~vai 81 (793)
+|.||| .|............+...++|+|..... .+. ... +..+..++...+...++++... |. +++++
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~--~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~ 130 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSD--LPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAV 130 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCC--CCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEE
Confidence 566554 4444333223335555689999988654 221 111 1235556666666677777554 54 69999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
+..+........-.+.+.+++++.+..+.......... + ..+....+.++.+. .+++|+. .. .. +..+++.
T Consensus 131 i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~-~~-d~-~~g~~~a 203 (275)
T cd06307 131 LAGSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGLD---D-PARAYEATRKLLARHPDLVGIYN-AG-GG-NRGVIRA 203 (275)
T ss_pred EecCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCCC---C-hHHHHHHHHHHHHhCCCceEEEE-CC-CC-hHHHHHH
Confidence 97654321113446778889988776543222222111 1 12334455555433 4677666 43 33 4688999
Q ss_pred HHHcCCC
Q 003821 160 AKEMGLV 166 (793)
Q Consensus 160 a~~~g~~ 166 (793)
+++.|+.
T Consensus 204 l~~~g~~ 210 (275)
T cd06307 204 LREAGRA 210 (275)
T ss_pred HHHcCCC
Confidence 9999985
No 186
>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=92.79 E-value=2.7 Score=43.58 Aligned_cols=149 Identities=13% Similarity=0.051 Sum_probs=85.5
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc------Cce
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY------NWR 77 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~------~w~ 77 (793)
.+|.+|| .|..+.........+...++|+|..... .+. ....+ -+..++...++.+++.+... |-+
T Consensus 54 ~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~--~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~ 126 (288)
T cd01538 54 KGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRL--ILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPG 126 (288)
T ss_pred cCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCC--CCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCc
Confidence 4566554 4443333334445566789999998765 222 11222 24456666677777776555 888
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcC----ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccCh
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISN----SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSL 150 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g----~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~ 150 (793)
+++++..+..........+.+++.+++.+ +++... .+.... ....-.+.+.++.+. .+++|+. .+.
T Consensus 127 ~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~-~~~~~~----~~~~~~~~~~~~l~~~~~~~~~I~~--~~d 199 (288)
T cd01538 127 NIELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIVGE-VATPDW----DPETAQKRMENALTANYNKVDGVLA--AND 199 (288)
T ss_pred eEEEEECCCCCchHHHHHHHHHHHHHhccccCCeeEEec-cccCCC----CHHHHHHHHHHHHHhCCCCccEEEe--CCc
Confidence 99999765443211345677788888887 443221 111111 112233445554333 3576554 566
Q ss_pred HHHHHHHHHHHHcCCCC
Q 003821 151 AMGIHLFREAKEMGLVG 167 (793)
Q Consensus 151 ~~~~~~l~~a~~~g~~~ 167 (793)
..+..+++.+++.|+..
T Consensus 200 ~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 200 GTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHHHHHHcCCCC
Confidence 77788999999999865
No 187
>PRK09701 D-allose transporter subunit; Provisional
Probab=92.78 E-value=5.6 Score=41.84 Aligned_cols=152 Identities=10% Similarity=0.003 Sum_probs=85.6
Q ss_pred cceEEEEc-CCChhhHHHHHHhccCCCccEEeeeCCCCCCC--CCCCCCCeEEEecCChHHHHHHHHHHHhh-cCc--eE
Q 003821 5 KEVKVIVG-METWGAATMVADIGSRAQVPVLSFAEPAIAPP--LTSTRWPFLVRMANSSAEQITCTAALVGS-YNW--RK 78 (793)
Q Consensus 5 ~~V~aiiG-p~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~--l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w--~~ 78 (793)
++|.+||= |..+.........+...+||++..... .+. +.........-+..++...+...++++.. .|- ++
T Consensus 81 ~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~ 158 (311)
T PRK09701 81 KNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEK--IDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGE 158 (311)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCC--CCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCE
Confidence 35665542 333322222223345689999998754 221 11111122234677777888888887744 464 79
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIH 155 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~ 155 (793)
++++..+........-.+.+++.+++.| +++.... ....+ ..+-.+.+.++.+. .+++|+. .+...+..
T Consensus 159 i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~-~~~~~-----~~~~~~~~~~ll~~~~~~~~I~~--~~d~~A~g 230 (311)
T PRK09701 159 VAIIEGKAGNASGEARRNGATEAFKKASQIKLVASQ-PADWD-----RIKALDVATNVLQRNPNIKAIYC--ANDTMAMG 230 (311)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEec-CCCCC-----HHHHHHHHHHHHHhCCCCCEEEE--CCcchHHH
Confidence 9988654432111445677888998887 6653321 11111 12233455555433 3565443 66667888
Q ss_pred HHHHHHHcCCC
Q 003821 156 LFREAKEMGLV 166 (793)
Q Consensus 156 ~l~~a~~~g~~ 166 (793)
+++.+++.|..
T Consensus 231 ~~~al~~~G~~ 241 (311)
T PRK09701 231 VAQAVANAGKT 241 (311)
T ss_pred HHHHHHHcCCC
Confidence 99999999985
No 188
>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=92.50 E-value=1.4 Score=45.31 Aligned_cols=155 Identities=11% Similarity=0.126 Sum_probs=92.6
Q ss_pred cceEEEE-cCCChhh---HHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 5 KEVKVIV-GMETWGA---ATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~---~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
.+|.+|| -|..+.. ......-+...++|+|..... .+. ...+ .+..++..-+..+++.+...|.++++
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~--~~~---~~~~---~V~~D~~~~g~~~~~~l~~~G~~~i~ 125 (273)
T cd01541 54 QGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINAS--YEE---LNFP---SLVLDDEKGGYKATEYLIELGHRKIA 125 (273)
T ss_pred cCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecC--CCC---CCCC---EEEECcHHHHHHHHHHHHHcCCcCEE
Confidence 4566665 3332211 112233456789999998754 221 1222 46677777888888988888999999
Q ss_pred EEEEcCC-CccccccHHHHHHHHHhcCceeeEEe--ecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHH
Q 003821 81 IIYEDDA-TNADTGNLALLSEALQISNSEIEYRL--VLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIH 155 (793)
Q Consensus 81 ii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~ 155 (793)
++...+. .+ ......+.+.+++.|.++.... .+.... ......+.+.++.+. .+++|+. .+...+..
T Consensus 126 ~l~~~~~~~~--~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~av~~--~~d~~a~g 197 (273)
T cd01541 126 GIFKADDLQG--VKRMKGFIKAYREHGIPFNPSNVITYTTEE----KEEKLFEKIKEILKRPERPTAIVC--YNDEIALR 197 (273)
T ss_pred EecCCCcccH--HHHHHHHHHHHHHcCCCCChHHEEeccccc----hhhHHHHHHHHHHcCCCCCCEEEE--cCcHHHHH
Confidence 9875433 22 4446678888888887432211 111111 112344555555443 4676544 66777778
Q ss_pred HHHHHHHcCCCCCCeEEEEe
Q 003821 156 LFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 156 ~l~~a~~~g~~~~~~~wi~~ 175 (793)
+++.+++.|+..++-+-+++
T Consensus 198 ~~~al~~~g~~~p~dv~vvg 217 (273)
T cd01541 198 VIDLLKELGLKIPEDISVVG 217 (273)
T ss_pred HHHHHHHcCCCCCCcEEEEE
Confidence 99999999986554444554
No 189
>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=92.25 E-value=3.5 Score=42.08 Aligned_cols=156 Identities=13% Similarity=0.075 Sum_probs=91.3
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
..+|.|||=...+. .....+...++|+|..... .+. ... -.+..++..-+..+++++...|-++++++.
T Consensus 48 ~~~vdGiI~~~~~~---~~~~~l~~~~~PvV~~~~~--~~~---~~~---~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~ 116 (265)
T cd01543 48 DWQGDGIIARIDDP---EMAEALQKLGIPVVDVSGS--REK---PGI---PRVTTDNAAIGRMAAEHFLERGFRHFAFYG 116 (265)
T ss_pred ccccceEEEECCCH---HHHHHHhhCCCCEEEEeCc--cCC---CCC---CEEeeCHHHHHHHHHHHHHHCCCcEEEEEc
Confidence 45677777432222 2224456679999998754 221 122 357778888888888888888999999986
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHH
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
.... .....-.+.+++++++.|..+.......... ......-...+.++.+. .+++|+. ++...+..+++.++
T Consensus 117 ~~~~-~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~ 191 (265)
T cd01543 117 LPGA-RWSDEREEAFRQLVAEAGYECSFFYRGLSTD--AQSWEEEQEELAQWLQSLPKPVGIFA--CTDARARQLLEACR 191 (265)
T ss_pred CCCC-HHHHHHHHHHHHHHHHcCCccccccCccccc--cccHHHHHHHHHHHHhcCCCCcEEEe--cChHHHHHHHHHHH
Confidence 5433 1113345778889999887652111100000 00111223445554333 4676554 67778888999999
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|+.-++-+-+++
T Consensus 192 ~~g~~vp~di~vig 205 (265)
T cd01543 192 RAGIAVPEEVAVLG 205 (265)
T ss_pred HhCCCCCCceEEEe
Confidence 99985443333333
No 190
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=92.23 E-value=4.8 Score=43.05 Aligned_cols=152 Identities=13% Similarity=0.067 Sum_probs=86.3
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc-----CceE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY-----NWRK 78 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~-----~w~~ 78 (793)
.+|.||| .|.......... .+...+||+|..... .. .... ...+..++...++..++++... |-++
T Consensus 103 ~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~--~~--~~~~---~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~ 174 (343)
T PRK10936 103 WGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNG--ID--SPQV---TTRVGVSWYQMGYQAGRYLAQWHPKGSKPLN 174 (343)
T ss_pred hCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCC--CC--Cccc---eEEEecChHHHHHHHHHHHHHHHHhcCCCce
Confidence 4566554 454433322222 456789999987533 11 1111 2246677777788888877554 4789
Q ss_pred EEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHH
Q 003821 79 VIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~ 156 (793)
++++..+........-.+.+++.+++.|+++... .....+ . +.-.+.++++.+. .+++|+ +....+..+
T Consensus 175 i~~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~~~-~~~~~~----~-~~~~~~~~~~l~~~~~~~ai~---~~d~~A~ga 245 (343)
T PRK10936 175 VALLPGPEGAGGSKAVEQGFRAAIAGSDVRIVDI-AYGDND----K-ELQRNLLQELLERHPDIDYIA---GSAVAAEAA 245 (343)
T ss_pred EEEEECCCCCchHHHHHHHHHHHHhcCCCEEEEe-ecCCCc----H-HHHHHHHHHHHHhCCCccEEE---eCCHHHHHH
Confidence 9999765432111344677888888888876542 111111 1 2233445555433 356654 344567778
Q ss_pred HHHHHHcCCCCCCeEEEEe
Q 003821 157 FREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 157 l~~a~~~g~~~~~~~wi~~ 175 (793)
++.+++.|+. +-+.|++
T Consensus 246 ~~al~~~g~~--~di~Vvg 262 (343)
T PRK10936 246 IGELRGRNLT--DKIKLVS 262 (343)
T ss_pred HHHHHhcCCC--CCeEEEE
Confidence 8989999983 2345555
No 191
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=92.16 E-value=5.7 Score=41.99 Aligned_cols=159 Identities=16% Similarity=0.135 Sum_probs=96.0
Q ss_pred cceEEE-EcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cC-ceEEEE
Q 003821 5 KEVKVI-VGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YN-WRKVII 81 (793)
Q Consensus 5 ~~V~ai-iGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~-w~~vai 81 (793)
++|.+| +.|.++.....+..-+...+||+|.+... .+.- .....-+..+....++..++.+.. ++ .-++++
T Consensus 90 ~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~--~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~ 163 (322)
T COG1879 90 QGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSD--IPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVV 163 (322)
T ss_pred cCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecC--CCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEE
Confidence 566554 58999999999999999999999998876 2221 122223444555555555665533 32 245777
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
+.....+.+...-.+.+++.+++.+.++.......... ..+.-.+....+..+.+++-.++......+.-..+.++
T Consensus 164 ~~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~----~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~ 239 (322)
T COG1879 164 LVGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDW----DRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALK 239 (322)
T ss_pred EecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcc----cHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHH
Confidence 77665433225567778899988875322121122111 12334556666666777766663455566666677777
Q ss_pred HcCCCCCCeEEEEe
Q 003821 162 EMGLVGPDSVWVIA 175 (793)
Q Consensus 162 ~~g~~~~~~~wi~~ 175 (793)
+.|..+ .+.+.+
T Consensus 240 ~~g~~~--~v~v~g 251 (322)
T COG1879 240 AAGRKG--DVVVVG 251 (322)
T ss_pred HcCCCC--ceEEEE
Confidence 788865 355554
No 192
>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=91.96 E-value=3.7 Score=41.65 Aligned_cols=151 Identities=12% Similarity=0.087 Sum_probs=89.3
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.+|.||| -|.... ...+..+.+ .+ |++..... .+ ...+ .+.+++...+..+++.+...|-++++++.
T Consensus 54 ~~vdgiii~~~~~~-~~~~~~~~~-~~-pvv~~~~~--~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~ 121 (260)
T cd06286 54 KQVDGLILCSREND-WEVIEPYTK-YG-PIVLCEEY--DS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCI 121 (260)
T ss_pred cCCCEEEEeCCCCC-HHHHHHHhc-CC-CEEEEecc--cC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEc
Confidence 4566555 332222 233444433 34 88876643 11 2233 36677777888888988888999999997
Q ss_pred EcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHH
Q 003821 84 EDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFRE 159 (793)
Q Consensus 84 ~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~ 159 (793)
.+.. .. ..-.+.+.+.+++.|+++.....+.... ...+-.+.+.++.+. .+++|++ ++...+..+++.
T Consensus 122 ~~~~~~~~--~~R~~Gf~~~l~~~~~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~ 193 (260)
T cd06286 122 GRKKSLNS--QSRKKAYKDALEEYGLTPDEEWIFEGCF----TIEDGERIGHQLLKMKDRPDAIFT--GSDEVAAGIITE 193 (260)
T ss_pred CCcccchh--HHHHHHHHHHHHHcCCCCChHheEeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--cchHHHHHHHHH
Confidence 6533 22 4557788889999886543211111111 112223444555433 5676554 777788899999
Q ss_pred HHHcCCCCCCeEEEEe
Q 003821 160 AKEMGLVGPDSVWVIA 175 (793)
Q Consensus 160 a~~~g~~~~~~~wi~~ 175 (793)
+++.|+.-+.-+-+++
T Consensus 194 l~~~g~~ip~di~v~g 209 (260)
T cd06286 194 AKKQGIRVPEDLAIIG 209 (260)
T ss_pred HHHcCCCCCcceEEEe
Confidence 9999986444344444
No 193
>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=91.87 E-value=8.2 Score=39.46 Aligned_cols=145 Identities=12% Similarity=0.046 Sum_probs=80.2
Q ss_pred cceEEEE-cCCChhh-HHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEE
Q 003821 5 KEVKVIV-GMETWGA-ATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVI 80 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~-~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~va 80 (793)
.+|.|+| .|..... ...+..+ .. ++|+|..... .+. ....+ -+..++..-++.+++++... +-.+++
T Consensus 54 ~~vDgiIi~~~~~~~~~~~l~~~-~~-~ipvV~~~~~--~~~--~~~~~---~V~~D~~~~g~~a~~~l~~~~~~g~~~~ 124 (271)
T cd06314 54 EGVDGIAISPIDPKAVIPALNKA-AA-GIKLITTDSD--APD--SGRYV---YIGTDNYAAGRTAGEIMKKALPGGGKVA 124 (271)
T ss_pred cCCCEEEEecCChhHhHHHHHHH-hc-CCCEEEecCC--CCc--cceeE---EEccChHHHHHHHHHHHHHHcCCCCEEE
Confidence 4566554 4444332 2334444 45 9999998654 211 11122 35566666777888887553 234566
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
++...........-.+.+++.+++.|+++... ..... ...+....+.++.+. .+++|+. .+...+..++.
T Consensus 125 ~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~ 196 (271)
T cd06314 125 IFVGSLGADNAKERIQGIKDAIKDSKIEIVDT-RGDEE-----DFAKAKSNAEDALNAHPDLKCMFG--LYAYNGPAIAE 196 (271)
T ss_pred EEecCCCCCCHHHHHHHHHHHHhcCCcEEEEE-ecCcc-----CHHHHHHHHHHHHHhCCCccEEEe--cCCccHHHHHH
Confidence 66654321111455677888999999876432 11111 112344555565443 3466554 44455566788
Q ss_pred HHHHcCCC
Q 003821 159 EAKEMGLV 166 (793)
Q Consensus 159 ~a~~~g~~ 166 (793)
.+++.|+.
T Consensus 197 al~~~g~~ 204 (271)
T cd06314 197 AVKAAGKL 204 (271)
T ss_pred HHHHcCCC
Confidence 88888886
No 194
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=91.82 E-value=3.6 Score=44.06 Aligned_cols=114 Identities=11% Similarity=0.043 Sum_probs=71.7
Q ss_pred ecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHh
Q 003821 56 MANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKL 135 (793)
Q Consensus 56 ~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l 135 (793)
+..++..-+...++++...|-+++++|...........-.+.+.+.+++.|+.+.......... +. ..-...+.++
T Consensus 156 V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~---~~-~~~~~~~~~~ 231 (346)
T PRK10401 156 VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGTP---DM-QGGEAAMVEL 231 (346)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCCC---Ch-HHHHHHHHHH
Confidence 4556666666777888888999999997554321114567788999999997643221111111 11 2223445555
Q ss_pred hcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 136 LRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 136 ~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
.+. .+++|+. .+...+..+++.+++.|+.-|+-+-+++
T Consensus 232 l~~~~~~~ai~~--~nd~~A~g~~~al~~~G~~vP~disvig 271 (346)
T PRK10401 232 LGRNLQLTAVFA--YNDNMAAGALTALKDNGIAIPLHLSIIG 271 (346)
T ss_pred HcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 433 4677665 6777788899999999997664444444
No 195
>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=91.81 E-value=2.7 Score=42.86 Aligned_cols=135 Identities=15% Similarity=0.159 Sum_probs=82.1
Q ss_pred hccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC-CccccccHHHHHHHHH
Q 003821 25 IGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA-TNADTGNLALLSEALQ 103 (793)
Q Consensus 25 i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~-~G~~~~~~~~l~~~l~ 103 (793)
-+...++|+|..... .+ ...++ +.+++...+..+++++...|.++++++..... +.....-.+.+.+.++
T Consensus 70 ~~~~~gipvv~~~~~--~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~ 140 (265)
T cd06291 70 EYENIDLPIVSFDRY--LS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLK 140 (265)
T ss_pred HHhcCCCCEEEEeCC--CC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHHH
Confidence 345679999998765 22 22333 55666677788888887789999999975443 2111445677889999
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.|+.+... ...... +. .+..+.+.++.+. .+++|+. ++...+..+++.+.+.|+.-++-+-+++
T Consensus 141 ~~~~~~~~~-~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~vp~di~v~g 207 (265)
T cd06291 141 ENGLEVRII-EIQENF---DD-AEKKEEIKELLEEYPDIDGIFA--SNDLTAILVLKEAQQRGIRVPEDLQIIG 207 (265)
T ss_pred HcCCCCChh-eeeccc---cc-hHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEec
Confidence 888764321 111111 11 1123445555433 3566554 5666778899999999986443333333
No 196
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=91.67 E-value=4.8 Score=42.75 Aligned_cols=154 Identities=10% Similarity=0.043 Sum_probs=90.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|||=...... ......+...++|+|..... ... . ... .+.+++..-+..++++|...|-++++++.
T Consensus 117 ~~~vdgiI~~~~~~~-~~~~~~l~~~~iPvV~~~~~--~~~--~--~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~ 187 (331)
T PRK14987 117 SWNIDGLILTERTHT-PRTLKMIEVAGIPVVELMDS--QSP--C--LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLG 187 (331)
T ss_pred hcCCCEEEEcCCCCC-HHHHHHHHhCCCCEEEEecC--CCC--C--CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEc
Confidence 345666652111111 22234456789999976432 111 1 112 36677777788888988888999999996
Q ss_pred EcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHH
Q 003821 84 EDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 84 ~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a 160 (793)
...+ .. ..-...+++++++.|+... ...+.... +. ..-...+.++.+. .+++|+. ++...+..+++++
T Consensus 188 ~~~~~~~--~~R~~Gf~~al~~~g~~~~-~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al 258 (331)
T PRK14987 188 ARLDERT--IIKQKGYEQAMLDAGLVPY-SVMVEQSS---SY-SSGIELIRQARREYPQLDGVFC--TNDDLAVGAAFEC 258 (331)
T ss_pred CCCcccH--HHHHHHHHHHHHHcCCCcc-ceeecCCC---Ch-hhHHHHHHHHHhcCCCCCEEEE--CCcHHHHHHHHHH
Confidence 4432 22 3346778899999886321 11111111 11 1223345555433 4677665 6777888899999
Q ss_pred HHcCCCCCCeEEEEe
Q 003821 161 KEMGLVGPDSVWVIA 175 (793)
Q Consensus 161 ~~~g~~~~~~~wi~~ 175 (793)
++.|+.-|+-+-+++
T Consensus 259 ~~~g~~vP~disvig 273 (331)
T PRK14987 259 QRLGLKVPDDMAIAG 273 (331)
T ss_pred HHcCCCCCCccEEEe
Confidence 999997665454554
No 197
>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=91.53 E-value=2.9 Score=42.77 Aligned_cols=147 Identities=15% Similarity=0.068 Sum_probs=81.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCC-CccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCceEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRA-QVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~-~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~~vai 81 (793)
+.+|.+||--. +............+ ++|++..... .+.. ...+ .+..++..-+..++.++.. .|-+++++
T Consensus 55 ~~~vdgiI~~~-~~~~~~~~~~~~~~~~~PiV~i~~~--~~~~--~~~~---~v~~d~~~a~~~a~~ll~~~~G~~~I~~ 126 (265)
T cd06354 55 DAGYDLIVGVG-FLLADALKEVAKQYPDQKFAIIDAV--VDDP--PNVA---SIVFKEEEGSFLAGYLAALMTKTGKVGF 126 (265)
T ss_pred hCCCCEEEEcC-cchHHHHHHHHHHCCCCEEEEEecc--cCCC--CcEE---EEEecchhHHHHHHHHHHhhcCCCeEEE
Confidence 34677776421 12223445565555 8999987653 2110 1112 3444444444444566654 38999999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcC---ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISN---SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~ 158 (793)
|..+.... .....+.+++.+++.| ..+.......... +...+-.+.+.++.+..+++|+. .+...+..+++
T Consensus 127 i~~~~~~~-~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~---~~~~~~~~~~~~ll~~~pdaI~~--~nd~~A~gv~~ 200 (265)
T cd06354 127 IGGMDIPL-IRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSF---NDPAKGKEIAQAMYDQGADVIFA--AAGGTGNGVFQ 200 (265)
T ss_pred EecccChH-HHHHHHHHHHHHHHHhccCCCceEEEEEcCcc---cCHHHHHHHHHHHHHCCCcEEEE--CCCCCchHHHH
Confidence 97543211 0223367888888888 6543322222111 11122344556665556887665 56777778999
Q ss_pred HHHHcC
Q 003821 159 EAKEMG 164 (793)
Q Consensus 159 ~a~~~g 164 (793)
.+++.|
T Consensus 201 al~~~g 206 (265)
T cd06354 201 AAKEAG 206 (265)
T ss_pred HHHhcC
Confidence 999988
No 198
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=91.42 E-value=6.5 Score=40.44 Aligned_cols=143 Identities=15% Similarity=0.135 Sum_probs=88.1
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC---C-CCCCeEEEecCChHHHHHHHHHHHhh--cCceEE
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT---S-TRWPFLVRMANSSAEQITCTAALVGS--YNWRKV 79 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~---~-~~~~~~~r~~p~~~~~~~ai~~ll~~--~~w~~v 79 (793)
+-..|++- .+..+.++..-... ||+|-.+.+ ++.-. . -.-|---=+.-+|..-...-.++++. -+-+++
T Consensus 88 ~~dviv~i-~tp~Aq~~~s~~~~--iPVV~aavt--d~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~I 162 (322)
T COG2984 88 KPDVIVAI-ATPAAQALVSATKT--IPVVFAAVT--DPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSI 162 (322)
T ss_pred CCcEEEec-CCHHHHHHHHhcCC--CCEEEEccC--chhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeE
Confidence 33455543 33444444443333 999988877 44321 1 01111112444555545555566655 488999
Q ss_pred EEEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh---HHHHH
Q 003821 80 IIIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL---AMGIH 155 (793)
Q Consensus 80 aii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~---~~~~~ 155 (793)
+++|..++ .. ....+.+++.+++.|+++... .++.. .|+...++.+. .++|+|++ -++. .....
T Consensus 163 gv~Y~p~E~ns--~~l~eelk~~A~~~Gl~vve~-~v~~~-------ndi~~a~~~l~-g~~d~i~~-p~dn~i~s~~~~ 230 (322)
T COG2984 163 GVLYNPGEANS--VSLVEELKKEARKAGLEVVEA-AVTSV-------NDIPRAVQALL-GKVDVIYI-PTDNLIVSAIES 230 (322)
T ss_pred EEEeCCCCccc--HHHHHHHHHHHHHCCCEEEEE-ecCcc-------cccHHHHHHhc-CCCcEEEE-ecchHHHHHHHH
Confidence 99999877 54 778999999999999997643 44432 24555666555 57888887 5553 34456
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
++..|.+.+.
T Consensus 231 l~~~a~~~ki 240 (322)
T COG2984 231 LLQVANKAKI 240 (322)
T ss_pred HHHHHHHhCC
Confidence 7777887776
No 199
>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=91.32 E-value=7.4 Score=40.57 Aligned_cols=150 Identities=11% Similarity=-0.038 Sum_probs=84.0
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc-Cc-eEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY-NW-RKVII 81 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~-~w-~~vai 81 (793)
.++.||| -+..+.........+...++|+|..... .+. . . .-+..+.+++...+..+++++... +- +++++
T Consensus 55 ~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~--~~~--~-~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~ 128 (298)
T cd06302 55 QGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSD--VQP--D-N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAI 128 (298)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCC--CCC--C-c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEE
Confidence 3565555 2333333333444556789999988654 211 0 1 112345677777788888887665 43 69999
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCce-eeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHH
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSE-IEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFR 158 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~ 158 (793)
+..+........-.+.+++.++++|.. +.....+.... +. +.-...+.++.+. .+++|+. .+...+..+++
T Consensus 129 l~g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~ 202 (298)
T cd06302 129 FVGSLTATNQNAWIDAAKAYQKEKYYPMLELVDRQYGDD---DA-DKSYQTAQELLKAYPDLKGIIG--PTSVGIPGAAR 202 (298)
T ss_pred EeCCCCCcchHHHHHHHHHHHhhcCCCCeEEeCcccCCC---CH-HHHHHHHHHHHHhCCCceEEEE--CCCcchhHHHH
Confidence 976543211133457788899888722 11111111111 11 2223444454333 3566554 55677888999
Q ss_pred HHHHcCCC
Q 003821 159 EAKEMGLV 166 (793)
Q Consensus 159 ~a~~~g~~ 166 (793)
.+++.|+.
T Consensus 203 al~~~g~~ 210 (298)
T cd06302 203 AVEEAGLK 210 (298)
T ss_pred HHHhcCCC
Confidence 99999986
No 200
>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=91.04 E-value=3.4 Score=42.10 Aligned_cols=130 Identities=14% Similarity=0.191 Sum_probs=82.8
Q ss_pred cCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC-CccccccHHHHHHHHHhc
Q 003821 27 SRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA-TNADTGNLALLSEALQIS 105 (793)
Q Consensus 27 ~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~-~G~~~~~~~~l~~~l~~~ 105 (793)
...++|+|..... .+ ....++ +..++..-+..+++.+...|-++++++..+.. .. ..-...+++.+++.
T Consensus 74 ~~~~iPvV~~~~~--~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~--~~R~~gf~~~~~~~ 143 (263)
T cd06280 74 LRLSFPVVLIDRA--GP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTG--AERRAGYEDAMRRH 143 (263)
T ss_pred HhcCCCEEEECCC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCH--HHHHHHHHHHHHHc
Confidence 4668999988755 22 223344 34566677778888888889999999976432 22 34567788889888
Q ss_pred CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 106 NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 106 g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
|+..... ..... ..+....+.++... .+++|+. .+...+..+++.+++.|+.-++-+.+++
T Consensus 144 ~~~~~~~-~~~~~------~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 144 GLAPDAR-FVAPT------AEAAEAALAAWLAAPERPEALVA--SNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred CCCCChh-hcccC------HHHHHHHHHHHhcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 8764321 11111 12233445554433 4676554 6777788899999999987655455554
No 201
>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=90.69 E-value=0.78 Score=48.07 Aligned_cols=69 Identities=16% Similarity=0.085 Sum_probs=45.0
Q ss_pred CCCChHHhhhCCCcccccCchHHHH----HHHhhcCCCCccccc-cCCHHHHHHHhhcCceEEEEechhhHHHHHhc
Q 003821 545 NVTDIGWLKASNLNVGFDGDSFVRN----YLENVLGFKPENILK-VDHEYKYITDFESNRIAAAFLELSYERAFLSQ 616 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~~~~~~~~----~l~~~~~~~~~~~~~-~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 616 (793)
.|++++||+ |.++|+..++..+. ++.. .+.....+.. ..+..+...++.+|++|+++...+......+.
T Consensus 91 ~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~-~Gl~~~dv~~v~~~~~~~~~al~~G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 91 GIEKPEDLK--GKNVAVPFVSTTHYSLLAALKH-WKTDPREVNILNLKPPQIVAAWQRGDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCCChhHcC--CCEEEeCCCCcHHHHHHHHHHH-cCCChhheEEEecCcHHHHHHHHcCCcCEEEEecHHHHHHHhc
Confidence 589999998 89999865543333 3332 2333222222 23456788999999999999877776544443
No 202
>PRK09492 treR trehalose repressor; Provisional
Probab=90.50 E-value=2.8 Score=44.08 Aligned_cols=138 Identities=13% Similarity=0.064 Sum_probs=84.0
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
+.+|.|+|-...+... .......++|++..... .+ ..+ .+.+++..-+..+++++...|-++++++.
T Consensus 116 ~~~vdgiIi~~~~~~~---~~~l~~~~~pvv~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~ 182 (315)
T PRK09492 116 RRNVDGVILFGFTGIT---EEMLAPWQDKLVLLARD--AK-----GFS---SVCYDDEGAIKLLMQRLYDQGHRHISYLG 182 (315)
T ss_pred hcCCCEEEEeCCCccc---HHHHHhcCCCEEEEecc--CC-----CCc---EEEECcHHHHHHHHHHHHHcCCCeEEEEc
Confidence 3467777642222111 12233456788776532 11 122 45667777777788888888999999996
Q ss_pred Ec-CC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 84 ED-DA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 84 ~d-d~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
.. .+ .+ ..-.+.+.+.+++.|+++... ....+ . ..-...+.++.+..+++|+. .+...+..+++.+
T Consensus 183 ~~~~~~~~~--~~R~~Gf~~al~~~g~~~~~~--~~~~~----~-~~~~~~~~~~l~~~~~ai~~--~~D~~A~g~~~al 251 (315)
T PRK09492 183 VDHSDVTTG--KRRHQAYLAFCKQHKLTPVAA--LGGLS----M-QSGYELVAKVLTPETTALVC--ATDTLALGASKYL 251 (315)
T ss_pred CCcccchhH--HHHHHHHHHHHHHcCCCceee--cCCCC----c-hHHHHHHHHHhhcCCCEEEE--cCcHHHHHHHHHH
Confidence 32 22 23 456778899999999865321 11111 1 22233455554456888765 6667788899999
Q ss_pred HHcCC
Q 003821 161 KEMGL 165 (793)
Q Consensus 161 ~~~g~ 165 (793)
++.|+
T Consensus 252 ~~~g~ 256 (315)
T PRK09492 252 QEQGR 256 (315)
T ss_pred HHcCC
Confidence 99998
No 203
>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=89.97 E-value=10 Score=38.89 Aligned_cols=149 Identities=13% Similarity=0.061 Sum_probs=86.2
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh-cCce--EEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS-YNWR--KVI 80 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~-~~w~--~va 80 (793)
.++.+|| .+..+.........+...++|+|..... .+. ..+.+..+..++...++.+++++.. .|-+ +++
T Consensus 54 ~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~~----~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~ 127 (282)
T cd06318 54 RGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSS--INL----EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKII 127 (282)
T ss_pred cCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCC--CCC----CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEE
Confidence 3555444 4443333233345556789999998754 211 0122335777778888888888755 6765 888
Q ss_pred EEEEcCC--CccccccHHHHHHHHHhcCcee----eE-EeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChH
Q 003821 81 IIYEDDA--TNADTGNLALLSEALQISNSEI----EY-RLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLA 151 (793)
Q Consensus 81 ii~~dd~--~G~~~~~~~~l~~~l~~~g~~v----~~-~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~ 151 (793)
++..+.. .+ ..-.+.+++.++++|... .. ........ .+. .+....+.++... .+++|+. .+..
T Consensus 128 ~i~~~~~~~~~--~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~ 200 (282)
T cd06318 128 LLSGDAGNLVG--QARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGD--WTR-EGGLKAMEDLLVAHPDINVVYS--ENDD 200 (282)
T ss_pred EEECCCCCchH--hHHHHhHHHHHhhCcccccccCCeEEEecCCCC--CCH-HHHHHHHHHHHHhCCCcCEEEE--CCcc
Confidence 8875432 34 556777888998886421 00 11111111 111 2233445554333 4676555 6667
Q ss_pred HHHHHHHHHHHcCCC
Q 003821 152 MGIHLFREAKEMGLV 166 (793)
Q Consensus 152 ~~~~~l~~a~~~g~~ 166 (793)
.+..+++.+++.|+.
T Consensus 201 ~a~g~~~al~~~g~~ 215 (282)
T cd06318 201 MALGAMRVLAEAGKT 215 (282)
T ss_pred hHHHHHHHHHHcCCC
Confidence 778899999999985
No 204
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=89.42 E-value=8.1 Score=40.90 Aligned_cols=137 Identities=12% Similarity=0.042 Sum_probs=80.8
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQ 103 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~ 103 (793)
..+...++|+|..... .+ ....+ .+..++..-+..+++.+...|.++++++..+........-...+.+.++
T Consensus 130 ~~l~~~~~pvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 201 (327)
T PRK10339 130 AAASALTDNICFIDFH--EP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGEDEPGKADIREVAFAEYGR 201 (327)
T ss_pred HHHHhcCCCEEEEeCC--CC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCccccchhhHHHHHHHHHHH
Confidence 4456678999987653 11 12233 3666777777788888888899999999654332100334556777787
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.|+. .....+.... ..+.....+.++.+. .+++|+. ++...+..+++++++.|+.-|+-+-+++
T Consensus 202 ~~g~~-~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~vP~di~vig 268 (327)
T PRK10339 202 LKQVV-REEDIWRGGF----SSSSGYELAKQMLAREDYPKALFV--ASDSIAIGVLRAIHERGLNIPQDISLIS 268 (327)
T ss_pred HcCCC-ChhheeecCc----ChhHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 77761 1111111110 112233445554432 4676554 6677788999999999986554343444
No 205
>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=89.20 E-value=12 Score=38.95 Aligned_cols=150 Identities=12% Similarity=0.123 Sum_probs=82.6
Q ss_pred cceEEEE-cCCChhh-HHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCc------
Q 003821 5 KEVKVIV-GMETWGA-ATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNW------ 76 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~-~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w------ 76 (793)
.+|.||| .|..... ...+..+ . .++|+|..... ... . ..+-.+..++..-+..+++++.. +-
T Consensus 56 ~~vDgiIi~~~~~~~~~~~l~~~-~-~~iPvV~~~~~--~~~--~---~~~~~V~~D~~~~g~~~~~~L~~-~~~~~~g~ 125 (295)
T TIGR02955 56 WGADAILLGTVSPEALNHDLAQL-T-KSIPVFALVNQ--IDS--N---QVKGRVGVDWYQMGYQAGEYLAQ-RHPKGSGP 125 (295)
T ss_pred cCCCEEEEecCChhhhhHHHHHH-h-cCCCEEEEecC--CCc--c---ceeEEEeecHHHHHHHHHHHHHH-hcccCCCC
Confidence 4666664 3432222 2333333 3 48999986433 111 1 11234566666677778887765 33
Q ss_pred eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHHH
Q 003821 77 RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~~ 154 (793)
++++++...........-.+.+++.+++.|+++... ..... ....-.+.+.++.+. .+++| . ++...+.
T Consensus 126 ~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~-~~~~~-----~~~~~~~~~~~~L~~~~~~d~i-~--~~d~~a~ 196 (295)
T TIGR02955 126 TTLAWLPGPKNRGGTKPVTQGFRAALEGSDVEISAI-LWADN-----DKELQRNLLQDLLKKHPDIDYL-V--GSAVAAE 196 (295)
T ss_pred eeEEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEEE-ecCCC-----cHHHHHHHHHHHHHhCCCcCEE-E--eccHHHH
Confidence 469999865542211455778889999889876532 11111 112233445555433 35653 3 4556677
Q ss_pred HHHHHHHHcCCCCCCeEEEEe
Q 003821 155 HLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 155 ~~l~~a~~~g~~~~~~~wi~~ 175 (793)
.+++.+++.|+. +-+.+++
T Consensus 197 g~l~al~~~g~~--~dv~vvg 215 (295)
T TIGR02955 197 AAISELRSLHMT--QQIKLVS 215 (295)
T ss_pred HHHHHHHhhCcc--CCeEEEE
Confidence 888888888763 2244444
No 206
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=89.02 E-value=0.65 Score=47.24 Aligned_cols=73 Identities=14% Similarity=0.141 Sum_probs=46.3
Q ss_pred CCCChHHhhh-----CCCcccc-cCchHHHHHH---HhhcCCCC---ccccccCCHHHHHHHhhcCceEEEEechhhHHH
Q 003821 545 NVTDIGWLKA-----SNLNVGF-DGDSFVRNYL---ENVLGFKP---ENILKVDHEYKYITDFESNRIAAAFLELSYERA 612 (793)
Q Consensus 545 ~i~sl~dL~~-----~~~~~g~-~~~~~~~~~l---~~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~ 612 (793)
.+++++||.. .|.++++ ..++..+..+ -+..+... .++..+.. .+...++++|++|+++...++...
T Consensus 105 ~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~iDa~~~~eP~~~~ 183 (252)
T PF13379_consen 105 DIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGEIDAAVLWEPFASQ 183 (252)
T ss_dssp TTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-SEEEEETTHHHH
T ss_pred CccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCCcCEEEecCCHHHH
Confidence 6899999921 4889998 4444332222 22223333 34445555 899999999999999998888877
Q ss_pred HHhccC
Q 003821 613 FLSQHC 618 (793)
Q Consensus 613 ~~~~~c 618 (793)
...+.-
T Consensus 184 ~~~~g~ 189 (252)
T PF13379_consen 184 AEAKGI 189 (252)
T ss_dssp HHHTTS
T ss_pred HHhccC
Confidence 765543
No 207
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=88.85 E-value=3.2 Score=41.51 Aligned_cols=139 Identities=7% Similarity=0.071 Sum_probs=90.5
Q ss_pred HHHHHHhccCCCccEEeeeCCCCCCCCCCC--C-CCeE--EEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccc
Q 003821 19 ATMVADIGSRAQVPVLSFAEPAIAPPLTST--R-WPFL--VRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTG 93 (793)
Q Consensus 19 ~~~va~i~~~~~iP~Is~~~~~~~~~l~~~--~-~~~~--~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~ 93 (793)
..+++.+....++=.|.|++| +..+-.. + ..-. -+...+-..-+.|+.+.++++|-+||+++..- - ..
T Consensus 60 ~~aa~~ll~~a~~dvi~~~cT--sgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvTPY---~--~~ 132 (239)
T TIGR02990 60 TEAAALILPDEELDVVAYSCT--SASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLTPY---T--PE 132 (239)
T ss_pred HHHHHHhcCCCCCCEEEEccc--hhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEECCC---c--HH
Confidence 445556666678889999998 5443110 0 0000 01122334457889999999999999999763 3 45
Q ss_pred cHHHHHHHHHhcCceeeEEeecCCCCC---CCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH-cCC
Q 003821 94 NLALLSEALQISNSEIEYRLVLPPISY---LTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE-MGL 165 (793)
Q Consensus 94 ~~~~l~~~l~~~g~~v~~~~~~~~~~~---~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~-~g~ 165 (793)
.-+.+.+.+++.|++|+....+..... ..-+.+.+.+.+.++...++|+|++ .|..=....++.++.+ .|.
T Consensus 133 v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifi-sCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 133 TSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFL-SCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred HHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEE-eCCCchhHHHHHHHHHHHCC
Confidence 678899999999999987655443211 1112345666666666678999999 7777777777777754 454
No 208
>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=88.21 E-value=2.7 Score=38.98 Aligned_cols=101 Identities=19% Similarity=0.227 Sum_probs=64.7
Q ss_pred HHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHH-HhhcCCceEEEEe
Q 003821 68 AALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLL-KLLRTESRVFIIL 146 (793)
Q Consensus 68 ~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~vivvl 146 (793)
++.+...|-+++++|......+......+.+.+++++.|++........... ..+...... .+++..+++||+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~pdaii~- 74 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDDD-----SEDAREAQLLWLRRLRPDAIIC- 74 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESSS-----HHHHHHHHHHHHHTCSSSEEEE-
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCCc-----chhHHHHHHHHHhcCCCcEEEE-
Confidence 4667788999999999444422225667788899999999855443333222 122222222 233336787666
Q ss_pred ccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 147 QSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 147 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
++...+..+++.+.+.|+.-+.-+-+++
T Consensus 75 -~~~~~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 75 -SNDRLALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp -SSHHHHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred -cCHHHHHHHHHHHHHcCCcccccccEEE
Confidence 8888999999999999996554344444
No 209
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=88.12 E-value=18 Score=38.32 Aligned_cols=153 Identities=15% Similarity=0.108 Sum_probs=80.1
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc---------
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--------- 74 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--------- 74 (793)
.+|.+|| -|..+.........+...+||+|..... .+...-...+-...+..++..-++.+++++...
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~--~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~ 157 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKE--PSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDL 157 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCC--ccccccccccceeEEccChHHHHHHHHHHHHHHHhhcccccc
Confidence 4566555 2333333333345567789999998764 211100001112235666666666656655332
Q ss_pred ---CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC----CceEEEEec
Q 003821 75 ---NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT----ESRVFIILQ 147 (793)
Q Consensus 75 ---~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~vivvl~ 147 (793)
|-.++++|...........-...+.+.+++.|+.+... .+.... ...+.-.+.+.++.+. .+++|+.
T Consensus 158 ~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~-~~~~~~---~~~~~a~~~~~~~l~~~~~~~~~ai~~-- 231 (330)
T PRK15395 158 NKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQL-QLDTAM---WDTAQAKDKMDAWLSGPNANKIEVVIA-- 231 (330)
T ss_pred CCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeee-ecccCC---cCHHHHHHHHHHHHhhCcCCCeeEEEE--
Confidence 33344555443221101344677888898888765432 222111 1112233455555432 3566554
Q ss_pred cChHHHHHHHHHHHHcCC
Q 003821 148 SSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 148 ~~~~~~~~~l~~a~~~g~ 165 (793)
++...+..+++.+++.|+
T Consensus 232 ~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 232 NNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCchHHHHHHHHHHhcCC
Confidence 667778889999999998
No 210
>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=86.97 E-value=8.7 Score=39.06 Aligned_cols=145 Identities=14% Similarity=0.089 Sum_probs=80.0
Q ss_pred cceEEEEcCCChhhHHHHHHhccC-CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc-CceEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSR-AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY-NWRKVIII 82 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~-~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~-~w~~vaii 82 (793)
.+|.+||=.... ....+...+.. .++|++..... .+. ....+ .+..++..-++.++.++... |-+++++|
T Consensus 55 ~~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~~~~~--~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i 126 (260)
T cd06304 55 QGYDLIFGVGFG-FMDAVEKVAKEYPDVKFAIIDGV--VDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFV 126 (260)
T ss_pred cCCCEEEECCcc-hhHHHHHHHHHCCCCEEEEecCc--cCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEE
Confidence 456655432222 22344455544 37898887654 211 01112 23344444444445556555 89999999
Q ss_pred EEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 83 YEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 83 ~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
..+.. .. ..-.+.+.+.+++.|............. ++. ..-...++++.+..+++|+ +.+...+..++++++
T Consensus 127 ~~~~~~~~--~~R~~Gf~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~ai~--~~~d~~A~gv~~al~ 199 (260)
T cd06304 127 GGMPIPEV--NRFINGFAAGAKSVNPDITVLVIYTGSF--FDP-AKGKEAALALIDQGADVIF--AAAGGTGPGVIQAAK 199 (260)
T ss_pred eccccHHH--HHHHHHHHHHHHHhCCCcEEEEEEecCc--cCc-HHHHHHHHHHHhCCCCEEE--EcCCCCchHHHHHHH
Confidence 76432 22 4446778889998887543322221111 111 2234456666555678754 366777778999999
Q ss_pred HcC
Q 003821 162 EMG 164 (793)
Q Consensus 162 ~~g 164 (793)
+.|
T Consensus 200 ~~g 202 (260)
T cd06304 200 EAG 202 (260)
T ss_pred HcC
Confidence 988
No 211
>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=86.52 E-value=7.8 Score=40.69 Aligned_cols=118 Identities=11% Similarity=0.032 Sum_probs=76.6
Q ss_pred cCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEc-CC--CccccccHHHHHHHHH
Q 003821 27 SRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYED-DA--TNADTGNLALLSEALQ 103 (793)
Q Consensus 27 ~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~d-d~--~G~~~~~~~~l~~~l~ 103 (793)
...++|+|..... .+ ..+ .+.+++..-+..+++++...|-+++++|..+ .+ .+ ..-.+.+.++++
T Consensus 133 ~~~~~p~V~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~--~~R~~gf~~a~~ 200 (311)
T TIGR02405 133 ESWNHKAVVIARD--TG-----GFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTG--LMRHNAYLAYCE 200 (311)
T ss_pred HhcCCCEEEEecC--CC-----Ccc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhH--HHHHHHHHHHHH
Confidence 3457888876543 11 122 3566777777788888888899999999632 22 33 455778899999
Q ss_pred hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 104 ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 104 ~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
+.|++... ..... +..+....+.++.+.++++|+. ++...+..+++.+.+.|+
T Consensus 201 ~~gi~~~~--~~~~~-----~~~~~~~~~~~~l~~~~tAi~~--~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 201 SANLEPIY--QTGQL-----SHESGYVLTDKVLKPETTALVC--ATDTLALGAAKYLQELDR 253 (311)
T ss_pred HcCCCcee--eeCCC-----CHHHHHHHHHHHHhcCCCEEEE--CCcHHHHHHHHHHHHcCC
Confidence 99986311 11111 1122334455544446787655 777888889999999997
No 212
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=85.88 E-value=54 Score=35.21 Aligned_cols=93 Identities=12% Similarity=0.055 Sum_probs=67.8
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
-..+.+.++.+|++++-||.+..-.. .+.++.+.+.|++.|+++.....+.+.. +.+.+...+..+++.++|.|
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~--~g~~~~v~~~L~~~~i~~~if~~v~p~P----~~~~v~~~~~~~~~~~~D~i 90 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAK--LGLLDKVLDSLDAAGIEYEVFDEVEPEP----TIETVEAGAEVAREFGPDTI 90 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCcccc--chhHHHHHHHHHhcCCeEEEecCCCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 45677788889999999999987655 7789999999999997765554555443 34567778888999999999
Q ss_pred EEeccCh-HHHHHHHHHHHH
Q 003821 144 IILQSSL-AMGIHLFREAKE 162 (793)
Q Consensus 144 vvl~~~~-~~~~~~l~~a~~ 162 (793)
|-+.+.. -++.+.+.-..+
T Consensus 91 IalGGGS~~D~AK~i~~~~~ 110 (377)
T COG1454 91 IALGGGSVIDAAKAIALLAE 110 (377)
T ss_pred EEeCCccHHHHHHHHHHHhh
Confidence 9854433 344554444444
No 213
>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=85.80 E-value=19 Score=37.68 Aligned_cols=148 Identities=10% Similarity=-0.027 Sum_probs=82.0
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCce-EEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWR-KVIII 82 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~-~vaii 82 (793)
.+|.+|| .|..+.........+...+||+|..... .+. . +....+..++..-++.+++++...+-+ +++++
T Consensus 53 ~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~--~~~---~--~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i 125 (302)
T TIGR02634 53 RGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRL--IND---A--DIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLM 125 (302)
T ss_pred cCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCc--CCC---C--CccEEEecCHHHHHHHHHHHHHhhCCCCCEEEE
Confidence 3455443 3433333344445567789999988654 221 1 122346667777788888888766655 78887
Q ss_pred EEcCCCccccccHHHHHHHHHhc----CceeeEEeecCCCCCCCCChHHHHHHHHHhhc---CCceEEEEeccChHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQIS----NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR---TESRVFIILQSSLAMGIH 155 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~----g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~---~~~~vivvl~~~~~~~~~ 155 (793)
..+..........+.+++.+++. ++.+... .+.. . . ...+..+.+.++.. ..+++|+. ++...+..
T Consensus 126 ~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~-~~~~-~--~-~~~~~~~~~~~ll~~~~~~~~aI~~--~~D~~A~g 198 (302)
T TIGR02634 126 GGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGD-QWVD-G--W-LPENALRIMENALTANDNKVDAVVA--SNDATAGG 198 (302)
T ss_pred eCCCCCcchHHHHHHHHHHHhhhccCCCeEEecC-cCCC-C--C-CHHHHHHHHHHHHHhCCCCccEEEE--CCCchHHH
Confidence 65432110022345666777653 2443211 1111 0 0 11233455656543 24676554 66667778
Q ss_pred HHHHHHHcCCC
Q 003821 156 LFREAKEMGLV 166 (793)
Q Consensus 156 ~l~~a~~~g~~ 166 (793)
+++.+++.|+.
T Consensus 199 ~~~al~~~g~~ 209 (302)
T TIGR02634 199 AIQALTAQGLA 209 (302)
T ss_pred HHHHHHHCCCC
Confidence 99999999984
No 214
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=85.60 E-value=1.5 Score=47.75 Aligned_cols=88 Identities=17% Similarity=0.205 Sum_probs=71.4
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccCCCCCCCccccchhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHHHH
Q 003821 452 GMWIVTGAILIYTMSVVWFLEHRWNPEFNGPWNIQIGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNSSY 529 (793)
Q Consensus 452 ~vWl~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~~Y 529 (793)
+.|..-++.+++.++++++.|.....+-.+....+..+++|+..-++.-.| ++ .|..+.+|++..++.++++-+.+.=
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALP 314 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALP 314 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcc
Confidence 578888888899999999999886555444455578999999999999888 66 5899999999999998888777777
Q ss_pred Hhhhheeeee
Q 003821 530 TASLSSMLTV 539 (793)
Q Consensus 530 ta~L~s~Lt~ 539 (793)
.+-|-|-|+.
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 7777776654
No 215
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=85.37 E-value=22 Score=37.86 Aligned_cols=149 Identities=9% Similarity=0.062 Sum_probs=76.6
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecC-ChHHHHHHHHHHHhh-c--CceEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMAN-SSAEQITCTAALVGS-Y--NWRKV 79 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p-~~~~~~~ai~~ll~~-~--~w~~v 79 (793)
++|.||+ .|.++.....+..-+...+||+|.+.+. .+. ... .++ +.. ++...++.+++.+.+ + +-.+|
T Consensus 79 ~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~--~~~--~~~-~~~--V~~~~~~~~G~~~~~~l~~~l~~g~gki 151 (336)
T PRK15408 79 QGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSD--TKP--ECR-SYY--INQGTPEQLGSMLVEMAAKQVGKDKAKV 151 (336)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCC--CCC--ccc-eEE--EecCCHHHHHHHHHHHHHHhcCCCCCEE
Confidence 4666554 4555554456666678889999998765 221 111 122 222 334556666666543 3 34689
Q ss_pred EEEEEcCCCccccccHHHHHHHHHhc--CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 80 IIIYEDDATNADTGNLALLSEALQIS--NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 80 aii~~dd~~G~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
+++.............+.+.+.+++. +++++.. .+. . +....-.+..+.+..+.+++=.+++.+...+.-.+
T Consensus 152 ~il~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv~~-~~~--~---~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~ 225 (336)
T PRK15408 152 AFFYSSPTVTDQNQWVKEAKAKIAKEHPGWEIVTT-QFG--Y---NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAA 225 (336)
T ss_pred EEEECCCCCccHHHHHHHHHHHHHhhCCCCEEEee-cCC--C---CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHH
Confidence 98875432110023345566666443 4555432 111 1 11223344556665555544333123333344578
Q ss_pred HHHHHcCCC
Q 003821 158 REAKEMGLV 166 (793)
Q Consensus 158 ~~a~~~g~~ 166 (793)
+++++.|+.
T Consensus 226 ~Al~~~g~~ 234 (336)
T PRK15408 226 QAAENLKRD 234 (336)
T ss_pred HHHHhCCCC
Confidence 888888864
No 216
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=84.54 E-value=8.7 Score=40.14 Aligned_cols=114 Identities=14% Similarity=0.098 Sum_probs=72.4
Q ss_pred ecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHh
Q 003821 56 MANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKL 135 (793)
Q Consensus 56 ~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l 135 (793)
+..++...+...++.+...|-+++++|...........-.+.|++.+++.|+++.....+.... ........+.++
T Consensus 132 V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~ 207 (309)
T PRK11041 132 VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGDF----TFEAGAKALKQL 207 (309)
T ss_pred EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCCC----CHHHHHHHHHHH
Confidence 5567777777888888778999999997554321113457778889988887653221111111 112344556666
Q ss_pred hcC--CceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 136 LRT--ESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 136 ~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
.+. .+++|+. ++...+..+++..++.|+.-++-+++++
T Consensus 208 l~~~~~~~ai~~--~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 208 LDLPQPPTAVFC--HSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 544 3677665 6667777889999999986554455555
No 217
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=84.41 E-value=26 Score=37.17 Aligned_cols=146 Identities=10% Similarity=-0.050 Sum_probs=84.0
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
.+|.||| .|............+...++|+|..... .+ ... ....+.+++...++.++++|...|-++++++.
T Consensus 80 ~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~--~~---~~~--~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~ 152 (330)
T PRK10355 80 RGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRM--IN---NAD--IDFYISFDNEKVGELQAKALVDKVPQGNYFLM 152 (330)
T ss_pred cCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCC--CC---CCC--ccEEEecCHHHHHHHHHHHHHHhcCCCCEEEE
Confidence 4566554 3333322234445667889999998654 11 111 22257888888899999999877888877665
Q ss_pred EcCC---CccccccHHHHHHHHHhc---C-ceeeEEeecCCCCCCCCChHHHHHHHHHhhc---CCceEEEEeccChHHH
Q 003821 84 EDDA---TNADTGNLALLSEALQIS---N-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLR---TESRVFIILQSSLAMG 153 (793)
Q Consensus 84 ~dd~---~G~~~~~~~~l~~~l~~~---g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~---~~~~vivvl~~~~~~~ 153 (793)
.... .+ ..-.+.+++.+++. | +++......... ...+-.+.++++.+ ..+++|+. .+...+
T Consensus 153 ~g~~~~~~~--~~R~~gf~~~l~~~~~~~~i~~~~~~~~~~~-----~~~~~~~~~~~lL~~~~~~~~aI~~--~nD~~A 223 (330)
T PRK10355 153 GGSPVDNNA--KLFRAGQMKVLKPYIDSGKIKVVGDQWVDGW-----LPENALKIMENALTANNNKIDAVVA--SNDATA 223 (330)
T ss_pred eCCCCCccH--HHHHHHHHHHHhhhccCCCeEEecccCCCCC-----CHHHHHHHHHHHHHhCCCCccEEEE--CCCchH
Confidence 3221 22 33456667777653 4 443211111111 11223345555432 24676554 677777
Q ss_pred HHHHHHHHHcCCC
Q 003821 154 IHLFREAKEMGLV 166 (793)
Q Consensus 154 ~~~l~~a~~~g~~ 166 (793)
..+++.+++.|+.
T Consensus 224 ~g~l~al~~~g~~ 236 (330)
T PRK10355 224 GGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHHHHCCCC
Confidence 7899999999986
No 218
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=83.87 E-value=9.3 Score=41.49 Aligned_cols=89 Identities=15% Similarity=0.092 Sum_probs=61.0
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|.+++.|+++..-.. .+..+.+.+.|++.|+++...-.+.+.. +.+++.+.+...++.++|+|
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~--~g~~~~v~~~L~~~~i~~~~f~~v~~np----~~~~v~~~~~~~~~~~~D~I 92 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTK--LGMAGDVQKALEERNIFSVIYDGTQPNP----TTENVAAGLKLLKENNCDSV 92 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcCCeEEEeCCCCCCc----CHHHHHHHHHHHHHcCCCEE
Confidence 34577888999999999998754333 4578899999999998754333343332 23567788888888999999
Q ss_pred EEeccC-hHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFR 158 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~ 158 (793)
|-+.+. .-++.+.+.
T Consensus 93 iaiGGGS~iD~AK~ia 108 (383)
T PRK09860 93 ISLGGGSPHDCAKGIA 108 (383)
T ss_pred EEeCCchHHHHHHHHH
Confidence 974442 334444443
No 219
>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=83.41 E-value=46 Score=34.58 Aligned_cols=154 Identities=11% Similarity=0.073 Sum_probs=75.8
Q ss_pred cceEEEE-cCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecC-ChHHHHHHHHHHH-hhc-CceEEE
Q 003821 5 KEVKVIV-GMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMAN-SSAEQITCTAALV-GSY-NWRKVI 80 (793)
Q Consensus 5 ~~V~aii-Gp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p-~~~~~~~ai~~ll-~~~-~w~~va 80 (793)
++|.||| -|..+........-+...+||+|..... .+. .. ....+.. +....++..++.+ +++ +-++|+
T Consensus 55 ~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~--~~~--~~---~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~ 127 (302)
T TIGR02637 55 QKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSG--VAP--EG---RNLFLNQASADLIGRTQVQLAAEQIGNGGEIA 127 (302)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCC--CCC--Cc---eeEEEecCCHHHHHHHHHHHHHHHcCCCcEEE
Confidence 3555443 3444433334445566789999987654 221 11 1233433 3333344444443 221 226999
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcC---ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC--ceEEEEeccChHHHHH
Q 003821 81 IIYEDDATNADTGNLALLSEALQISN---SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE--SRVFIILQSSLAMGIH 155 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivvl~~~~~~~~~ 155 (793)
+|..+..........+.+++.++++| .++... ..... ..+.-.+.+.++.+.. +++|+. .....+..
T Consensus 128 ~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~L~~~~~~~ai~~--~~d~~a~g 199 (302)
T TIGR02637 128 ILSAASTATNQNAWIEIMKKELKDPKYPKVKLVAT--VYGDD----DAQKSYQEAQGLLKSYPNLKGIIA--PTTVGIKA 199 (302)
T ss_pred EEECCCCCccHHHHHHHHHHHHhhccCCCCEEEee--ecCCc----hHHHHHHHHHHHHHhCCCccEEEe--CCCchHHH
Confidence 99865432100234566777776653 333211 11111 1123344555554444 455443 44566677
Q ss_pred HHHHHHHcCCCCCCeEEEEe
Q 003821 156 LFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 156 ~l~~a~~~g~~~~~~~wi~~ 175 (793)
.++.+++.|..+. +.+++
T Consensus 200 a~~al~~~g~~~~--i~vvg 217 (302)
T TIGR02637 200 AAQAVSDAKLIGK--VKLTG 217 (302)
T ss_pred HHHHHHhcCCCCC--EEEEE
Confidence 8888888887533 44444
No 220
>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=81.79 E-value=16 Score=38.14 Aligned_cols=124 Identities=15% Similarity=0.169 Sum_probs=66.9
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCC----CCCC--CeEEEecCChHHHHHHHHHHHhhc--Cc
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLT----STRW--PFLVRMANSSAEQITCTAALVGSY--NW 76 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~----~~~~--~~~~r~~p~~~~~~~ai~~ll~~~--~w 76 (793)
.++..|+- .++..+..++...... +|+|..+.+ +|... .... +.+.-+. +..-.....++++.+ +-
T Consensus 58 ~~~DlIi~-~gt~aa~~~~~~~~~~-iPVVf~~V~--dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~ 131 (294)
T PF04392_consen 58 QKPDLIIA-IGTPAAQALAKHLKDD-IPVVFCGVS--DPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDA 131 (294)
T ss_dssp TS-SEEEE-ESHHHHHHHHHH-SS--S-EEEECES---TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT-
T ss_pred CCCCEEEE-eCcHHHHHHHHhcCCC-cEEEEEecc--ChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCC
Confidence 34444443 2345566666655554 999987775 55432 1122 2333333 333444555555553 57
Q ss_pred eEEEEEEEcCCC-ccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 77 RKVIIIYEDDAT-NADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 77 ~~vaii~~dd~~-G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
++++++|+++.- + ....+.+++.+++.|+++... .++.. .++...+..+. ...+++++
T Consensus 132 k~igvl~~~~~~~~--~~~~~~~~~~a~~~g~~l~~~-~v~~~-------~~~~~~~~~l~-~~~da~~~ 190 (294)
T PF04392_consen 132 KRIGVLYDPSEPNS--VAQIEQLRKAAKKLGIELVEI-PVPSS-------EDLEQALEALA-EKVDALYL 190 (294)
T ss_dssp -EEEEEEETT-HHH--HHHHHHHHHHHHHTT-EEEEE-EESSG-------GGHHHHHHHHC-TT-SEEEE
T ss_pred CEEEEEecCCCccH--HHHHHHHHHHHHHcCCEEEEE-ecCcH-------hHHHHHHHHhh-ccCCEEEE
Confidence 899999998762 3 456788888899999987643 34322 45777777775 45777777
No 221
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=81.33 E-value=3.4 Score=43.58 Aligned_cols=59 Identities=19% Similarity=0.197 Sum_probs=37.6
Q ss_pred CCCChHHhhhCCCccccc-CchHH----HHHHHhhcCCCCcc--ccccCCHHHHHHHhhcCceEEEEec
Q 003821 545 NVTDIGWLKASNLNVGFD-GDSFV----RNYLENVLGFKPEN--ILKVDHEYKYITDFESNRIAAAFLE 606 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~-~~~~~----~~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~a~~~~ 606 (793)
++++++||. +.++++. .++.. ..+++. .+..... ...+.+..+...++.+|++|+++..
T Consensus 132 ~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~-~G~~~~~~~~v~~~~~~~~~~al~~G~vDa~~~~ 197 (320)
T TIGR02122 132 GIKTVADLK--GKRVAVGAPGSGTELNARAVLKA-AGLTYDDVKKVEYLGYAEAADALKDGKIDAAFYT 197 (320)
T ss_pred CCCcHHHcC--CCEEecCCCCcchHHHHHHHHHH-cCCCHHHccchhcCCHHHHHHHHHCCCccEEEEe
Confidence 578999998 5666552 22222 222332 2332222 2456777889999999999999987
No 222
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A ....
Probab=80.56 E-value=5.1 Score=39.93 Aligned_cols=111 Identities=14% Similarity=0.043 Sum_probs=62.3
Q ss_pred CCCChHHhhhCCCcccccC---ch---HHHHHHHhhcC--C---CCcccc-ccCCHHHHHHHhhcCceEEEEechhhHHH
Q 003821 545 NVTDIGWLKASNLNVGFDG---DS---FVRNYLENVLG--F---KPENIL-KVDHEYKYITDFESNRIAAAFLELSYERA 612 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~~---~~---~~~~~l~~~~~--~---~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~ 612 (793)
.+++++||.+.++++++.+ .. .....+.+... . -..++. ...+..+.+..+.+|++|+.+.......+
T Consensus 92 ~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~~g~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~d~~~~~~s~~~~ 171 (230)
T PF13531_consen 92 GIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAAAGGQELLDALQKNIVQYVPSTSQVLSAVASGEADAGIVYESQAIF 171 (230)
T ss_dssp STTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHHHTHCHHHHHHHHTEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHH
T ss_pred ccCCHHHHhhccCEEEecCcccChhhHHHHHHHHHcccHHHHHHHHHhCcccccchHHHHHHHHcCCCcceeeHHHHHHH
Confidence 5788999987788888733 11 12222332210 0 011222 45667888889999999998875544422
Q ss_pred HHhccCCceE--EeCcccc--ccceEEEecCCCcChHHHHHHHHhhhcc
Q 003821 613 FLSQHCKEYT--ATIPTYR--FGGFAFVFQKGSPLAADFSEAILKLSEN 657 (793)
Q Consensus 613 ~~~~~c~~~~--~~~~~~~--~~~~~~~~~k~spl~~~in~~i~~l~e~ 657 (793)
. ...-. +. .+.+... ...+.+++.++++-.+.-..++.-|...
T Consensus 172 ~-~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~ 218 (230)
T PF13531_consen 172 A-RQGDP-LSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLSP 218 (230)
T ss_dssp C-TSHTT-EEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTSH
T ss_pred h-hcCCC-eEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCCH
Confidence 1 12222 33 2333333 2457888989888777777777766654
No 223
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=80.32 E-value=15 Score=39.63 Aligned_cols=89 Identities=11% Similarity=0.019 Sum_probs=60.7
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.+|.+++.||++..... .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+...++.++|.||
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~--~~~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~II 86 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAA--LGLVARVLALLEDAGLAAALFDEVPPNP----TEAAVEAGLAAYRAGGCDGVI 86 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcCCeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCEEE
Confidence 4567788889999999998765543 4468899999999998764332333332 335677788888888999998
Q ss_pred Eecc-ChHHHHHHHHH
Q 003821 145 ILQS-SLAMGIHLFRE 159 (793)
Q Consensus 145 vl~~-~~~~~~~~l~~ 159 (793)
-+.+ +.-++.+++..
T Consensus 87 aiGGGSviD~aK~ia~ 102 (370)
T cd08192 87 AFGGGSALDLAKAVAL 102 (370)
T ss_pred EeCCchHHHHHHHHHH
Confidence 7344 23444544443
No 224
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=78.84 E-value=18 Score=39.13 Aligned_cols=90 Identities=16% Similarity=0.145 Sum_probs=60.8
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
.+.+.+.++.+|-+++.||++..... .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+|
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~--~g~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~I 87 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVK--LGLLDKVLEALEGAGIEYAVYDGVPPDP----TIENVEAGLALYRENGCDAI 87 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhh--cccHHHHHHHHHhcCCeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34567788888889999888765443 4467889999999998754332333332 33567788888888899999
Q ss_pred EEecc-ChHHHHHHHHH
Q 003821 144 IILQS-SLAMGIHLFRE 159 (793)
Q Consensus 144 vvl~~-~~~~~~~~l~~ 159 (793)
|.+.+ +.-++.+++..
T Consensus 88 IaiGGGS~~D~aK~ia~ 104 (374)
T cd08189 88 LAVGGGSVIDCAKAIAA 104 (374)
T ss_pred EEeCCccHHHHHHHHHH
Confidence 97444 23444544443
No 225
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=78.31 E-value=14 Score=40.36 Aligned_cols=79 Identities=8% Similarity=0.041 Sum_probs=55.5
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|.+++.|+.+..-.. .+..+.+.+.|++.|+++...-.+.+.. +.+.+.+.+...++.++|+|
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~--~g~~~~v~~~L~~~gi~~~~~~~v~~~P----~~~~v~~~~~~~r~~~~D~I 110 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQ--AGMTAGLTRSLAVKGIAMTLWPCPVGEP----CITDVCAAVAQLRESGCDGV 110 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcCCeEEEECCCCCCc----CHHHHHHHHHHHHhcCcCEE
Confidence 35577788889998888776654433 5678999999999998765332333322 23557777888888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|-+.+
T Consensus 111 iavGG 115 (395)
T PRK15454 111 IAFGG 115 (395)
T ss_pred EEeCC
Confidence 98433
No 226
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=78.18 E-value=19 Score=39.20 Aligned_cols=88 Identities=13% Similarity=0.149 Sum_probs=59.4
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|.+++.|+.+..-+- .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+|
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~--~g~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 91 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVK--CGVVAKVTDVLDAAGLAYEIYDGVKPNP----TIEVVKEGVEVFKASGADYL 91 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhh--CcchHHHHHHHHHCCCeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 45577888889999999988765543 4578899999999998754322233322 23567777788888899998
Q ss_pred EEeccC-hHHHHHHH
Q 003821 144 IILQSS-LAMGIHLF 157 (793)
Q Consensus 144 vvl~~~-~~~~~~~l 157 (793)
|-+.+. .-++.+.+
T Consensus 92 IaiGGGS~iD~aK~i 106 (382)
T PRK10624 92 IAIGGGSPQDTCKAI 106 (382)
T ss_pred EEeCChHHHHHHHHH
Confidence 863442 23444433
No 227
>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=77.49 E-value=51 Score=33.14 Aligned_cols=126 Identities=14% Similarity=0.155 Sum_probs=80.4
Q ss_pred HHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh--cCceEEEEEEEcCC-CccccccHHHH
Q 003821 22 VADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS--YNWRKVIIIYEDDA-TNADTGNLALL 98 (793)
Q Consensus 22 va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~--~~w~~vaii~~dd~-~G~~~~~~~~l 98 (793)
....+...++|++..... .+. ....+ .+..++..-+..+++.+.. .|-+++++|....+ .+ ..-.+.+
T Consensus 68 ~~~~~~~~~~PvV~i~~~--~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~--~~R~~gf 138 (247)
T cd06276 68 YFLLKKIPKEKLLILDHS--IPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIP--KEIKRGF 138 (247)
T ss_pred HHHHhccCCCCEEEEcCc--CCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhH--HHHHHHH
Confidence 344556678999987654 221 11233 3556777777788888888 89999999976543 33 5667888
Q ss_pred HHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 99 SEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 99 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
++.+++.|++... .. .. .. .. + ..+++|+. .+...+..+++.+++.|+.-|+-+=+++
T Consensus 139 ~~~l~~~g~~~~~---~~-~~------~~--~~---~--~~~~ai~~--~~d~~A~g~~~~l~~~g~~iP~disvig 196 (247)
T cd06276 139 ERFCKDYNIETEI---IN-DY------EN--RE---I--EKGDLYII--LSDTDLVFLIKKARESGLLLGKDIGIIS 196 (247)
T ss_pred HHHHHHcCCCccc---cc-cc------ch--hh---c--cCCcEEEE--eCHHHHHHHHHHHHHcCCcCCceeEEEE
Confidence 9999999986431 11 00 00 00 1 13466554 7778888899999999997664443333
No 228
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=77.46 E-value=11 Score=41.44 Aligned_cols=79 Identities=6% Similarity=0.088 Sum_probs=56.7
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
.+.+.+.++.+|.+++.||++..... .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+...++.++|+|
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~--~g~~~~v~~~L~~~gi~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~I 84 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQ--LPPVKVVLDSLEAAGINFEVYDDVRVEP----TDESFKDAIAFAKKGQFDAF 84 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhh--cchHHHHHHHHHHcCCcEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 35567788889999999998876553 4567999999999998765332333332 23567777788888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|-+.+
T Consensus 85 IaiGG 89 (414)
T cd08190 85 VAVGG 89 (414)
T ss_pred EEeCC
Confidence 88433
No 229
>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=77.23 E-value=20 Score=38.76 Aligned_cols=90 Identities=12% Similarity=0.070 Sum_probs=61.3
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
.+.+.+.++.++.+++.||++...+- ....+.+.+.|++.|+++.....+.+.. +.+++.+.+..+++.++|+|
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~I 84 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVK--TGVLDKVIDSLKEAGIEVVIFDGVEPNP----TLSNVDAAVAAYREEGCDGV 84 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcCCeEEEECCCCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 35677778888999999998876542 3678899999999888754332333322 34567888888888899999
Q ss_pred EEeccC-hHHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFRE 159 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~~ 159 (793)
|.+.+. .-++.+++..
T Consensus 85 iaiGGGs~~D~AK~va~ 101 (370)
T cd08551 85 IAVGGGSVLDTAKAIAL 101 (370)
T ss_pred EEeCCchHHHHHHHHHH
Confidence 874442 3344444433
No 230
>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=76.31 E-value=65 Score=33.00 Aligned_cols=135 Identities=10% Similarity=0.046 Sum_probs=71.8
Q ss_pred HhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhc--CceEEEEEEEcCC-CccccccHHHHHH
Q 003821 24 DIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSY--NWRKVIIIYEDDA-TNADTGNLALLSE 100 (793)
Q Consensus 24 ~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~--~w~~vaii~~dd~-~G~~~~~~~~l~~ 100 (793)
..+...++|+|..... ...-....-..+-.+..++...+..++++|... |-++++++...+. .. ..-.++++.
T Consensus 75 ~~~~~~~iPvV~~d~~--~~~~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~--~~r~~~~~~ 150 (280)
T cd06315 75 ELAQKAGIPVVGWHAG--PEPGPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIA--KAKANAMKE 150 (280)
T ss_pred HHHHHCCCCEEEecCC--CCCCcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccH--HHHHHHHHH
Confidence 3345689999988653 111000000113346677777778888888665 8999999864322 11 101245555
Q ss_pred HHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---CceEEEEeccChHHHHHHHHHHHHcCCCCC
Q 003821 101 ALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ESRVFIILQSSLAMGIHLFREAKEMGLVGP 168 (793)
Q Consensus 101 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivvl~~~~~~~~~~l~~a~~~g~~~~ 168 (793)
.++.. +..+........ . .........++++.+. .+++|+. ++...+..+++.+++.|+..+
T Consensus 151 ~~~a~~~~~~~~~~~~~~-~---~~~~~~~~~~~~~l~~~~~~~~ai~~--~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 151 IIEACKGCTVLSIEDVPI-S---RTATRMPALTARLLQRYGDKWTHSLA--INDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHhCCCCEEEEecccCc-c---hhhhhhHHHHHHHHHhcCcccceecc--cchhhhHHhHHHHHHhcccCC
Confidence 55443 333311111111 1 0111112334444332 3676554 777788889999999998654
No 231
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=74.85 E-value=12 Score=37.61 Aligned_cols=91 Identities=12% Similarity=0.156 Sum_probs=54.0
Q ss_pred HHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 66 CTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 66 ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
.+.++++.++.+++.+|.+.+.| ....+.+++.++..|+++.......... +..++.+...+++..+++++|-
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~---~~~g~~v~~~l~~~g~~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~ii~ 81 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY---KAAGEKVEESLKSAGIEVAVIEEFVGDA----DEDEVEKLVEALRPKDADLIIG 81 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH---HHHHHHHHHHHHTTT-EEEEEE-EE-------BHHHHHHHHTTS--TT--EEEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH---HHHHHHHHHHHHHcCCeEEEEecCCCCC----CHHHHHHHHHHhcccCCCEEEE
Confidence 45678888888999999999886 5567889999999999887332121111 1244556666666678888777
Q ss_pred eccChHHHHHHHHH-HHHcCC
Q 003821 146 LQSSLAMGIHLFRE-AKEMGL 165 (793)
Q Consensus 146 l~~~~~~~~~~l~~-a~~~g~ 165 (793)
.+. ..+..+.+- |.++|+
T Consensus 82 -vGg-G~i~D~~K~~A~~~~~ 100 (250)
T PF13685_consen 82 -VGG-GTIIDIAKYAAFELGI 100 (250)
T ss_dssp -EES-HHHHHHHHHHHHHHT-
T ss_pred -eCC-cHHHHHHHHHHHhcCC
Confidence 444 444444443 455665
No 232
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=74.78 E-value=25 Score=38.20 Aligned_cols=79 Identities=11% Similarity=0.148 Sum_probs=55.5
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|.+++.||++..-.- .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+|
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~--~g~~~~v~~~L~~~~i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 90 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIK--FGVADKVTDLLDEAGIAYELFDEVKPNP----TITVVKAGVAAFKASGADYL 90 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--ccchHHHHHHHHHCCCeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34567788889999999998765432 3478899999999998754322233222 23567777778888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|.+.+
T Consensus 91 iaiGG 95 (379)
T TIGR02638 91 IAIGG 95 (379)
T ss_pred EEeCC
Confidence 97444
No 233
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=74.46 E-value=21 Score=38.77 Aligned_cols=77 Identities=10% Similarity=0.125 Sum_probs=55.1
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.++.+++.||++..-.. .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+||
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~--~~~~~~v~~~L~~~~~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~II 88 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILK--AGLIDPLLASLEAAGIEVTVFDDVEADP----PEAVVEAAVEAARAAGADGVI 88 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcCCeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEEE
Confidence 4567778888999999988765433 4468899999999998764332333332 335677888888888999998
Q ss_pred Eec
Q 003821 145 ILQ 147 (793)
Q Consensus 145 vl~ 147 (793)
-+.
T Consensus 89 aiG 91 (376)
T cd08193 89 GFG 91 (376)
T ss_pred EeC
Confidence 833
No 234
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=74.45 E-value=18 Score=37.55 Aligned_cols=115 Identities=14% Similarity=0.161 Sum_probs=75.1
Q ss_pred ccCCCCCCChHHhhhCCCcccccCc-h----H-HHHHHHhhcCCCCc---cccccCC-HHHHHHHhhcCceEEEEechhh
Q 003821 540 QRLKPNVTDIGWLKASNLNVGFDGD-S----F-VRNYLENVLGFKPE---NILKVDH-EYKYITDFESNRIAAAFLELSY 609 (793)
Q Consensus 540 ~~~~~~i~sl~dL~~~~~~~g~~~~-~----~-~~~~l~~~~~~~~~---~~~~~~~-~~~~~~~l~~g~~~a~~~~~~~ 609 (793)
-+..++|++++||+ |.+++...- | . -..++.+..+.+.. .-..+.. -+..+..|.+|++|+.......
T Consensus 130 ~~~ds~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~ 207 (299)
T COG3221 130 VRADSPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSA 207 (299)
T ss_pred EeCCCCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHH
Confidence 45566899999999 888887322 1 1 12233333221111 1123333 6788899999999988876655
Q ss_pred HHHHHhccC----CceEEeCccccccceEEEecCCCc--ChHHHHHHHHhhhc
Q 003821 610 ERAFLSQHC----KEYTATIPTYRFGGFAFVFQKGSP--LAADFSEAILKLSE 656 (793)
Q Consensus 610 ~~~~~~~~c----~~~~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e 656 (793)
......... +.+.++...-...+..++++++-| +++.+..+++.+.+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 555444432 346776655555567788988855 99999999999987
No 235
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=73.36 E-value=90 Score=30.07 Aligned_cols=132 Identities=10% Similarity=-0.014 Sum_probs=84.8
Q ss_pred hHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCe----------EEEecCChHHHHHHHHHHHhhcCceEEEEEEEcC
Q 003821 18 AATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPF----------LVRMANSSAEQITCTAALVGSYNWRKVIIIYEDD 86 (793)
Q Consensus 18 ~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~----------~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd 86 (793)
.+...|..+...++=+|.|+++ +.++.. .+|.- =..+.. -+.|.++-++.++.+++.++..-
T Consensus 55 ~t~~aAl~Lada~vdvI~Y~Ct--sgS~i~G~~~d~ei~~~ie~~~~v~vvT----ts~Avv~aL~al~a~ri~vlTPY- 127 (238)
T COG3473 55 YTERAALELADAGVDVIVYGCT--SGSLIGGPGYDKEIAQRIEEAKGVPVVT----TSTAVVEALNALGAQRISVLTPY- 127 (238)
T ss_pred HHHHHHHhcCccccCEEEEecc--ceeeecCCchhHHHHHHHHhccCCceee----chHHHHHHHHhhCcceEEEeccc-
Confidence 4566777888899999999999 666532 22210 001111 24677888999999999999654
Q ss_pred CCccccccHHHHHHHHHhcCceeeEEeecCCCCC---CCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHH
Q 003821 87 ATNADTGNLALLSEALQISNSEIEYRLVLPPISY---LTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 87 ~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~---~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
- .+.-+...+.++++|++|+....+.-.+. ...+-....+..+++..-++|.+++ .|..-....++....
T Consensus 128 --~--~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFi-SCTnlRt~eii~~lE 200 (238)
T COG3473 128 --I--DEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFI-SCTNLRTFEIIEKLE 200 (238)
T ss_pred --h--hhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEE-EeeccccHHHHHHHH
Confidence 3 45577888899999999987654432210 0111123455666677778999998 676555555555444
No 236
>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=73.00 E-value=10 Score=38.27 Aligned_cols=79 Identities=11% Similarity=-0.002 Sum_probs=57.5
Q ss_pred EEEEEEcC--CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYEDD--ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~dd--~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+. .|. ......+++++++.|.++... .....+ .......++++.+.++|.||+....++....+
T Consensus 1 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g~~~~~~-~~~~~d-----~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~ 72 (257)
T PF13407_consen 1 IGVIVPSMDNPFW--QQVIKGAKAAAKELGYEVEIV-FDAQND-----PEEQIEQIEQAISQGVDGIIVSPVDPDSLAPF 72 (257)
T ss_dssp EEEEESSSSSHHH--HHHHHHHHHHHHHHTCEEEEE-EESTTT-----HHHHHHHHHHHHHTTESEEEEESSSTTTTHHH
T ss_pred cEEEeCCCCCHHH--HHHHHHHHHHHHHcCCEEEEe-CCCCCC-----HHHHHHHHHHHHHhcCCEEEecCCCHHHHHHH
Confidence 45565543 366 778899999999999987654 122221 24566778888888999999845666778899
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|+
T Consensus 73 l~~~~~~gI 81 (257)
T PF13407_consen 73 LEKAKAAGI 81 (257)
T ss_dssp HHHHHHTTS
T ss_pred HHHHhhcCc
Confidence 999999988
No 237
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=72.68 E-value=21 Score=35.10 Aligned_cols=70 Identities=16% Similarity=0.030 Sum_probs=40.9
Q ss_pred cCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeC-ccccccceEEEecCCCcChHHHHHHHHhhhc
Q 003821 585 VDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATI-PTYRFGGFAFVFQKGSPLAADFSEAILKLSE 656 (793)
Q Consensus 585 ~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~-~~~~~~~~~~~~~k~spl~~~in~~i~~l~e 656 (793)
..+..+..+.+.+|++++.+......... ...+. ..... +......+++++.|+++-.+.-.++|.-|..
T Consensus 135 ~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~~-~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s 205 (216)
T TIGR01256 135 GEDVRQALQFVETGNAPAGIVALSDVIPS-KKVGS-VATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKS 205 (216)
T ss_pred cCcHHHHHHHHHcCCCCEEeeehhhhccc-CCccE-EEEeCccccCCccccEEEEECCCChHHHHHHHHHHcC
Confidence 34667788899999999887643322111 12222 22222 2222335789999998876666666655544
No 238
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=72.14 E-value=8.8 Score=46.54 Aligned_cols=53 Identities=6% Similarity=0.269 Sum_probs=46.5
Q ss_pred chhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHHHHHhhhheeeee
Q 003821 487 IGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTV 539 (793)
Q Consensus 487 ~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~ 539 (793)
...++|+++.++...| ++ .|.+...|++.++|+++++.+.++..+++++++..
T Consensus 251 Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 251 YISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4558999999999888 66 57999999999999999999999999999998754
No 239
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=71.89 E-value=26 Score=37.96 Aligned_cols=79 Identities=14% Similarity=0.128 Sum_probs=56.1
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.++++.++.+++.||++...+. .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+|
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~--~g~~~~v~~~L~~~gi~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 84 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVK--LGLVDKLTDSLKKEGIESAIFDDVVSEP----TDESVEEGVKLAKEGGCDVI 84 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--cchHHHHHHHHHHCCCeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34556777777889999998665543 4578889999999998765333344333 23567788888888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|-+.+
T Consensus 85 IaiGG 89 (375)
T cd08194 85 IALGG 89 (375)
T ss_pred EEeCC
Confidence 87343
No 240
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=71.79 E-value=53 Score=33.76 Aligned_cols=121 Identities=22% Similarity=0.258 Sum_probs=71.0
Q ss_pred CCCChHHhh----h--CCCcccccC-ch---HHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHH
Q 003821 545 NVTDIGWLK----A--SNLNVGFDG-DS---FVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFL 614 (793)
Q Consensus 545 ~i~sl~dL~----~--~~~~~g~~~-~~---~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 614 (793)
+++|++||. + .++++|+.. ++ .....+.+..+.+ .+...|..-.+.+.++..|++|+.+.......-++
T Consensus 89 p~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allgG~vd~~~~~~~~~~~~~ 167 (274)
T PF03401_consen 89 PYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLGGHVDAAFGSPGEALPYV 167 (274)
T ss_dssp S-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHTTSSSEEEEEHHHHHHHH
T ss_pred ccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhCCeeeEEeecHHHHHHHH
Confidence 589999984 2 347777743 22 2223445554443 35568999999999999999999887654444333
Q ss_pred hc-cCCceEEeC----------ccc---------cccceEEEecCCCc--ChHHHHHHHHhhhccCchHHHHHH
Q 003821 615 SQ-HCKEYTATI----------PTY---------RFGGFAFVFQKGSP--LAADFSEAILKLSENGELRSLEEK 666 (793)
Q Consensus 615 ~~-~c~~~~~~~----------~~~---------~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~~ 666 (793)
+. .-+-+.+.+ +.+ .....++++|||-| .++.+..++.+..++-.+++..++
T Consensus 168 ~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 168 EAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred hCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 22 100011110 011 12244889999977 999999999999988776655544
No 241
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=70.30 E-value=39 Score=36.72 Aligned_cols=87 Identities=13% Similarity=0.042 Sum_probs=58.1
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCC-ccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDAT-NADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~-G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
..+.+.++.+| +++.||++.... . .+..+.+.+.|++.|+++.....+.+.. +.+++.+.+...++.++|+|
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~--~g~~~~v~~~L~~~~~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 87 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKK--TGYLDRVIELLKQAGVEVVVFDKVEPNP----TTTTVMEGAALAREEGCDFV 87 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhh--ccHHHHHHHHHHHcCCeEEEeCCccCCC----CHHHHHHHHHHHHHcCCCEE
Confidence 45667777788 899998876542 3 5678899999999998764332343332 23567777788888899999
Q ss_pred EEeccC-hHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFR 158 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~ 158 (793)
|-+.+. .-++.+.+.
T Consensus 88 iavGGGS~iD~aK~ia 103 (380)
T cd08185 88 VGLGGGSSMDTAKAIA 103 (380)
T ss_pred EEeCCccHHHHHHHHH
Confidence 963442 334444443
No 242
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=69.45 E-value=66 Score=32.69 Aligned_cols=105 Identities=13% Similarity=0.148 Sum_probs=58.7
Q ss_pred CCChHHhhh-CCCcccc------cCchHHHHHHHhhcCC--CCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhc
Q 003821 546 VTDIGWLKA-SNLNVGF------DGDSFVRNYLENVLGF--KPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQ 616 (793)
Q Consensus 546 i~sl~dL~~-~~~~~g~------~~~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 616 (793)
+.++++|.. .+.++++ ..|.+..+.+++.--. ...++....+..+.+..+.+|+.|+.+.=...+. ...
T Consensus 124 ~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~v~~~l~~V~~G~ad~g~vy~sd~~--~~~ 201 (258)
T COG0725 124 IESLEDLLERPDVRLAIGDPKTVPAGKYAKEALELLGLWYTLKDKLVLATNVRQALAYVETGEADAGFVYVSDAL--LSK 201 (258)
T ss_pred cccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHHhchhhhccccEEecCcHHHHHHHHHcCCCCeEEEEEEhhh--ccC
Confidence 445777754 4677766 2345556655553211 2335566677889999999999987664322211 111
Q ss_pred cCCceEEeCcccc-ccceEEEecCCCcC---hHHHHHHHH
Q 003821 617 HCKEYTATIPTYR-FGGFAFVFQKGSPL---AADFSEAIL 652 (793)
Q Consensus 617 ~c~~~~~~~~~~~-~~~~~~~~~k~spl---~~~in~~i~ 652 (793)
.-..+..+.+... ...|.+++.+++.- ...|-..+.
T Consensus 202 ~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~ 241 (258)
T COG0725 202 KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLL 241 (258)
T ss_pred CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHh
Confidence 1222333333332 35688888888765 444444444
No 243
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=68.92 E-value=17 Score=39.18 Aligned_cols=89 Identities=9% Similarity=0.034 Sum_probs=63.1
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
+.+.+.++.+| |+.||++..... .+..+.+.+.|++.|+++.....+.+.. +..++.+.+..+++.++|+||
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~--~~~~~~v~~~L~~~~i~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~II 83 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSK--SGLVDRVLDALEEAGIEVQVFDGVGPNP----TLEDVDEAAEQARKFGADCII 83 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHH--HTHHHHHHHHHHHTTCEEEEEEEESSS-----BHHHHHHHHHHHHHTTSSEEE
T ss_pred HHHHHHHHhcC--CEEEEECchHHh--CccHHHHHHHHhhCceEEEEEecCCCCC----cHHHHHHHHHHHHhcCCCEEE
Confidence 45677788887 999999883333 4478999999999999886555555544 346788888999999999999
Q ss_pred EeccCh--HHHHHHHHHHHH
Q 003821 145 ILQSSL--AMGIHLFREAKE 162 (793)
Q Consensus 145 vl~~~~--~~~~~~l~~a~~ 162 (793)
. .+.. -++.+.+.....
T Consensus 84 a-iGGGS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 84 A-IGGGSVMDAAKAVALLLA 102 (366)
T ss_dssp E-EESHHHHHHHHHHHHHHT
T ss_pred E-cCCCCcCcHHHHHHhhcc
Confidence 8 4443 344455544444
No 244
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=68.57 E-value=38 Score=35.08 Aligned_cols=92 Identities=10% Similarity=0.096 Sum_probs=68.0
Q ss_pred CCCeEEEecCChHHHHHH----HHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCC
Q 003821 49 RWPFLVRMANSSAEQITC----TAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDP 124 (793)
Q Consensus 49 ~~~~~~r~~p~~~~~~~a----i~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~ 124 (793)
.-+|-|-+.|+....+.. +++-++..|.|++.+|.+.+--- ....+..++.|+++|+++...-.+.+.. +
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~--~~~~~~a~~~L~~~~I~~~vyD~v~~eP----t 112 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAK--LGLVKVAQDSLEENGINVEVYDKVQPEP----T 112 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhh--cccHHHHHHHHHHcCCceEEecCccCCC----c
Confidence 345677788887776664 34467889999999999987643 6678889999999999876443333332 2
Q ss_pred hHHHHHHHHHhhcCCceEEEEe
Q 003821 125 KQFLQEKLLKLLRTESRVFIIL 146 (793)
Q Consensus 125 ~~~~~~~l~~l~~~~~~vivvl 146 (793)
...+...|.-.|+.+.|.+|.+
T Consensus 113 v~s~~~alefak~~~fDs~vai 134 (465)
T KOG3857|consen 113 VGSVTAALEFAKKKNFDSFVAI 134 (465)
T ss_pred hhhHHHHHHHHHhcccceEEEE
Confidence 2568888888898999998873
No 245
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=67.43 E-value=38 Score=32.30 Aligned_cols=94 Identities=14% Similarity=0.116 Sum_probs=50.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCC--ccE-EeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQ--VPV-LSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~--iP~-Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~va 80 (793)
.+++.++||.+|+-+..+..++.... ++. ++++.. .|...+ .+-.|.|- +..+...+.+-=+...|..
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR--~~r~~E~~g~~y~fv----s~~~f~~~~~~~~fie~~~-- 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTR--PPRPGEVDGVDYHFV----SKEEFERMIKAGEFIEYGE-- 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS---GGTTS-TTTSEEE------HHHHHHHHHTTHEEEEEE--
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeeccc--CCcccccCCcceEEE----eechhhhhhccccEEEEee--
Confidence 46899999999998888888877643 433 333333 333322 23445442 2222233222111112222
Q ss_pred EEEEcCCCccccccHHHHHHHHHhcCceeeE
Q 003821 81 IIYEDDATNADTGNLALLSEALQISNSEIEY 111 (793)
Q Consensus 81 ii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~ 111 (793)
|.++.|| .. ...+.+.+++...++..
T Consensus 74 --~~g~~YG--t~-~~~i~~~~~~gk~~il~ 99 (183)
T PF00625_consen 74 --YDGNYYG--TS-KSAIDKVLEEGKHCILD 99 (183)
T ss_dssp --ETTEEEE--EE-HHHHHHHHHTTTEEEEE
T ss_pred --ecchhhh--hc-cchhhHhhhcCCcEEEE
Confidence 4455577 54 57778888777766543
No 246
>TIGR00035 asp_race aspartate racemase.
Probab=66.89 E-value=25 Score=35.02 Aligned_cols=42 Identities=17% Similarity=0.095 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceee
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIE 110 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~ 110 (793)
.++.++.++..+.++|+++.....- -...+++.+++.|+++.
T Consensus 105 ~~~~~~~~~~~~~~~VgvLaT~~T~-----~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 105 IEETAEAVKEDGVKKAGLLGTKGTM-----KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHHHHHHHHcCCCEEEEEecHHHH-----HhHHHHHHHHHCCCEEE
Confidence 3444455566688899999777432 23457788888887643
No 247
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=66.50 E-value=23 Score=37.64 Aligned_cols=83 Identities=12% Similarity=-0.005 Sum_probs=55.7
Q ss_pred CceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHH
Q 003821 75 NWRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAM 152 (793)
Q Consensus 75 ~w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~ 152 (793)
.-.+++++... ++|. ....+.+++++++.|.++... -+... +. ..-.+.+..+.+.+++.|++....++.
T Consensus 22 ~~~~i~~v~k~~~~pf~--~~~~~Gi~~aa~~~G~~v~~~--~~~~~---d~-~~q~~~i~~li~~~vdgIiv~~~d~~a 93 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF--TSGGNGAKEAGKELGVDVTYD--GPTEP---SV-SGQVQLINNFVNQGYNAIIVSAVSPDG 93 (336)
T ss_pred CCcEEEEEECCCCCHHH--HHHHHHHHHHHHHhCCEEEEE--CCCCC---CH-HHHHHHHHHHHHcCCCEEEEecCCHHH
Confidence 34578888764 3465 777888899999999887542 12111 11 223456777888899999884444555
Q ss_pred HHHHHHHHHHcCC
Q 003821 153 GIHLFREAKEMGL 165 (793)
Q Consensus 153 ~~~~l~~a~~~g~ 165 (793)
....+++|.+.|+
T Consensus 94 l~~~l~~a~~~gI 106 (336)
T PRK15408 94 LCPALKRAMQRGV 106 (336)
T ss_pred HHHHHHHHHHCCC
Confidence 5778899998886
No 248
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=66.50 E-value=42 Score=36.50 Aligned_cols=87 Identities=18% Similarity=0.124 Sum_probs=55.8
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.++++.+| +++.||++...+. .+..+.+.+.|++.|+++.....+.+. .+..+..+.+...++.++|+||
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~--~~~~~~v~~~L~~~~~~~~~f~~v~~~----~~~~~v~~~~~~~~~~~~D~II 84 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAG--TPVFAELVQALAAAGVEVEVFDGVLPD----LPRSELCDAASAAARAGPDVII 84 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhh--cchHHHHHHHHHHcCCeEEEECCCCCC----cCHHHHHHHHHHHHhcCCCEEE
Confidence 44667788888 8998888655443 467888999999999875432222211 1335566677777778999988
Q ss_pred EeccC-hHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFR 158 (793)
Q Consensus 145 vl~~~-~~~~~~~l~ 158 (793)
-+.+. .-++.+++.
T Consensus 85 aiGGGS~iD~aK~ia 99 (386)
T cd08191 85 GLGGGSCIDLAKIAG 99 (386)
T ss_pred EeCCchHHHHHHHHH
Confidence 73332 233444443
No 249
>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=66.40 E-value=23 Score=36.09 Aligned_cols=79 Identities=9% Similarity=0.080 Sum_probs=51.3
Q ss_pred EEEEEEE--cCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYE--DDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~--dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|+++.. ++.|. ......+++++++.|.++.... ... ++ ....+.+..+...+.|.+|+..........
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~--~~~----~~-~~~~~~l~~~~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd06305 1 RIAVVRYGGSGDFD--QAYLAGTKAEAEALGGDLRVYD--AGG----DD-AKQADQIDQAIAQKVDAIIIQHGRAEVLKP 71 (273)
T ss_pred CeEEEeecCCCcHH--HHHHHHHHHHHHHcCCEEEEEC--CCC----CH-HHHHHHHHHHHHcCCCEEEEecCChhhhHH
Confidence 3667765 34455 7788899999999999866431 111 12 334566667777789998882233344566
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++++.+.|+
T Consensus 72 ~i~~~~~~~i 81 (273)
T cd06305 72 WVKRALDAGI 81 (273)
T ss_pred HHHHHHHcCC
Confidence 7888888776
No 250
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=66.01 E-value=42 Score=36.37 Aligned_cols=79 Identities=13% Similarity=0.124 Sum_probs=54.9
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|.+++.||++....- .+..+.+.+.|++.|+++.....+.+.. +.+++.+.+...++.++|+|
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~--~~~~~~v~~~L~~~~~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~I 89 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIK--AGWVDRVIESLEEAGLEYVVFSDVSPNP----RDEEVMAGAELYLENGCDVI 89 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcCCeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 35567778888999999998765432 3467889999999888754322233222 23457777788888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|.+.+
T Consensus 90 IaiGG 94 (377)
T cd08188 90 IAVGG 94 (377)
T ss_pred EEeCC
Confidence 87444
No 251
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=64.76 E-value=35 Score=36.69 Aligned_cols=78 Identities=12% Similarity=0.108 Sum_probs=52.7
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.++++.+| +++.||++...+- ..+..+.+.+.|++.|+++.....+.+.. +.+++.+.+..+++.++|+||
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~-~~g~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~II 88 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAK-KNGSLDDVTKALEELGIEYEIFDEVEENP----SLETIMEAVEIAKKFNADFVI 88 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHh-hcCcHHHHHHHHHHcCCeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEEE
Confidence 34567778888 8988887765421 03357889999999998764332333332 335677788888889999998
Q ss_pred Eecc
Q 003821 145 ILQS 148 (793)
Q Consensus 145 vl~~ 148 (793)
.+.+
T Consensus 89 avGG 92 (357)
T cd08181 89 GIGG 92 (357)
T ss_pred EeCC
Confidence 8433
No 252
>PRK14737 gmk guanylate kinase; Provisional
Probab=63.58 E-value=73 Score=30.50 Aligned_cols=95 Identities=16% Similarity=0.190 Sum_probs=50.7
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCC-CccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRA-QVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVII 81 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~-~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vai 81 (793)
...+++|+||.+++=+..+..++... ++ ..+.+.|.-.|...+ .+-.|.|-. ..+...+.+-=....|..
T Consensus 3 ~~~~ivl~GpsG~GK~tl~~~l~~~~~~~-~~~v~~TTR~~r~gE~~G~dY~fvs----~~~F~~~i~~~~f~e~~~--- 74 (186)
T PRK14737 3 SPKLFIISSVAGGGKSTIIQALLEEHPDF-LFSISCTTRAPRPGDEEGKTYFFLT----IEEFKKGIADGEFLEWAE--- 74 (186)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHhcCCcc-ccccCccCCCCCCCCCCCceeEeCC----HHHHHHHHHcCCeEEEEE---
Confidence 34688999999999888888888765 22 222222211333322 344565532 223333222111122333
Q ss_pred EEEcCCCccccccHHHHHHHHHhcCceee
Q 003821 82 IYEDDATNADTGNLALLSEALQISNSEIE 110 (793)
Q Consensus 82 i~~dd~~G~~~~~~~~l~~~l~~~g~~v~ 110 (793)
|..+.|| .. .+.++..+++..++|.
T Consensus 75 -~~g~~YG--t~-~~~i~~~~~~g~~~i~ 99 (186)
T PRK14737 75 -VHDNYYG--TP-KAFIEDAFKEGRSAIM 99 (186)
T ss_pred -ECCeeec--Cc-HHHHHHHHHcCCeEEE
Confidence 3355687 54 5567777776666654
No 253
>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=62.20 E-value=26 Score=37.58 Aligned_cols=73 Identities=11% Similarity=0.083 Sum_probs=51.6
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.++ +++.||++...+ ....+.+.+.|++.|+.+.+. .+.+.. +.+++.+.++..++.++|+||
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~---~~~~~~v~~~L~~~~i~~~~~-~~~~~p----~~~~v~~~~~~~~~~~~D~II 82 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL---DLVGAKIEESLAAAGIDARFE-VFGGEC----TRAEIERLAEIARDNGADVVI 82 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHHhCCCeEEEE-EeCCcC----CHHHHHHHHHHHhhcCCCEEE
Confidence 44666777776 898888854433 457888899999999886533 344433 335677777888888999988
Q ss_pred Ee
Q 003821 145 IL 146 (793)
Q Consensus 145 vl 146 (793)
.+
T Consensus 83 av 84 (351)
T cd08170 83 GI 84 (351)
T ss_pred Ee
Confidence 73
No 254
>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=61.92 E-value=58 Score=33.11 Aligned_cols=83 Identities=19% Similarity=0.130 Sum_probs=53.5
Q ss_pred EEEEEEEcC----CCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 78 KVIIIYEDD----ATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 78 ~vaii~~dd----~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
+|+++++.. .|. ....+.+++..++.|+++......+ . ..++.+.++++.+.+.++||. ......
T Consensus 1 kva~l~~g~~~D~~~n--~~~~~G~~~~~~~~gv~~~~~e~~~-~------~~~~~~~i~~~~~~g~dlIi~--~g~~~~ 69 (258)
T cd06353 1 KVAFVYVGPIGDQGWN--YAHDEGRKAAEKALGVEVTYVENVP-E------GADAERVLRELAAQGYDLIFG--TSFGFM 69 (258)
T ss_pred CEEEEEeCCCCccchh--HHHHHHHHHHHHhcCCeEEEEecCC-c------hHhHHHHHHHHHHcCCCEEEE--Cchhhh
Confidence 478888632 243 4556777777777888877664432 1 256888899988889998776 444455
Q ss_pred HHHHHHHHHcCCCCCCeEEEEe
Q 003821 154 IHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 154 ~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
..+.+.|.+. |+-.|+..
T Consensus 70 ~~~~~vA~~~----p~~~F~~~ 87 (258)
T cd06353 70 DAALKVAKEY----PDVKFEHC 87 (258)
T ss_pred HHHHHHHHHC----CCCEEEEC
Confidence 5556666665 34455554
No 255
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=61.67 E-value=47 Score=35.97 Aligned_cols=79 Identities=10% Similarity=0.156 Sum_probs=54.7
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
...+.+.++.+|-+++.||++....- .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+...++.++|+|
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~~~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~I 89 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVK--IGVVEKVTDVLDEAGIDYVIYDGVKPNP----TITNVKDGLAVFKKEGCDFI 89 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhh--cCcHHHHHHHHHHcCCeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 34567778888888988887665432 3678899999999898754332233322 23557777788888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|-+.+
T Consensus 90 IavGG 94 (377)
T cd08176 90 ISIGG 94 (377)
T ss_pred EEeCC
Confidence 97344
No 256
>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=61.54 E-value=19 Score=38.19 Aligned_cols=69 Identities=14% Similarity=0.117 Sum_probs=47.3
Q ss_pred CCChHHhhhCCCcccccCchHHHHHHHhhc---CCCCcccc-ccCCHHHHHHHhhcCceEEEEechhhHHHHHhc
Q 003821 546 VTDIGWLKASNLNVGFDGDSFVRNYLENVL---GFKPENIL-KVDHEYKYITDFESNRIAAAFLELSYERAFLSQ 616 (793)
Q Consensus 546 i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~---~~~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 616 (793)
|+|++||+ |++||+..++..+.++.+.. +.....+. ...+..+...++.+|++||.+.-.++......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 89999999 99999987776554444422 23222222 123457788999999999999877776544443
No 257
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=61.09 E-value=52 Score=31.76 Aligned_cols=111 Identities=14% Similarity=0.137 Sum_probs=69.3
Q ss_pred eeeccCCCCCCChHHhhhCCCcccc-cCchHHHHHHHhhc---CCCCccccc----cCCHHHHHHHhhcCceEEEEechh
Q 003821 537 LTVQRLKPNVTDIGWLKASNLNVGF-DGDSFVRNYLENVL---GFKPENILK----VDHEYKYITDFESNRIAAAFLELS 608 (793)
Q Consensus 537 Lt~~~~~~~i~sl~dL~~~~~~~g~-~~~~~~~~~l~~~~---~~~~~~~~~----~~~~~~~~~~l~~g~~~a~~~~~~ 608 (793)
+..+.....|++++||.+.++++.- ..++-.+.+|.... +.....+.. ..+..+....+..|..|+-+....
T Consensus 74 ~v~~~np~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~AD~G~g~~~ 153 (193)
T PF12727_consen 74 IVRPGNPKGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGKADAGIGIRA 153 (193)
T ss_pred EEeCCCCccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCCCCEEeehHH
Confidence 3334434479999999877888866 56776666665543 233333433 355678889999999999987655
Q ss_pred hHHHHHhccCCceEEeCccccccceEEEecCCCcChHHHHHHHHhh
Q 003821 609 YERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKL 654 (793)
Q Consensus 609 ~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l 654 (793)
.+.-+.. -+ +.- +....|-+++++..-..+.+.+.|.-|
T Consensus 154 ~A~~~~g--L~-Fvp----l~~E~~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 154 AAEEFYG--LD-FVP----LAEERYDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred HHHhhcC--CC-cEE----ccccceEEEEEhhHcCCHHHHHHHHHh
Confidence 4431111 11 221 233567789998876666666665443
No 258
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=60.88 E-value=8.8 Score=37.85 Aligned_cols=88 Identities=17% Similarity=0.151 Sum_probs=43.6
Q ss_pred CCcccccCchHHHHHHHhhcCCCCcccccc-CCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeC--c---ccc
Q 003821 556 NLNVGFDGDSFVRNYLENVLGFKPENILKV-DHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATI--P---TYR 629 (793)
Q Consensus 556 ~~~~g~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~--~---~~~ 629 (793)
|.++|+...|.-+..+.+.. +...++.-+ .+-.+.++.+.+|.+||.+....... .++-+ +.... . ...
T Consensus 114 GmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei~Y~q~~~~l~~g~IDA~IWN~d~i~---~~~~~-l~~~~l~~~~~~~~ 188 (232)
T PF14503_consen 114 GMRVGIDPSSIDQKILTEAE-FEGKNVEFVEIPYNQLLELLRSGEIDAAIWNYDEIE---DKNFG-LKYVPLKDDPMSKD 188 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHH-HTTS--EEEE--HHHHHHHHHHTS--EEEEE--HHC---CHHCT-EEEEE--SSCHHHH
T ss_pred eeEeecCCCCccHHHHHHHH-hCCCceEEEEecHHHHHHHHHCCCccEEEECCcccc---cccCC-eeEEeCCchHHHHh
Confidence 89999999997777776653 334443322 34578999999999999999765211 11111 22211 1 112
Q ss_pred ccceEEEecCCCc-ChHHHH
Q 003821 630 FGGFAFVFQKGSP-LAADFS 648 (793)
Q Consensus 630 ~~~~~~~~~k~sp-l~~~in 648 (793)
...-.++++|+.+ +...++
T Consensus 189 ~seAVivi~~~~~~i~~ll~ 208 (232)
T PF14503_consen 189 ASEAVIVIRKDNEPIKALLR 208 (232)
T ss_dssp TT-EEEEEETT-HHHHHHHH
T ss_pred cCeeEEEEeCCCHHHHHHHH
Confidence 3345788889886 443333
No 259
>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=60.69 E-value=27 Score=35.47 Aligned_cols=79 Identities=11% Similarity=0.137 Sum_probs=51.9
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHh-cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQI-SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+|++|..+ +.|. ..+...+.+++++ .|.++..... ..+ .....+.+..+.+.+.|.+|+.....+...
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~~~~~~~~~~~--~~~-----~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFL--TLLRNAMKEHAKVLGGVELQFEDA--KND-----VATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHH--HHHHHHHHHHHHHcCCcEEEEeCC--CCC-----HHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 46777765 4465 7888889999999 8887664311 111 134556777777778999888333333345
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
.++.++.+.|+
T Consensus 72 ~~~~~l~~~~i 82 (272)
T cd06301 72 PIVKAANAAGI 82 (272)
T ss_pred HHHHHHHHCCC
Confidence 67788777776
No 260
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins []. This domain is found in members of the LysR family of prokaryotic transcriptional regulatory proteins IPR000847 from INTERPRO which share sequence similarities over approximately 280 residues including a putative helix-turn-helix DNA-binding motif at their N terminus.; PDB: 3ONM_B 3FZJ_J 3FXR_B 3N6T_A 3FXQ_A 3FXU_A 3N6U_A 2QSX_B 3HO7_B 1IZ1_B ....
Probab=60.61 E-value=98 Score=29.29 Aligned_cols=105 Identities=18% Similarity=0.145 Sum_probs=59.9
Q ss_pred CChHHhhhCCCcccccC-chHHHHH----HHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCce
Q 003821 547 TDIGWLKASNLNVGFDG-DSFVRNY----LENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEY 621 (793)
Q Consensus 547 ~sl~dL~~~~~~~g~~~-~~~~~~~----l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~ 621 (793)
-+++||. +.++.... +...... +.+. +.........++.......+.+|..-+++-+.....+....... .
T Consensus 96 i~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~g~gi~~~p~~~~~~~~~~~~l~-~ 171 (209)
T PF03466_consen 96 ITLEDLA--DYPLILLSPGSPYRDQLDRWLREH-GFSPNIVIEVDSFESILSLVASGDGIAILPDSLAQDELESGELV-F 171 (209)
T ss_dssp SSGGGGT--TSEEEEESTTTSHHHHHHHHHHHT-TEEEEEEEEESSHHHHHHHHHTTSEBEEEEHHHHHHHHHCTTEE-E
T ss_pred chhhhhh--hccccccccccccccccccccccc-cccccccccccchhhhccccccccceeecCcccccccccCCCEE-E
Confidence 3889998 55555422 2222332 3322 23333345678889999999999766665554333333222221 1
Q ss_pred EEeCc-cccccceEEEecCCCcChHHHHHHHHhhhc
Q 003821 622 TATIP-TYRFGGFAFVFQKGSPLAADFSEAILKLSE 656 (793)
Q Consensus 622 ~~~~~-~~~~~~~~~~~~k~spl~~~in~~i~~l~e 656 (793)
..+.+ .+. ..+.++.+++.+..+.+...+..+.+
T Consensus 172 ~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 172 LPLPDPPLP-RPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp EEESSSTEE-EEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred EECCCCCCc-eEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 22333 343 67888999988777777776666554
No 261
>PRK10537 voltage-gated potassium channel; Provisional
Probab=60.50 E-value=18 Score=39.18 Aligned_cols=55 Identities=13% Similarity=0.168 Sum_probs=42.2
Q ss_pred CccccchhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHHHHHhhhhee
Q 003821 482 PWNIQIGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNSSYTASLSSM 536 (793)
Q Consensus 482 ~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~ 536 (793)
+...++.+++|+++.++...| ++ .|.+..+|++.+++.++++.+..+..+.+...
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p 220 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGP 220 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334579999999999888777 44 47888999999999999987666555555443
No 262
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=60.40 E-value=7.6 Score=34.75 Aligned_cols=25 Identities=24% Similarity=0.335 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcc
Q 003821 696 LFLISGTTSTICALVFLVRNYTSRQ 720 (793)
Q Consensus 696 ~f~il~~g~~ls~lvf~~E~~~~~~ 720 (793)
+|++++++++|.++++++...||+|
T Consensus 4 l~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444444444444444444444443
No 263
>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=60.29 E-value=31 Score=35.11 Aligned_cols=80 Identities=14% Similarity=0.084 Sum_probs=51.5
Q ss_pred EEEEEEEc---CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 78 KVIIIYED---DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 78 ~vaii~~d---d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+|++|..+ +.|. ....+.+++++++.|..+... ..... +. ......+.++...+.|.+|+.....+...
T Consensus 1 ~i~~i~~~~~~~~~~--~~~~~g~~~~~~~~g~~v~~~--~~~~~---~~-~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (271)
T cd06312 1 KIAFVTHGPAGDPFW--TVVKNGAEDAAKDLGVDVEYR--GPETF---DV-ADMARLIEAAIAAKPDGIVVTIPDPDALD 72 (271)
T ss_pred CEEEecCCCCCCcHH--HHHHHHHHHHHHHhCCEEEEE--CCCCC---CH-HHHHHHHHHHHHhCCCEEEEeCCChHHhH
Confidence 46777754 3465 788899999999999886533 11110 11 33456677777788999888333333345
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.|+
T Consensus 73 ~~l~~~~~~~i 83 (271)
T cd06312 73 PAIKRAVAAGI 83 (271)
T ss_pred HHHHHHHHCCC
Confidence 56777777665
No 264
>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=59.62 E-value=58 Score=35.37 Aligned_cols=77 Identities=12% Similarity=0.154 Sum_probs=52.6
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCC-ccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDAT-NADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~-G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
+.+.+.++.++ +|+.||.+...+ . .+..+.+.+.|++.|+++.....+.+.. +.+++.+.+...++.++|+|
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~--~~~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 90 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKK--NGLYDRVIASLKEAGIEVVELGGVEPNP----RLETVREGIELCKEEKVDFI 90 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHh--cCcHHHHHHHHHHcCCeEEEECCccCCC----CHHHHHHHHHHHHHcCCCEE
Confidence 45667777775 898888775432 2 3467889999999998765332333332 23567778888888899999
Q ss_pred EEecc
Q 003821 144 IILQS 148 (793)
Q Consensus 144 vvl~~ 148 (793)
|-+.+
T Consensus 91 IaiGG 95 (382)
T cd08187 91 LAVGG 95 (382)
T ss_pred EEeCC
Confidence 87343
No 265
>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=59.03 E-value=1.1e+02 Score=28.85 Aligned_cols=97 Identities=4% Similarity=-0.068 Sum_probs=60.0
Q ss_pred HHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhc--CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 003821 62 EQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQIS--NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE 139 (793)
Q Consensus 62 ~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 139 (793)
+....+.+.+..-++ ++.++-.+.+ .++.+.+.+++. |+.++... ++.- ...+....+..|.+++
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~------~~~~~~~~l~~~yP~l~ivg~~--~g~f----~~~~~~~i~~~I~~~~ 101 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE------VLEKAAANLRRRYPGLRIVGYH--HGYF----DEEEEEAIINRINASG 101 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH------HHHHHHHHHHHHCCCeEEEEec--CCCC----ChhhHHHHHHHHHHcC
Confidence 356667776666665 7777776644 356666666665 56655432 2211 1245677888899999
Q ss_pred ceEEEEeccChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 140 SRVFIILQSSLAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 140 ~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+|++++ ....+.-..++.+.++..- .+ +|+..
T Consensus 102 pdiv~v-glG~PkQE~~~~~~~~~l~-~~--v~i~v 133 (172)
T PF03808_consen 102 PDIVFV-GLGAPKQERWIARHRQRLP-AG--VIIGV 133 (172)
T ss_pred CCEEEE-ECCCCHHHHHHHHHHHHCC-CC--EEEEE
Confidence 999998 6666555566655554322 22 56665
No 266
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=58.42 E-value=36 Score=34.85 Aligned_cols=71 Identities=10% Similarity=0.097 Sum_probs=46.1
Q ss_pred CCCCCChHHhhhCCCcccccCchHHHH----HHHhhcCCCCcccc-ccCCHHHHHHHhhcCceEEEEechhhHHHHHhc
Q 003821 543 KPNVTDIGWLKASNLNVGFDGDSFVRN----YLENVLGFKPENIL-KVDHEYKYITDFESNRIAAAFLELSYERAFLSQ 616 (793)
Q Consensus 543 ~~~i~sl~dL~~~~~~~g~~~~~~~~~----~l~~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 616 (793)
.++|++++||. |.++|+..++.... ++... +.+...+. .+.+..+...++++|++|+++...++......+
T Consensus 90 ~~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~-G~~~~~v~~~~~~~~~~~~al~~g~vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 90 GSPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKA-GLSGDDVTILYLGPSDARAAFAAGQVDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHc-CCCccceeEEecCcHHHHHHHHCCCCCEEEeccchHhHHhhc
Confidence 45799999998 78898855543333 33322 33322222 234567888999999999999877776655443
No 267
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=58.41 E-value=18 Score=34.39 Aligned_cols=29 Identities=21% Similarity=0.356 Sum_probs=26.9
Q ss_pred EEEEcCCChhhHHHHHHhccCCCccEEee
Q 003821 8 KVIVGMETWGAATMVADIGSRAQVPVLSF 36 (793)
Q Consensus 8 ~aiiGp~~s~~~~~va~i~~~~~iP~Is~ 36 (793)
+.|+||.+|+=+..+..+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 68999999999999999999999999984
No 268
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. 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=57.87 E-value=37 Score=36.32 Aligned_cols=86 Identities=14% Similarity=0.103 Sum_probs=54.6
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
.-+.+.++.++ +|+.+|++...+ ....+.+.+.+++.|+++.....+.+.. +.+.+.+.....++.++|+||
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~---~~~~~~v~~~l~~~~~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ii 83 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL---AAAKDKIKAALEQSGIEITDFIWYGGES----TYENVERLKKNPAVQEADMIF 83 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH---HHHHHHHHHHHHHCCCeEEEEEecCCCC----CHHHHHHHHHHHhhcCCCEEE
Confidence 44666777777 888888776543 3457788889988898765433444332 335566666777777999988
Q ss_pred EeccC-hHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFR 158 (793)
Q Consensus 145 vl~~~-~~~~~~~l~ 158 (793)
-+.+. .-++.+++.
T Consensus 84 avGGGs~~D~aK~ia 98 (345)
T cd08171 84 AVGGGKAIDTVKVLA 98 (345)
T ss_pred EeCCcHHHHHHHHHH
Confidence 73332 233444443
No 269
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=57.15 E-value=37 Score=33.14 Aligned_cols=85 Identities=14% Similarity=0.102 Sum_probs=50.7
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC-CceE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT-ESRV 142 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~v 142 (793)
.++.++-+++-|.++|+++..... -...-.++.|+++|++++. | .+ +-...+.++.-. -.+-
T Consensus 105 idaTa~~ik~~g~kkvgLLgT~~T-----m~~~fY~~~l~~~gievvv----P-dd-------~~q~~v~~iIy~El~~G 167 (230)
T COG1794 105 IDATAKAIKAAGAKKVGLLGTRFT-----MEQGFYRKRLEEKGIEVVV----P-DD-------DEQAEVNRIIYEELCQG 167 (230)
T ss_pred HHHHHHHHHhcCCceeEEeeccch-----HHhHHHHHHHHHCCceEec----C-CH-------HHHHHHHHHHHHHHhcc
Confidence 445555677789999999988643 2244567889999987542 2 22 223333333221 1111
Q ss_pred EEEeccChHHHHHHHHHHHHcCCC
Q 003821 143 FIILQSSLAMGIHLFREAKEMGLV 166 (793)
Q Consensus 143 ivvl~~~~~~~~~~l~~a~~~g~~ 166 (793)
.+. ..+.+....+++.+.+.|-.
T Consensus 168 ~~~-~~sr~~~~~ii~~l~~~Gae 190 (230)
T COG1794 168 IVK-DASRELYLAVIERLAERGAE 190 (230)
T ss_pred cch-HHHHHHHHHHHHHHHHcCCC
Confidence 233 45667777788888887653
No 270
>TIGR00363 lipoprotein, YaeC family. This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family.
Probab=56.59 E-value=75 Score=32.28 Aligned_cols=124 Identities=9% Similarity=0.080 Sum_probs=66.1
Q ss_pred CCCCCCChHHhhhCCCcccccCchHHHH----HHHhhcCC------------------CCccccc-cCCHHHHHHHhhcC
Q 003821 542 LKPNVTDIGWLKASNLNVGFDGDSFVRN----YLENVLGF------------------KPENILK-VDHEYKYITDFESN 598 (793)
Q Consensus 542 ~~~~i~sl~dL~~~~~~~g~~~~~~~~~----~l~~~~~~------------------~~~~~~~-~~~~~~~~~~l~~g 598 (793)
+...|+|++||.+ |.+|++..+..... .|++. +. .+..+.. -....+...++.+|
T Consensus 104 ys~~~~sl~dlk~-G~~IAip~d~~n~~raL~~L~~a-GLi~l~~~~~~~~t~~DI~~n~~~v~~vel~~~~~~~al~~g 181 (258)
T TIGR00363 104 YSKKIKNVNELQD-GAKVAVPNDPTNLGRALLLLQKQ-GLIKLKDGNGLLPTVLDIVENPKKLNITELETSQLPRALDDP 181 (258)
T ss_pred cCcCCCCHHHcCC-CCEEEEeCCcchHHHHHHHHHHc-CCceecCCCCCcCChhhhhcCCCCCEEEEcCHHHHHHHhhcc
Confidence 4568999999953 88998865432222 23332 11 0222221 13445677889999
Q ss_pred ceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHH
Q 003821 599 RIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKW 667 (793)
Q Consensus 599 ~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w 667 (793)
++|+++...+++.-.--..-+.-......-...-..++++++.-=.+.+...+..++..-.-+.+.++|
T Consensus 182 ~vDaa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 182 KVDLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred cccEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999999877665432111111011111111111234566665445567777777777665555555553
No 271
>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=56.56 E-value=15 Score=36.05 Aligned_cols=60 Identities=18% Similarity=0.231 Sum_probs=38.0
Q ss_pred CCCCCChHHhhhCCCcccccCchHHHHHHHh---hcCCCCcccccc-CCHHHHHHHhhcCceEEEE
Q 003821 543 KPNVTDIGWLKASNLNVGFDGDSFVRNYLEN---VLGFKPENILKV-DHEYKYITDFESNRIAAAF 604 (793)
Q Consensus 543 ~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~---~~~~~~~~~~~~-~~~~~~~~~l~~g~~~a~~ 604 (793)
.+.|++++||+ |.++|+..++.....+.. ..+.....+... .+..+...+|.+|++|+.+
T Consensus 82 ~s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~ 145 (216)
T PF09084_consen 82 DSGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAI 145 (216)
T ss_dssp TTS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEE
T ss_pred cCCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEE
Confidence 44599999999 999999776543333222 233433444332 2356666799999999988
No 272
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=56.40 E-value=92 Score=33.84 Aligned_cols=89 Identities=11% Similarity=0.045 Sum_probs=56.6
Q ss_pred HHHHHHHhhc---CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCce
Q 003821 65 TCTAALVGSY---NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESR 141 (793)
Q Consensus 65 ~ai~~ll~~~---~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 141 (793)
..+.++++.+ |.+++.||++..... ..+..+.+.+.|++.|+++.....+.+.. +.+++.+.+..+++.++|
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~-~~g~~~~v~~~L~~~gi~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D 86 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYK-KSGAWDKVEPALDEHGIEYVLYNKVTPNP----TVDQVDEAAKLGREFGAQ 86 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHh-hcChHHHHHHHHHHcCCeEEEeCCCCCCC----CHHHHHHHHHHHHHcCCC
Confidence 4456667666 789999998765321 03357889999999998754332233322 335677788888888999
Q ss_pred EEEEeccC-hHHHHHHHH
Q 003821 142 VFIILQSS-LAMGIHLFR 158 (793)
Q Consensus 142 vivvl~~~-~~~~~~~l~ 158 (793)
+||.+.+. .-++.+++.
T Consensus 87 ~IIaiGGGS~iD~aK~ia 104 (383)
T cd08186 87 AVIAIGGGSPIDSAKSAA 104 (383)
T ss_pred EEEEeCCccHHHHHHHHH
Confidence 99873442 334444443
No 273
>PRK10200 putative racemase; Provisional
Probab=55.31 E-value=45 Score=33.26 Aligned_cols=39 Identities=8% Similarity=0.042 Sum_probs=25.4
Q ss_pred HHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhc-Ccee
Q 003821 66 CTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQIS-NSEI 109 (793)
Q Consensus 66 ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~-g~~v 109 (793)
+.++.++..+-++|+++.....- -...+++.+++. |+++
T Consensus 107 ~~~~~~~~~~~~~VglLaT~~Ti-----~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 107 ATGRAITGAGMTRVALLGTRYTM-----EQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHHHHHHHcCCCeEEEeccHHHH-----HHhHHHHHHHHhcCCeE
Confidence 44444555577899999888542 245667777655 8775
No 274
>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=54.95 E-value=44 Score=34.66 Aligned_cols=79 Identities=11% Similarity=0.052 Sum_probs=48.0
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ......+++++++.|..+... .+... + .....+.+..+...++|.||+.....+....+
T Consensus 2 I~vi~~~~~~~f~--~~i~~gi~~~a~~~g~~v~~~--~~~~~---d-~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~ 73 (298)
T cd06302 2 IAFVPKVTGIPYF--NRMEEGAKEAAKELGVDAIYV--GPTTA---D-AAGQVQIIEDLIAQGVDAIAVVPNDPDALEPV 73 (298)
T ss_pred EEEEEcCCCChHH--HHHHHHHHHHHHHhCCeEEEE--CCCCC---C-HHHHHHHHHHHHhcCCCEEEEecCCHHHHHHH
Confidence 5666543 3454 777888889999988875422 11111 1 13345666667777889888822233434667
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|+
T Consensus 74 ~~~~~~~~i 82 (298)
T cd06302 74 LKKAREAGI 82 (298)
T ss_pred HHHHHHCCC
Confidence 777777665
No 275
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=54.80 E-value=1.2e+02 Score=32.05 Aligned_cols=88 Identities=7% Similarity=0.041 Sum_probs=55.5
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.++.+++.+|++...+ ....+.+.+.|++. +++.......+.. +.+++.+.+..+++.++|+||
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~---~~~~~~v~~~l~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~II 83 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVV---KGVGEKVADSLKKL-IAVHIFDGVGPNP----TFEEVKEAVERARAAEVDAVI 83 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchh---hhHHHHHHHHHHhc-CcEEEeCCcCCCc----CHHHHHHHHHHHHhcCcCEEE
Confidence 345667778889999999865543 45678888888876 5543322222221 335677778888888899988
Q ss_pred EeccC-hHHHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFREA 160 (793)
Q Consensus 145 vl~~~-~~~~~~~l~~a 160 (793)
.+.+. .-++.+++...
T Consensus 84 aiGGGs~~D~aK~ia~~ 100 (332)
T cd07766 84 AVGGGSTLDTAKAVAAL 100 (332)
T ss_pred EeCCchHHHHHHHHHHH
Confidence 73332 33444444443
No 276
>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=54.79 E-value=46 Score=33.43 Aligned_cols=79 Identities=11% Similarity=-0.017 Sum_probs=50.0
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|++|..+ +.|. ..+.+.+++++++.|.++.... .. .+ .......++++...+.+.+|+..+..+....
T Consensus 1 ~ig~i~p~~~~~~~--~~~~~~~~~~a~~~g~~~~~~~-~~-~~-----~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~ 71 (267)
T cd01536 1 KIGLVVPSLNNPFW--QAMNKGAEAAAKELGVELIVLD-AQ-ND-----VSKQIQQIEDLIAQGVDGIIISPVDSAALTP 71 (267)
T ss_pred CEEEEeccccCHHH--HHHHHHHHHHHHhcCceEEEEC-CC-CC-----HHHHHHHHHHHHHcCCCEEEEeCCCchhHHH
Confidence 47788865 3465 8889999999999998765431 11 11 1334566777777789988873333333344
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++.+.+.+.
T Consensus 72 ~~~~l~~~~i 81 (267)
T cd01536 72 ALKKANAAGI 81 (267)
T ss_pred HHHHHHHCCC
Confidence 6666666654
No 277
>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=54.26 E-value=55 Score=33.73 Aligned_cols=78 Identities=9% Similarity=0.058 Sum_probs=52.4
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|. ...+..+++++++.|..+... .... ........++.+.+.+++.||+..+..+.....
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~a~~~g~~~~~~---~~~~----~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~ 72 (288)
T cd01538 2 IGLSLPTKTEERW--IRDRPNFEAALKELGAEVIVQ---NANG----DPAKQISQIENMIAKGVDVLVIAPVDGEALASA 72 (288)
T ss_pred eEEEEeCCCcHHH--HHHHHHHHHHHHHcCCEEEEE---CCCC----CHHHHHHHHHHHHHcCCCEEEEecCChhhHHHH
Confidence 6777764 3455 778889999999999886543 1111 113345677777778999988833344445677
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 73 l~~l~~~~i 81 (288)
T cd01538 73 VEKAADAGI 81 (288)
T ss_pred HHHHHHCCC
Confidence 888888765
No 278
>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=54.03 E-value=1.2e+02 Score=28.63 Aligned_cols=89 Identities=9% Similarity=0.023 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhc--CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 003821 62 EQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQIS--NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE 139 (793)
Q Consensus 62 ~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 139 (793)
+....+.+.+...+ .+|.++-.+.+ .++.+.+.+++. |+.++.... +... ..+..+.+.+|.+.+
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~------~~~~~~~~l~~~yp~l~i~g~~~-g~~~-----~~~~~~i~~~I~~~~ 99 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPE------VLEKAAERLRARYPGLKIVGYHH-GYFG-----PEEEEEIIERINASG 99 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH------HHHHHHHHHHHHCCCcEEEEecC-CCCC-----hhhHHHHHHHHHHcC
Confidence 45666666666554 57777765543 355555555554 666665321 1111 123344788899999
Q ss_pred ceEEEEeccChHHHHHHHHHHHHcC
Q 003821 140 SRVFIILQSSLAMGIHLFREAKEMG 164 (793)
Q Consensus 140 ~~vivvl~~~~~~~~~~l~~a~~~g 164 (793)
+|+|++ ....+.-..++.+.++..
T Consensus 100 pdiv~v-glG~PkQE~~~~~~~~~l 123 (171)
T cd06533 100 ADILFV-GLGAPKQELWIARHKDRL 123 (171)
T ss_pred CCEEEE-ECCCCHHHHHHHHHHHHC
Confidence 999999 676666666666655544
No 279
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=53.48 E-value=52 Score=35.46 Aligned_cols=74 Identities=7% Similarity=0.040 Sum_probs=51.4
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.+| +++.||++...+ ....+.+.+.+++.|+++... .++... +.+.+.+.+..+++.++|+||
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~---~~~~~~v~~~l~~~~~~~~~~-~~~~ep----~~~~v~~~~~~~~~~~~d~II 89 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL---GIVGDRVEASLKEAGLTVVFE-VFNGEC----SDNEIDRLVAIAEENGCDVVI 89 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH---HHHHHHHHHHHHhCCCeEEEE-EeCCCC----CHHHHHHHHHHHHhcCCCEEE
Confidence 44667778888 898888865544 336788888999888876432 344333 335677777778888999988
Q ss_pred Eec
Q 003821 145 ILQ 147 (793)
Q Consensus 145 vl~ 147 (793)
.+.
T Consensus 90 avG 92 (366)
T PRK09423 90 GIG 92 (366)
T ss_pred Eec
Confidence 733
No 280
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=53.31 E-value=1.1e+02 Score=33.15 Aligned_cols=86 Identities=8% Similarity=0.029 Sum_probs=55.4
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.+|.+++.||++...+ ..+.+.+.+++.|+++.....+.+.. +.+.+.+.+..+++.++|+||
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~II 82 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA-----IASGLTDILKPLGTLVVVFDDVQPNP----DLEDLAAGIRLLREFGPDAVL 82 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH-----HHHHHHHHHHHcCCeEEEEcCcCCCc----CHHHHHHHHHHHHhcCcCEEE
Confidence 456677888888999999876542 35667888888887654332333332 235577777778888999998
Q ss_pred EeccC-hHHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFRE 159 (793)
Q Consensus 145 vl~~~-~~~~~~~l~~ 159 (793)
.+.+. .-++.+++..
T Consensus 83 avGGGs~~D~aK~ia~ 98 (367)
T cd08182 83 AVGGGSVLDTAKALAA 98 (367)
T ss_pred EeCCcHHHHHHHHHHH
Confidence 74442 3344444443
No 281
>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=52.76 E-value=46 Score=33.01 Aligned_cols=93 Identities=19% Similarity=0.169 Sum_probs=63.4
Q ss_pred cCChHHHHHHHHHHHhh-cCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHh
Q 003821 57 ANSSAEQITCTAALVGS-YNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKL 135 (793)
Q Consensus 57 ~p~~~~~~~ai~~ll~~-~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l 135 (793)
.|+....++.+++.+.. ..-++|.++..+.. ...|.+.|++.|.++.....|.. . ....-......+
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-------~~~l~~~L~~~g~~v~~~~vY~~-~----~~~~~~~~~~~l 164 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEGG-------RPDLPEKLREAGIEVTEVIVYET-P----PEELSPELKEAL 164 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-------CHHHHHHHHHTTEEEEEEECEEE-E----EHHHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-------cHHHHHHHHHCCCeEEEEEEeec-c----cccchHHHHHHH
Confidence 56655567888887763 44488777766543 56788999999999887777766 2 112233344556
Q ss_pred hcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 136 LRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 136 ~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
.....++|++ .++..+..+++...+.
T Consensus 165 ~~~~~~~v~f--tS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 165 DRGEIDAVVF--TSPSAVRAFLELLKKN 190 (231)
T ss_dssp HHTTTSEEEE--SSHHHHHHHHHHSSGH
T ss_pred HcCCCCEEEE--CCHHHHHHHHHHhHhh
Confidence 6667887666 8888888888877654
No 282
>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=52.40 E-value=44 Score=34.55 Aligned_cols=80 Identities=8% Similarity=0.087 Sum_probs=49.5
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
||++|..+ +.|- ..+...+++++++.|.++.... ..... .....+.+..+.+.++|.||+..+..+....
T Consensus 1 ~i~~i~~~~~~~~~--~~~~~gi~~~a~~~g~~~~~~~-~~~~~-----~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSGSDWS--NAQVRGAKDEFAKLGIEVVATT-DAQFD-----PAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCCChHH--HHHHHHHHHHHHHcCCEEEEec-CCCCC-----HHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 46666654 2344 5677888899999998765221 11111 1234456667777789988883333333456
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++++.+.|.
T Consensus 73 ~i~~~~~~~i 82 (294)
T cd06316 73 AYKKVAEAGI 82 (294)
T ss_pred HHHHHHHcCC
Confidence 7788888776
No 283
>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=52.31 E-value=52 Score=33.41 Aligned_cols=81 Identities=10% Similarity=0.060 Sum_probs=48.5
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
||++|..+ +.|- ..+...+++.+++.|.++.....-...+ .....+.+.++...+.+.+|+..+..+....
T Consensus 1 ~Igvi~~~~~~~~~--~~~~~g~~~~~~~~g~~~~~~~~~~~~~-----~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~ 73 (273)
T cd06310 1 KIALVPKGTTSDFW--QAVKAGAEAAAKELGVKVTFQGPASETD-----VAGQVNLLENAIARGPDAILLAPTDAKALVP 73 (273)
T ss_pred CeEEEecCCCcHHH--HHHHHHHHHHHHHcCCEEEEecCccCCC-----HHHHHHHHHHHHHhCCCEEEEcCCChhhhHH
Confidence 46777755 3354 7778888899999998765331100111 1334556667777788888872233332345
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++.+.+.|+
T Consensus 74 ~l~~~~~~~i 83 (273)
T cd06310 74 PLKEAKDAGI 83 (273)
T ss_pred HHHHHHHCCC
Confidence 6677766654
No 284
>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=52.26 E-value=39 Score=34.68 Aligned_cols=78 Identities=12% Similarity=0.093 Sum_probs=51.2
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|++|..+ +.|. ....+.+++++++.|..+... ...+ . +.....+..+...+++.+|+.....+....
T Consensus 1 ~Ig~v~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~---~~~~----~-~~~~~~i~~~~~~~~dgiii~~~~~~~~~~ 70 (289)
T cd01540 1 KIGFIVKQPEEPWF--QTEWKFAKKAAKEKGFTVVKI---DVPD----G-EKVLSAIDNLGAQGAKGFVICVPDVKLGPA 70 (289)
T ss_pred CeeeecCCCCCcHH--HHHHHHHHHHHHHcCCEEEEc---cCCC----H-HHHHHHHHHHHHcCCCEEEEccCchhhhHH
Confidence 36677654 3455 777888999999999876532 1111 1 334557777888889998882223344566
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
+++++.+.|+
T Consensus 71 ~~~~~~~~~i 80 (289)
T cd01540 71 IVAKAKAYNM 80 (289)
T ss_pred HHHHHHhCCC
Confidence 7888888776
No 285
>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=51.01 E-value=42 Score=33.62 Aligned_cols=76 Identities=18% Similarity=0.112 Sum_probs=50.4
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ....+.+++++++.|+.+... .... + .......++++.+.+++++++ .........
T Consensus 2 i~~v~~~~~~~~~--~~~~~g~~~~~~~~g~~~~~~---~~~~---~-~~~~~~~~~~~~~~~~d~iii-~~~~~~~~~- 70 (264)
T cd06267 2 IGVIVPDISNPFF--AELLRGIEEAAREAGYSVLLC---NSDE---D-PEKEREALELLLSRRVDGIIL-APSRLDDEL- 70 (264)
T ss_pred EEEEECCCCCHHH--HHHHHHHHHHHHHcCCEEEEE---cCCC---C-HHHHHHHHHHHHHcCcCEEEE-ecCCcchHH-
Confidence 5677655 4576 888889999999989876533 1111 1 133556677787788999888 444444444
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|+
T Consensus 71 ~~~~~~~~i 79 (264)
T cd06267 71 LEELAALGI 79 (264)
T ss_pred HHHHHHcCC
Confidence 777777776
No 286
>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=50.47 E-value=73 Score=32.30 Aligned_cols=81 Identities=14% Similarity=0.012 Sum_probs=48.0
Q ss_pred EEEEEEEcC--CCccccccHHHHHHHHHhc---CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHH
Q 003821 78 KVIIIYEDD--ATNADTGNLALLSEALQIS---NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAM 152 (793)
Q Consensus 78 ~vaii~~dd--~~G~~~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~ 152 (793)
||+++..+. .|- ......+++++++. |.++...+.-...+ .+...+.+.++...+.|.||+..+..+.
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~-----~~~~~~~~~~~~~~~vdgiIi~~~~~~~ 73 (272)
T cd06300 1 KIGLSNSYAGNTWR--AQMLDEFKAQAKELKKAGLISEFIVTSADGD-----VAQQIADIRNLIAQGVDAIIINPASPTA 73 (272)
T ss_pred CeEEeccccCChHH--HHHHHHHHHHHHhhhccCCeeEEEEecCCCC-----HHHHHHHHHHHHHcCCCEEEEeCCChhh
Confidence 466666442 243 66778888888888 86433222211111 2345677777777789998882233333
Q ss_pred HHHHHHHHHHcCC
Q 003821 153 GIHLFREAKEMGL 165 (793)
Q Consensus 153 ~~~~l~~a~~~g~ 165 (793)
....+..+.+.|.
T Consensus 74 ~~~~l~~~~~~~i 86 (272)
T cd06300 74 LNPVIEEACEAGI 86 (272)
T ss_pred hHHHHHHHHHCCC
Confidence 4456777777665
No 287
>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=50.03 E-value=58 Score=32.88 Aligned_cols=78 Identities=5% Similarity=-0.033 Sum_probs=49.1
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ....+.+++++++.|.++... ....+ .......+..+.+.+++.+|+.....+.....
T Consensus 2 i~~~~~~~~~~~~--~~~~~~i~~~~~~~g~~~~i~--~~~~~-----~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~ 72 (267)
T cd06322 2 IGASLLTQQHPFY--IELANAMKEEAKKQKVNLIVS--IANQD-----LNKQLSDVEDFITKKVDAIVLSPVDSKGIRAA 72 (267)
T ss_pred eeEeecCcccHHH--HHHHHHHHHHHHhcCCEEEEe--cCCCC-----HHHHHHHHHHHHHcCCCEEEEcCCChhhhHHH
Confidence 4566655 3355 778899999999999876432 11111 13345667777777899988823233334556
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|+
T Consensus 73 ~~~~~~~~i 81 (267)
T cd06322 73 IAKAKKAGI 81 (267)
T ss_pred HHHHHHCCC
Confidence 777777765
No 288
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=49.96 E-value=1.1e+02 Score=32.84 Aligned_cols=85 Identities=16% Similarity=0.220 Sum_probs=44.7
Q ss_pred CcccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCC---CCCC---CCCCCCeEEEecCCh-HHHHHHHHHHHhhc
Q 003821 2 IKEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAI---APPL---TSTRWPFLVRMANSS-AEQITCTAALVGSY 74 (793)
Q Consensus 2 i~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~---~~~l---~~~~~~~~~r~~p~~-~~~~~ai~~ll~~~ 74 (793)
++..+|..|+|.+-++.++++...... +=|.-.|..... .+.| .+.+-|.+.+....+ ...++.+.+++++.
T Consensus 19 ~~~g~~d~l~~d~LaE~tma~~~~~~~-~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg~np~~~a~~v~eia~e~ 97 (362)
T PF07287_consen 19 ARGGDVDYLVGDYLAERTMAILARAKR-KDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGGLNPAGCADIVREIAREL 97 (362)
T ss_pred HhcCCCCEEEEecHHHHHHHHHHHHHh-hCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHHHHHhc
Confidence 445677788887777766666553322 112111111100 0000 122334444443322 23667788888887
Q ss_pred Cce-EEEEEEEcCC
Q 003821 75 NWR-KVIIIYEDDA 87 (793)
Q Consensus 75 ~w~-~vaii~~dd~ 87 (793)
|.+ ||++|+.|+.
T Consensus 98 Gl~lkvA~V~gDd~ 111 (362)
T PF07287_consen 98 GLSLKVAVVYGDDL 111 (362)
T ss_pred CCCeeEEEEECccc
Confidence 775 8999998887
No 289
>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=49.92 E-value=48 Score=33.15 Aligned_cols=78 Identities=15% Similarity=0.155 Sum_probs=48.4
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+++++... +.++ ..+...+++.+++.|+++... +... ..+...+.++++.+.+++.+|+..+......
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~g~~~~~~~~g~~l~~~---~~~~----~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~- 70 (264)
T cd01537 1 TIGVLVPDLDNPFF--AQVLKGIEEAAKAAGYQVLLA---NSQN----DAEKQLSALENLIARGVDGIIIAPSDLTAPT- 70 (264)
T ss_pred CeEEEEcCCCChHH--HHHHHHHHHHHHHcCCeEEEE---eCCC----CHHHHHHHHHHHHHcCCCEEEEecCCCcchh-
Confidence 36777765 3466 788888999999988876533 1111 1134556677777778888887333333333
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.+..+.+.++
T Consensus 71 ~~~~l~~~~i 80 (264)
T cd01537 71 IVKLARKAGI 80 (264)
T ss_pred HHHHhhhcCC
Confidence 5666666655
No 290
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=49.63 E-value=73 Score=33.92 Aligned_cols=82 Identities=9% Similarity=-0.091 Sum_probs=52.6
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
=+.|++|..+ +.|. ....+.+++++++.|..+.....-... ......+.+..+.+.++|.||+.....+..
T Consensus 46 t~~Igvv~p~~~~~f~--~~~~~gi~~aa~~~G~~l~i~~~~~~~-----~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~ 118 (343)
T PRK10936 46 AWKLCALYPHLKDSYW--LSVNYGMVEEAKRLGVDLKVLEAGGYY-----NLAKQQQQLEQCVAWGADAILLGAVTPDGL 118 (343)
T ss_pred CeEEEEEecCCCchHH--HHHHHHHHHHHHHhCCEEEEEcCCCCC-----CHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 3688888865 3455 777889999999999876543211111 113345667777778899988833344444
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...+ ++.+.|.
T Consensus 119 ~~~l-~~~~~gi 129 (343)
T PRK10936 119 NPDL-ELQAANI 129 (343)
T ss_pred HHHH-HHHHCCC
Confidence 4555 7777675
No 291
>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=49.18 E-value=54 Score=33.44 Aligned_cols=78 Identities=12% Similarity=-0.049 Sum_probs=48.9
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ......+++.+++.|.++... .... ......+.+..+...++|.||+..+..+.....
T Consensus 2 igv~~~~~~~~~~--~~~~~~i~~~~~~~g~~v~~~---~~~~----~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~ 72 (282)
T cd06318 2 IGFSQYTLNSPFF--AALTEAAKAHAKALGYELIST---DAQG----DLTKQIADVEDLLTRGVNVLIINPVDPEGLVPA 72 (282)
T ss_pred eeEEeccccCHHH--HHHHHHHHHHHHHcCCEEEEE---cCCC----CHHHHHHHHHHHHHcCCCEEEEecCCccchHHH
Confidence 5666543 3455 778888999999999876532 1111 112344567778888899888822333333456
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|.
T Consensus 73 i~~~~~~~i 81 (282)
T cd06318 73 VAAAKAAGV 81 (282)
T ss_pred HHHHHHCCC
Confidence 777777665
No 292
>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=48.65 E-value=75 Score=32.08 Aligned_cols=75 Identities=13% Similarity=0.105 Sum_probs=44.3
Q ss_pred EEEEEEc-----CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 79 VIIIYED-----DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 79 vaii~~d-----d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
|+++..+ +.|. ..+.+.+++.+++.|.++... .... . . ......+..+.+.++|.||+ ....+.
T Consensus 2 vgv~~~~~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~-~~~~-~----~-~~~~~~~~~l~~~~vdgiii-~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFY--SEIYRAIEEEAKKYGYNLILK-FVSD-E----D-EEEFELPSFLEDGKVDGIIL-LGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcH--HHHHHHHHHHHHHcCCEEEEE-eCCC-C----h-HHHHHHHHHHHHCCCCEEEE-eCCCCh-
Confidence 5666655 4565 777888888898888876543 1121 1 1 22334445566678888887 443322
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
..++.+.+.|.
T Consensus 71 -~~~~~l~~~~i 81 (268)
T cd06277 71 -EYIKEIKELGI 81 (268)
T ss_pred -HHHHHHhhcCC
Confidence 23666666664
No 293
>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=48.09 E-value=60 Score=32.98 Aligned_cols=80 Identities=9% Similarity=-0.004 Sum_probs=50.1
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|++|+.+ +.|. ......+++++++.|..+... .... .+........+..+.+.+++.||+ .....+...
T Consensus 1 ~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g~~~~~~---~~~~--~~~~~~~~~~i~~~~~~~vdgiI~-~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYW--LSVNYGMVEEAKRLGVSLKLL---EAGG--YPNLAKQIAQLEDCAAWGADAILL-GAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHH--HHHHHHHHHHHHHcCCEEEEe---cCCC--CCCHHHHHHHHHHHHHcCCCEEEE-cCCChhhHH
Confidence 46777764 3455 778889999999999876543 1111 011133445677777789999988 443333322
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.+.++.+.|+
T Consensus 73 ~~~~~~~~gi 82 (268)
T cd06306 73 EILQQVAASI 82 (268)
T ss_pred HHHHHHHCCC
Confidence 5677777776
No 294
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=47.64 E-value=68 Score=32.54 Aligned_cols=103 Identities=16% Similarity=0.133 Sum_probs=62.2
Q ss_pred CCCCChHHhhhCCCcccccCchHHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHH-HHhccCCceE
Q 003821 544 PNVTDIGWLKASNLNVGFDGDSFVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERA-FLSQHCKEYT 622 (793)
Q Consensus 544 ~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~c~~~~ 622 (793)
.+|++++||+ |+++.+..++.....++.. + ... ...+..|...+|++|.+|+.+........ -+.+..+.++
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~~~-G---a~~-v~~~~~e~~~aL~~G~vDg~~~~~~~~~~~~~~ev~~y~~ 198 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFKAL-G---ANP-EPMAFSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYLS 198 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHHHc-C---Ccc-cccCHHHHHHHHHcCCcccccCCHHHHhhcchhhhcchhe
Confidence 4799999999 8999887666556666653 2 222 25677899999999999998876443321 1222233223
Q ss_pred EeCccccccceEEEecCC--CcChHHHHHHHHhhh
Q 003821 623 ATIPTYRFGGFAFVFQKG--SPLAADFSEAILKLS 655 (793)
Q Consensus 623 ~~~~~~~~~~~~~~~~k~--spl~~~in~~i~~l~ 655 (793)
..+ .......+.+.++ ..|-+....+|....
T Consensus 199 ~~~--~~~~~~~~~~n~~~~~~L~~e~q~~i~~a~ 231 (257)
T TIGR00787 199 MTN--HGYLGYLVVVNKAFWKSLPPDLQAVVKEAA 231 (257)
T ss_pred ecC--CcccceEEEEeHHHHhcCCHHHHHHHHHHH
Confidence 222 2234456677765 235555555555443
No 295
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=46.81 E-value=97 Score=33.13 Aligned_cols=74 Identities=16% Similarity=0.117 Sum_probs=49.6
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.++++.+| +++.||++...+ ....+.+.+.|++.|+.+... .+.... +.+.+.+.+..+++.++|.||
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~---~~~~~~v~~~l~~~~i~~~~~-~~~~~p----~~~~v~~~~~~~~~~~~d~II 82 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL---KKSRPRFEAALAKSIIVVDVI-VFGGEC----STEEVVKALCGAEEQEADVII 82 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH---HHHHHHHHHHHHhcCCeeEEE-EcCCCC----CHHHHHHHHHHHHhcCCCEEE
Confidence 44667788888 888887765443 445678888898888765433 344321 234567777777878999988
Q ss_pred Eec
Q 003821 145 ILQ 147 (793)
Q Consensus 145 vl~ 147 (793)
-+.
T Consensus 83 avG 85 (349)
T cd08550 83 GVG 85 (349)
T ss_pred Eec
Confidence 733
No 296
>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=46.46 E-value=64 Score=33.44 Aligned_cols=68 Identities=16% Similarity=0.073 Sum_probs=38.2
Q ss_pred cccHHHHHHHHHhcCc-eeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 92 TGNLALLSEALQISNS-EIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 92 ~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
..+...+++++++.|. .+... .+... +. ....+.+..+.+.+++.||+.....+.....++++.+.|.
T Consensus 14 ~~~~~gi~~~a~~~g~~~~i~~--~~~~~---d~-~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 14 EAANKGAEEAAKELGSVYIIYT--GPTGT---TA-EGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred HHHHHHHHHHHHHhCCeeEEEE--CCCCC---CH-HHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 6667778888888884 22211 11111 11 2344566667777788877733333444566777777664
No 297
>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=45.74 E-value=65 Score=32.69 Aligned_cols=78 Identities=13% Similarity=0.066 Sum_probs=47.2
Q ss_pred EEEEEEc-CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHH
Q 003821 79 VIIIYED-DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLF 157 (793)
Q Consensus 79 vaii~~d-d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l 157 (793)
|++|... ++|- ..+...+++++++.|..+... ..... ......+.+..+.+.+.|.+|+.....+.....+
T Consensus 2 i~~v~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~--~~~~~----~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l 73 (271)
T cd06314 2 IAVVTNGASPFW--KIAEAGVKAAGKELGVDVEFV--VPQQG----TVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPAL 73 (271)
T ss_pred eEEEcCCCcHHH--HHHHHHHHHHHHHcCCeEEEe--CCCCC----CHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHH
Confidence 5566533 3354 778888889999999876533 11111 1123455667777788998888333333345677
Q ss_pred HHHHHcCC
Q 003821 158 REAKEMGL 165 (793)
Q Consensus 158 ~~a~~~g~ 165 (793)
+++.+ +.
T Consensus 74 ~~~~~-~i 80 (271)
T cd06314 74 NKAAA-GI 80 (271)
T ss_pred HHHhc-CC
Confidence 77765 54
No 298
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=44.78 E-value=3.2e+02 Score=26.94 Aligned_cols=145 Identities=13% Similarity=0.124 Sum_probs=82.5
Q ss_pred cccceEEEEcCCChhhHHHHHHhc--cCCCccEEeeeCCCCCC--CCC--C----CCCCeEEEecCChHHHHHHHHHHHh
Q 003821 3 KEKEVKVIVGMETWGAATMVADIG--SRAQVPVLSFAEPAIAP--PLT--S----TRWPFLVRMANSSAEQITCTAALVG 72 (793)
Q Consensus 3 ~~~~V~aiiGp~~s~~~~~va~i~--~~~~iP~Is~~~~~~~~--~l~--~----~~~~~~~r~~p~~~~~~~ai~~ll~ 72 (793)
.+..|++||||++|+=+..+--+- +...==.|......... .+. . --|.. |++.|.-+..-..+...++
T Consensus 26 ~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~-fnLFPHlTvleNv~lap~~ 104 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQ-FNLFPHLTVLENVTLAPVK 104 (240)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHCCcCCCCceEEECCEeccchhhHHHHHHhcCeeccc-ccccccchHHHHHHhhhHH
Confidence 456799999999997766654332 22222234443320000 110 0 11222 3677887777777777777
Q ss_pred hcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC---
Q 003821 73 SYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS--- 149 (793)
Q Consensus 73 ~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~--- 149 (793)
-.|+.+ .+..+.-.+.|++.|+.-. .-.||..- +..+.-+-.+.+..+.+|++++. +-.
T Consensus 105 v~~~~k-------------~eA~~~A~~lL~~VGL~~k-a~~yP~qL---SGGQqQRVAIARALaM~P~vmLF-DEPTSA 166 (240)
T COG1126 105 VKKLSK-------------AEAREKALELLEKVGLADK-ADAYPAQL---SGGQQQRVAIARALAMDPKVMLF-DEPTSA 166 (240)
T ss_pred HcCCCH-------------HHHHHHHHHHHHHcCchhh-hhhCcccc---CcHHHHHHHHHHHHcCCCCEEee-cCCccc
Confidence 666654 4445566677888887522 22454332 12233455566666789998765 433
Q ss_pred --hH---HHHHHHHHHHHcCCC
Q 003821 150 --LA---MGIHLFREAKEMGLV 166 (793)
Q Consensus 150 --~~---~~~~~l~~a~~~g~~ 166 (793)
|+ +...+++...+.||+
T Consensus 167 LDPElv~EVL~vm~~LA~eGmT 188 (240)
T COG1126 167 LDPELVGEVLDVMKDLAEEGMT 188 (240)
T ss_pred CCHHHHHHHHHHHHHHHHcCCe
Confidence 33 345667777788874
No 299
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=44.37 E-value=3.1e+02 Score=30.79 Aligned_cols=133 Identities=11% Similarity=0.111 Sum_probs=72.2
Q ss_pred EEcCCChhhHHHHHHhcc-CCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCC
Q 003821 10 IVGMETWGAATMVADIGS-RAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDAT 88 (793)
Q Consensus 10 iiGp~~s~~~~~va~i~~-~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~ 88 (793)
|+||+++..-.++..+.+ ...+=+|.++-. | ++|- +.....+...+.+..-.-+++.|+|....
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~HG-----------~-i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~- 262 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSHG-----------V-VWRD--NPTQIVELYLKWAADYQEDRITIFYDTMS- 262 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCCC-----------c-eEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCc-
Confidence 677777766666666654 234444443322 2 3452 22223333444444434578999998754
Q ss_pred ccccccHHHHHHHHHhc--CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh------HHHHHHHHHH
Q 003821 89 NADTGNLALLSEALQIS--NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL------AMGIHLFREA 160 (793)
Q Consensus 89 G~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~------~~~~~~l~~a 160 (793)
|.-+.+++.+.+.+++. |+++.. ..+... +....+..+. .++.|++ .++. +....++...
T Consensus 263 GnTe~mA~~ia~gl~~~g~gv~v~~-~~v~~~--------~~~~i~~~~~--~ad~vil-GspT~~~~~~p~~~~fl~~l 330 (479)
T PRK05452 263 NNTRMMADAIAQGIAEVDPRVAVKI-FNVARS--------DKNEILTNVF--RSKGVLV-GSSTMNNVMMPKIAGLLEEI 330 (479)
T ss_pred cHHHHHHHHHHHHHHhhCCCceEEE-EECCCC--------CHHHHHhHHh--hCCEEEE-ECCccCCcchHHHHHHHHHh
Confidence 32266788888888876 444332 223221 1233333442 5677776 5542 4566777777
Q ss_pred HHcCCCCCC
Q 003821 161 KEMGLVGPD 169 (793)
Q Consensus 161 ~~~g~~~~~ 169 (793)
....+.++.
T Consensus 331 ~~~~l~gK~ 339 (479)
T PRK05452 331 TGLRFRNKR 339 (479)
T ss_pred hccCcCCCE
Confidence 777776653
No 300
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=44.14 E-value=1.4e+02 Score=29.08 Aligned_cols=108 Identities=17% Similarity=0.120 Sum_probs=67.5
Q ss_pred CCCCChHHhhhCCCcccc-cCchHHHHHHHhhc---CCCCccccccC----CHHHHHHHhhcCceEEEEechhhHHHHHh
Q 003821 544 PNVTDIGWLKASNLNVGF-DGDSFVRNYLENVL---GFKPENILKVD----HEYKYITDFESNRIAAAFLELSYERAFLS 615 (793)
Q Consensus 544 ~~i~sl~dL~~~~~~~g~-~~~~~~~~~l~~~~---~~~~~~~~~~~----~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 615 (793)
..|++++||...++++-= .+++-.+..+.... +..+..+.-|. +......++.+|+.|+-+.-...+ .
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr~~A----~ 162 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRHAA----E 162 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHHHHH----H
Confidence 459999999866666632 55665565554432 23334454443 335567889999999998744333 3
Q ss_pred ccCCceEEeCccccccceEEEecCCCcChHHHHHHHHhhhccCc
Q 003821 616 QHCKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGE 659 (793)
Q Consensus 616 ~~c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~ 659 (793)
++.-.|.- +....|-|+++|+.--.+.+...+..|...|+
T Consensus 163 ~~gL~Fip----l~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 163 KYGLDFIP----LGDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred HcCCceEE----cccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 33311332 34556889999987666677777777776544
No 301
>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=44.11 E-value=74 Score=32.54 Aligned_cols=82 Identities=17% Similarity=0.183 Sum_probs=49.3
Q ss_pred EEEEEEEc---CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 78 KVIIIYED---DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 78 ~vaii~~d---d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+|++|..+ ++|. ...++.+++.+++.|..+.......... .+ .......+..+.+.+.|.+|+ ........
T Consensus 1 ~Igvi~~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~-~~~~~~~i~~l~~~~vDgiIv-~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQISDYW--VRNIASFTARLEELNIPYELTQFSSRPG--ID-HRLQSQQLNEALQSKPDYLIF-TLDSLRHR 74 (280)
T ss_pred CeeEEecCccHHHHH--HHHHHHHHHHHHHcCCcEEEEEeccCcc--cC-HHHHHHHHHHHHHcCCCEEEE-cCCchhhH
Confidence 36778765 3465 7788899999999997765431111110 01 123345666777789999888 44333234
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.+.
T Consensus 75 ~~~~~l~~~~~ 85 (280)
T cd06303 75 KLIERVLASGK 85 (280)
T ss_pred HHHHHHHhCCC
Confidence 55666666553
No 302
>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=43.87 E-value=1.3e+02 Score=32.93 Aligned_cols=79 Identities=11% Similarity=0.086 Sum_probs=51.4
Q ss_pred cCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHH
Q 003821 74 YNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAM 152 (793)
Q Consensus 74 ~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~ 152 (793)
.+.+++.||++..... .+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|+||-+.+. .-+
T Consensus 19 ~~~~k~liVtd~~~~~--~g~~~~v~~~L~~~gi~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD 92 (398)
T cd08178 19 KGKKRAFIVTDRFMVK--LGYVDKVIDVLKRRGVETEVFSDVEPDP----SLETVRKGLELMNSFKPDTIIALGGGSPMD 92 (398)
T ss_pred cCCCeEEEEcChhHHh--CccHHHHHHHHHHCCCeEEEecCCCCCc----CHHHHHHHHHHHHhcCCCEEEEeCCccHHH
Confidence 3568988888654333 4478889999999998764332333333 23557777788888899999974442 344
Q ss_pred HHHHHH
Q 003821 153 GIHLFR 158 (793)
Q Consensus 153 ~~~~l~ 158 (793)
+.+++.
T Consensus 93 ~AK~iA 98 (398)
T cd08178 93 AAKIMW 98 (398)
T ss_pred HHHHHH
Confidence 444443
No 303
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=43.87 E-value=83 Score=32.91 Aligned_cols=85 Identities=22% Similarity=0.221 Sum_probs=54.5
Q ss_pred eEEEEEEEc----CCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChH
Q 003821 77 RKVIIIYED----DATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLA 151 (793)
Q Consensus 77 ~~vaii~~d----d~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~ 151 (793)
++++++... ..|. ....+.+++..++. |+++......+... .++...+..+.+.+.++||. ....
T Consensus 2 ~~v~~~~~g~~~D~g~n--~~~~~G~~~~~~~~~~i~~~~~e~~~~~~------~~~~~~~~~~~~~g~dlIi~--~g~~ 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFN--QSAYEGLKRAEKELDGIEIIYVENVPETD------ADYEEAIRQLADQGYDLIIG--HGFE 71 (306)
T ss_dssp EEEEEESSS-CCCSSHH--HHHHHHHHHHHHHCTTEEEEEEES-S-TC------HHHHHHHHHHHHTT-SEEEE--ESGG
T ss_pred eEEEEEECCCCCCccHH--HHHHHHHHHHHHHcCCceEEEEecCCccH------HHHHHHHHHHHHcCCCEEEE--ccHH
Confidence 456666543 2243 66778888888888 88887776655222 67888999998899998887 4555
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 152 MGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 152 ~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
....+.+.|.+. |+-.|++.
T Consensus 72 ~~~~~~~vA~~y----Pd~~F~~~ 91 (306)
T PF02608_consen 72 YSDALQEVAKEY----PDTKFIII 91 (306)
T ss_dssp GHHHHHHHHTC-----TTSEEEEE
T ss_pred HHHHHHHHHHHC----CCCEEEEE
Confidence 555555556554 44455555
No 304
>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=43.78 E-value=76 Score=31.93 Aligned_cols=77 Identities=16% Similarity=0.139 Sum_probs=47.1
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|. ......+++++++.|.++... .... +. ....+.+..+.+.++|.+++ ....+.....
T Consensus 2 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g~~~~~~---~~~~---~~-~~~~~~i~~~~~~~vdgiii-~~~~~~~~~~ 71 (268)
T cd06289 2 IGLVINDLTNPFF--AELAAGLEEVLEEAGYTVFLA---NSGE---DV-ERQEQLLSTMLEHGVAGIIL-CPAAGTSPDL 71 (268)
T ss_pred EEEEecCCCcchH--HHHHHHHHHHHHHcCCeEEEe---cCCC---Ch-HHHHHHHHHHHHcCCCEEEE-eCCCCccHHH
Confidence 5666653 4455 677888888888888875422 1111 11 33456677777778888887 3333333346
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 72 ~~~~~~~~i 80 (268)
T cd06289 72 LKRLAESGI 80 (268)
T ss_pred HHHHHhcCC
Confidence 777777666
No 305
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=43.17 E-value=15 Score=35.63 Aligned_cols=33 Identities=24% Similarity=0.450 Sum_probs=26.5
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
+|.+|+||.+++=+.....+|.+++.|+|+...
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Dr 34 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISLDR 34 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE-S
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEecc
Confidence 589999999999999999999999999998654
No 306
>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=43.11 E-value=1e+02 Score=31.22 Aligned_cols=80 Identities=8% Similarity=0.011 Sum_probs=47.8
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAMGI 154 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~~~ 154 (793)
++++|..+ +.|. ....+.+++++++.|..+.... .+... ....-.+.+.++.+.+.+.+|+ ... .+...
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~-~~~~~----~~~~~~~~i~~l~~~~vdgiIi-~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFW--RSLKEGYENEAKKLGVSVDIQA-APSEG----DQQGQLSIAENMINKGYKGLLF-SPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHH--HHHHHHHHHHHHHhCCeEEEEc-cCCCC----CHHHHHHHHHHHHHhCCCEEEE-CCCChHHhH
Confidence 35666654 3354 7778889999999998765331 11111 1123345667777778898877 433 23334
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.|.
T Consensus 73 ~~~~~~~~~~i 83 (275)
T cd06320 73 PAVERAKKKGI 83 (275)
T ss_pred HHHHHHHHCCC
Confidence 55677777665
No 307
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=42.93 E-value=34 Score=36.05 Aligned_cols=64 Identities=16% Similarity=0.110 Sum_probs=41.9
Q ss_pred CCCChHHhhhCCCcccccCchHHHH----HHHhhcCCCCcccccc-CCHHHHHHHhhcCceEEEEechhhHH
Q 003821 545 NVTDIGWLKASNLNVGFDGDSFVRN----YLENVLGFKPENILKV-DHEYKYITDFESNRIAAAFLELSYER 611 (793)
Q Consensus 545 ~i~sl~dL~~~~~~~g~~~~~~~~~----~l~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~a~~~~~~~~~ 611 (793)
.|++++||+ |++||+..++.... +++. .+.+...+... ....+...++.+|++|+++.-.+...
T Consensus 113 ~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~-~Gl~~~dv~~v~~~~~~~~~Al~~G~VDAa~~~~p~~~ 181 (320)
T PRK11480 113 TISKPEDLI--GKRIAVPFISTTHYSLLAALKH-WGIKPGQVEIVNLQPPAIIAAWQRGDIDGAYVWAPAVN 181 (320)
T ss_pred CCCChHHcC--CCEEecCCCCchHHHHHHHHHH-cCCCHhheEEEECCcHHHHHHHHcCCcCEEEEcchHHH
Confidence 599999999 99999865543332 3332 23333333322 23567889999999999887666554
No 308
>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=42.40 E-value=82 Score=31.75 Aligned_cols=78 Identities=12% Similarity=0.036 Sum_probs=45.9
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ..+...+++++++.|.++.... ..... .......++.+...+.+.+|+..+.. .....
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~-~~~~~-----~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~ 72 (270)
T cd01545 2 IGLLYDNPSPGYV--SEIQLGALDACRDTGYQLVIEP-CDSGS-----PDLAERVRALLQRSRVDGVILTPPLS-DNPEL 72 (270)
T ss_pred EEEEEcCCCcccH--HHHHHHHHHHHHhCCCeEEEEe-CCCCc-----hHHHHHHHHHHHHCCCCEEEEeCCCC-CccHH
Confidence 5666654 4466 7888889999999998765431 11111 12234445556667888887722322 23455
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|+
T Consensus 73 ~~~~~~~~i 81 (270)
T cd01545 73 LDLLDEAGV 81 (270)
T ss_pred HHHHHhcCC
Confidence 666666665
No 309
>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=42.14 E-value=1e+02 Score=32.11 Aligned_cols=79 Identities=10% Similarity=0.066 Sum_probs=50.1
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHh--cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQI--SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
+|++|..+ +.|- ......+++++++ .|..+... +... ........+..+.+.+++.||+..+.++..
T Consensus 1 ~Igviv~~~~~~~~--~~~~~gi~~~a~~~~~g~~~~~~---~~~~----~~~~q~~~i~~l~~~~vdgiii~~~~~~~~ 71 (303)
T cd01539 1 KIGVFLYKFDDTFI--SLVRKNLEDIQKENGGKVEFTFY---DAKN----NQSTQNEQIDTALAKGVDLLAVNLVDPTAA 71 (303)
T ss_pred CeEEEeeCCCChHH--HHHHHHHHHHHHhhCCCeeEEEe---cCCC----CHHHHHHHHHHHHHcCCCEEEEecCchhhH
Confidence 46777654 3354 6777889999988 67664432 2211 112344567778888999888833444445
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...++++.+.|+
T Consensus 72 ~~~~~~~~~~gi 83 (303)
T cd01539 72 QTVINKAKQKNI 83 (303)
T ss_pred HHHHHHHHHCCC
Confidence 677888887776
No 310
>PRK09701 D-allose transporter subunit; Provisional
Probab=42.04 E-value=1.1e+02 Score=31.86 Aligned_cols=85 Identities=7% Similarity=-0.022 Sum_probs=54.2
Q ss_pred cCceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChH
Q 003821 74 YNWRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLA 151 (793)
Q Consensus 74 ~~w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~ 151 (793)
+--.+|++|..+ +.|. ....+.+++++++.|..+.... .+... ........+..+...++|.||+.....+
T Consensus 22 ~~~~~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g~~v~~~~-~~~~~----~~~~~~~~i~~l~~~~vDgiIi~~~~~~ 94 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFW--VDMKKGIEDEAKTLGVSVDIFA-SPSEG----DFQSQLQLFEDLSNKNYKGIAFAPLSSV 94 (311)
T ss_pred ccCCeEEEEeCCCCCHHH--HHHHHHHHHHHHHcCCeEEEec-CCCCC----CHHHHHHHHHHHHHcCCCEEEEeCCChH
Confidence 445689999865 4455 7888999999999998765321 11111 1133456677777778999988333333
Q ss_pred HHHHHHHHHHHcCC
Q 003821 152 MGIHLFREAKEMGL 165 (793)
Q Consensus 152 ~~~~~l~~a~~~g~ 165 (793)
.....+.++.+.|+
T Consensus 95 ~~~~~l~~~~~~gi 108 (311)
T PRK09701 95 NLVMPVARAWKKGI 108 (311)
T ss_pred HHHHHHHHHHHCCC
Confidence 34445677777765
No 311
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=41.63 E-value=2e+02 Score=23.93 Aligned_cols=59 Identities=19% Similarity=0.218 Sum_probs=38.9
Q ss_pred cccHHHHHHHHHhcCc-eeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC--hHHHHHHHHHHHHcC
Q 003821 92 TGNLALLSEALQISNS-EIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS--LAMGIHLFREAKEMG 164 (793)
Q Consensus 92 ~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~--~~~~~~~l~~a~~~g 164 (793)
......+++.++..|. .+... . +....+..+++..++++++ ... ...+..++++.++.+
T Consensus 8 ~~~~~~l~~~l~~~~~~~v~~~---~----------~~~~~~~~~~~~~~d~iii-d~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 8 PEIRELLEKLLERAGYEEVTTA---S----------SGEEALELLKKHPPDLIII-DLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEE---S----------SHHHHHHHHHHSTESEEEE-ESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCCEEEEE---C----------CHHHHHHHhcccCceEEEE-Eeeecccccccccccccccc
Confidence 3457788888887887 43311 1 1334556666677998887 643 356778888888877
No 312
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=41.55 E-value=17 Score=31.65 Aligned_cols=32 Identities=28% Similarity=0.499 Sum_probs=29.1
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
|++|.||.+|+=+..+..+++.+++|+|+...
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence 67899999999999999999999999997665
No 313
>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=41.01 E-value=1.7e+02 Score=27.27 Aligned_cols=67 Identities=13% Similarity=0.176 Sum_probs=43.9
Q ss_pred ceEEEEEEEcCCCc-cccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhc-CCceEEEEeccC
Q 003821 76 WRKVIIIYEDDATN-ADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLR-TESRVFIILQSS 149 (793)
Q Consensus 76 w~~vaii~~dd~~G-~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivvl~~~ 149 (793)
.-++++|...|.-+ ........+...+++.|.++.....++... +.+.+.+.+..+ ...|+||. .+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd~------~~i~~~l~~~~~~~~~DlVIt-tGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDDI------YQIRAQVSAWIADPDVQVILI-TGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CCC
Confidence 35788877666422 113346678888999999887665655433 667778877643 47898887 443
No 314
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=40.97 E-value=1.2e+02 Score=32.69 Aligned_cols=73 Identities=16% Similarity=0.222 Sum_probs=49.6
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.+.++.++ +++.||++... . ..+.+.+.|++.|+++.... +.+.. +.+.+.+.+...++.++|+||
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~----~-~~~~v~~~L~~~g~~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~D~II 80 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASS----L-RAAWLIEALRAAGIEVTHVV-VAGEP----SVELVDAAVAEARNAGCDVVI 80 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCch----H-HHHHHHHHHHHcCCeEEEec-CCCCc----CHHHHHHHHHHHHhcCCCEEE
Confidence 34666777775 88888876543 2 57788888999998764332 33222 235677788888888999998
Q ss_pred Eecc
Q 003821 145 ILQS 148 (793)
Q Consensus 145 vl~~ 148 (793)
-+.+
T Consensus 81 aiGG 84 (374)
T cd08183 81 AIGG 84 (374)
T ss_pred EecC
Confidence 8433
No 315
>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=40.82 E-value=1.3e+02 Score=30.72 Aligned_cols=80 Identities=11% Similarity=0.007 Sum_probs=49.9
Q ss_pred eEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 77 RKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
++|++|..+ +.|- ..+...+.+.+++.|..+.... ... ..+...+.+..+...+.|.||+.....+...
T Consensus 1 ~~ig~i~~~~~~~~~--~~~~~gi~~~a~~~gy~~~~~~--~~~-----~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 1 KNIIFVASDLKNGGI--LGVGEGVREAAKAIGWNLRILD--GRG-----SEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred CeEEEEecccCCcHH--HHHHHHHHHHHHHcCcEEEEEC--CCC-----CHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 467888765 3344 6788889999999998765431 111 1233456777788889999988323323234
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.++
T Consensus 72 ~~~~~~~~~~i 82 (280)
T cd06315 72 AELELAQKAGI 82 (280)
T ss_pred HHHHHHHHCCC
Confidence 45566666554
No 316
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=40.68 E-value=74 Score=33.85 Aligned_cols=86 Identities=7% Similarity=-0.041 Sum_probs=53.7
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
.+.+.+.++.++.+++.||++...+ ....+.+.+.+++.+..+ ...+.+.. +.+.+.+.+..+++.++|.|
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~---~~~~~~v~~~l~~~~~~~--~~~~~~~p----~~~~v~~~~~~~~~~~~d~I 81 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLA---TKLAERVASALGDRVAGT--FDGAVMHT----PVEVTEAAVAAAREAGADGI 81 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHH---HHHHHHHHHHhccCCcEE--eCCCCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 3557778888999999988876554 236777888887765432 11222222 23557777777888899998
Q ss_pred EEeccC-hHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFR 158 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~ 158 (793)
|.+.+. .-++.+++.
T Consensus 82 IaiGGGs~iD~aK~ia 97 (337)
T cd08177 82 VAIGGGSTIDLAKAIA 97 (337)
T ss_pred EEeCCcHHHHHHHHHH
Confidence 873332 234444443
No 317
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=40.65 E-value=1.6e+02 Score=30.40 Aligned_cols=80 Identities=5% Similarity=0.010 Sum_probs=51.7
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAM 152 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~ 152 (793)
-+.++++..+ +.|- ......+++++++.|..+... .... +. ......++++...+.+.+++ ... .+.
T Consensus 26 ~~~I~vi~~~~~~~f~--~~~~~~i~~~~~~~G~~~~~~---~~~~---d~-~~~~~~~~~l~~~~~dgiii-~~~~~~~ 95 (295)
T PRK10653 26 KDTIALVVSTLNNPFF--VSLKDGAQKEADKLGYNLVVL---DSQN---NP-AKELANVQDLTVRGTKILLI-NPTDSDA 95 (295)
T ss_pred CCeEEEEecCCCChHH--HHHHHHHHHHHHHcCCeEEEe---cCCC---CH-HHHHHHHHHHHHcCCCEEEE-cCCChHH
Confidence 5688888864 3355 788889999999999886542 1111 11 33455666777778888777 433 333
Q ss_pred HHHHHHHHHHcCC
Q 003821 153 GIHLFREAKEMGL 165 (793)
Q Consensus 153 ~~~~l~~a~~~g~ 165 (793)
....++.+.+.|.
T Consensus 96 ~~~~l~~~~~~~i 108 (295)
T PRK10653 96 VGNAVKMANQANI 108 (295)
T ss_pred HHHHHHHHHHCCC
Confidence 3456777777665
No 318
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=40.43 E-value=1.4e+02 Score=32.38 Aligned_cols=133 Identities=15% Similarity=0.118 Sum_probs=72.4
Q ss_pred ccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCc-cccccHHHHHHHHHh
Q 003821 26 GSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATN-ADTGNLALLSEALQI 104 (793)
Q Consensus 26 ~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G-~~~~~~~~l~~~l~~ 104 (793)
...+++|++..+-. .. .+.+ . +.-....+.+|...+++.|.-.-+++|.+.-|+. +.....+.+++.+..
T Consensus 212 ~~~yg~~~~G~sIP----a~---eHS~-i-~s~~~~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~ 282 (407)
T cd01569 212 AYYYEDPMAGFSIP----AA---EHST-M-TAWGRERELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILA 282 (407)
T ss_pred HHhcCCCccccccc----HH---HhHH-H-HhCCCccHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHh
Confidence 57788887765332 11 1111 1 1112134668888999888766777777776643 112233445554555
Q ss_pred cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---------C-----ceEEEEeccC---hHHHHHHHHHHHHcCCCC
Q 003821 105 SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---------E-----SRVFIILQSS---LAMGIHLFREAKEMGLVG 167 (793)
Q Consensus 105 ~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---------~-----~~vivvl~~~---~~~~~~~l~~a~~~g~~~ 167 (793)
.|..+ .++.+.++ +. ++.....++.+. + +++-|+ .++ .+.+..++....+.|...
T Consensus 283 ~g~~l--viRpDSGD----~~-~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii-~gd~ide~~i~~Il~~L~~~G~~~ 354 (407)
T cd01569 283 RGGTL--VIRPDSGD----PV-DIICGVLEILGEIFGGTVNSKGYKVLNPHVRII-QGDGITLERIEEILERLKAKGFAS 354 (407)
T ss_pred cCCcE--EEECCCCC----HH-HHHHHHHHHHHHHhCCcccCCcccccCCceEEE-EcCCCCHHHHHHHHHHHHHCCCcc
Confidence 66664 34444444 32 233333332221 2 466566 554 366677888888888876
Q ss_pred CCeEEEEe
Q 003821 168 PDSVWVIA 175 (793)
Q Consensus 168 ~~~~wi~~ 175 (793)
.+.+|-++
T Consensus 355 dNi~fGvG 362 (407)
T cd01569 355 ENIVFGMG 362 (407)
T ss_pred ccceEecC
Confidence 65555554
No 319
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=40.39 E-value=1.6e+02 Score=29.67 Aligned_cols=92 Identities=15% Similarity=0.044 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHhhcC--ceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC
Q 003821 61 AEQITCTAALVGSYN--WRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT 138 (793)
Q Consensus 61 ~~~~~ai~~ll~~~~--w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 138 (793)
...+..++..+..+. -++|.++-.+. ..+.+.+.|.+.|+++.....|...... .+.......++..
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~-------~r~~l~~~L~~~G~~v~~~~~Y~~~~~~----~~~~~~~~~~~~~ 174 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNG-------GREVLEEKLEERGAEVREVEVYRTEPPP----LDEATLIELLKLG 174 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCC-------chHHHHHHHHhCCCEEEEEeeeeecCCC----ccHHHHHHHHHhC
Confidence 456777777776654 35766665553 2578999999999999888777654411 1223344556667
Q ss_pred CceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 139 ESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 139 ~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
+.|+|++ .++..+..++..+.+.+.
T Consensus 175 ~~d~v~f--tS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 175 EVDAVVF--TSSSAVRALLALAPESGI 199 (248)
T ss_pred CCCEEEE--eCHHHHHHHHHHccccch
Confidence 8888766 899999999999888775
No 320
>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=40.12 E-value=90 Score=31.34 Aligned_cols=77 Identities=9% Similarity=0.047 Sum_probs=47.2
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ......+.+++++.|..+..... . . +. ....+.+.++.+.+.|.+|+..+.. .....
T Consensus 2 igvv~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~~~-~-~----~~-~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~ 71 (266)
T cd06282 2 VGVVLPSLANPVF--AECVQGIQEEARAAGYSLLLATT-D-Y----DA-EREADAVETLLRQRVDGLILTVADA-ATSPA 71 (266)
T ss_pred eEEEeCCCCcchH--HHHHHHHHHHHHHCCCEEEEeeC-C-C----CH-HHHHHHHHHHHhcCCCEEEEecCCC-CchHH
Confidence 4566643 3454 67788889999999987654311 1 1 11 3345666777777889888723333 22346
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|+
T Consensus 72 ~~~~~~~~i 80 (266)
T cd06282 72 LDLLDAERV 80 (266)
T ss_pred HHHHhhCCC
Confidence 777777775
No 321
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA bin
Probab=39.96 E-value=2.9e+02 Score=25.08 Aligned_cols=66 Identities=15% Similarity=-0.003 Sum_probs=35.7
Q ss_pred ccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEe--CccccccceEEEecCCCcChHHHHHHH
Q 003821 582 ILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTAT--IPTYRFGGFAFVFQKGSPLAADFSEAI 651 (793)
Q Consensus 582 ~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~--~~~~~~~~~~~~~~k~spl~~~in~~i 651 (793)
.....+.......+.+|..-+++.+. ... .... -+ +..+ ........++++.+++++....+...+
T Consensus 127 ~~~~~~~~~~~~~~~~~~g~~~~p~~-~~~-~~~~-~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (197)
T cd05466 127 ALEVDSLEAIKALVAAGLGIALLPES-AVE-ELAD-GG-LVVLPLEDPPLSRTIGLVWRKGRYLSPAARAFL 194 (197)
T ss_pred EEEeccHHHHHHHHHhCCCEEEehHH-HHh-hhhc-CC-eEEEEecCCcceEEEEEEEcCCCccCHHHHHHH
Confidence 34457777888888888755555443 333 2222 11 2222 212234467778888876655554443
No 322
>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=39.84 E-value=1.1e+02 Score=31.02 Aligned_cols=82 Identities=16% Similarity=0.027 Sum_probs=47.9
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|+++..+ +.|. ......+.+++++.|..+.......... .+. ....+.+..+.+ +.|.+|+.....+....
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~-~~~~~~i~~~~~-~vdgiii~~~~~~~~~~ 74 (275)
T cd06307 1 RLGFLLPKGSNAFY--RELAAALEAAAAAFPDARIRVRIHFVES--FDP-AALAAALLRLGA-RSDGVALVAPDHPQVRA 74 (275)
T ss_pred CeEEEeCCCCChHH--HHHHHHHHHHHhhhhccCceEEEEEccC--CCH-HHHHHHHHHHHh-cCCEEEEeCCCcHHHHH
Confidence 46777765 3354 6778888888888876543322211111 011 234456666666 88988873333334456
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++++.+.|.
T Consensus 75 ~i~~~~~~~i 84 (275)
T cd06307 75 AVARLAAAGV 84 (275)
T ss_pred HHHHHHHCCC
Confidence 7788887765
No 323
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=39.84 E-value=2e+02 Score=31.13 Aligned_cols=98 Identities=15% Similarity=0.096 Sum_probs=60.2
Q ss_pred HHHHHHHHHHhhc--CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 003821 62 EQITCTAALVGSY--NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE 139 (793)
Q Consensus 62 ~~~~ai~~ll~~~--~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 139 (793)
..++.+++.+... .-++|.+......-| ......+.+.|++.|.++.....|.... .+........+..+.+..
T Consensus 126 ~~~e~L~~~l~~~~~~g~~vli~~~~~~~~--~~~~~~L~~~L~~~G~~V~~~~vY~~~~--~~~~~~~~~~~~~l~~~~ 201 (381)
T PRK07239 126 ESSAEVLEYLLEEGVAGKRIAVQLHGATDE--WEPLPEFLEALRAAGAEVVPVPVYRWVP--PPDPGPLDRLVDAIASRG 201 (381)
T ss_pred CccHHHHHHHhcCCCCCCEEEEEcCCCccc--cCchHHHHHHHHHCCCEEEEeCcEEEcC--CCChhHHHHHHHHHHcCC
Confidence 3467777776542 335666543331112 2335679999999999988776664322 011122334455566556
Q ss_pred ceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 140 SRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 140 ~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
.|++++ .++..+..+++.+.+.++
T Consensus 202 ~d~v~F--tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 202 LDAVTF--TSAPAVAALLERAREMGL 225 (381)
T ss_pred ccEEEE--cCHHHHHHHHHHHHHcCC
Confidence 787665 889999999988877654
No 324
>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=39.57 E-value=3.4e+02 Score=27.48 Aligned_cols=146 Identities=12% Similarity=0.126 Sum_probs=71.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCC-CccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRA-QVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~-~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
++++..||+ .+.....++..++.++ ++.++..... .+. +.-..+.|+... ....+-++|.++.. =.+|++|
T Consensus 55 ~~g~dlIi~-~g~~~~~~~~~vA~~~p~~~F~~~d~~--~~~--~Nv~~~~~~~~e-~~ylaG~~Aa~~t~--t~kVG~I 126 (258)
T cd06353 55 AQGYDLIFG-TSFGFMDAALKVAKEYPDVKFEHCSGY--KTA--PNVGSYFARIYE-GRYLAGVVAGKMTK--TNKVGYV 126 (258)
T ss_pred HcCCCEEEE-CchhhhHHHHHHHHHCCCCEEEECCCC--CCC--CCeeeEechhhH-HHHHHHHHHHHhhc--CCcEEEE
Confidence 357788887 3445555666666555 3333332222 110 111112222221 12233344444432 3589999
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
...+... .......|.+-++..+-.+.....+... ..|+ ..-......+.+.++|+|+- .+ ....++++|++
T Consensus 127 ~g~~~~~-~~~~~~gF~~G~~~~~p~~~v~~~~~g~--~~D~-~~a~~~a~~l~~~G~DvI~~-~~---~~~g~~~aa~~ 198 (258)
T cd06353 127 AAFPIPE-VVRGINAFALGARSVNPDATVKVIWTGS--WFDP-AKEKEAALALIDQGADVIYQ-HT---DSPGVIQAAEE 198 (258)
T ss_pred cCcccHH-HHHHHHHHHHHHHHHCCCcEEEEEEecC--CCCc-HHHHHHHHHHHHCCCcEEEe-cC---CChHHHHHHHH
Confidence 7654321 1334455665555444443333333221 1122 22344555677789998776 44 33467888888
Q ss_pred cCC
Q 003821 163 MGL 165 (793)
Q Consensus 163 ~g~ 165 (793)
.|.
T Consensus 199 ~g~ 201 (258)
T cd06353 199 KGV 201 (258)
T ss_pred hCC
Confidence 773
No 325
>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=39.50 E-value=1.5e+02 Score=28.03 Aligned_cols=108 Identities=16% Similarity=0.171 Sum_probs=61.5
Q ss_pred EEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEE
Q 003821 33 VLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYR 112 (793)
Q Consensus 33 ~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~ 112 (793)
+||-+.+ ...+.+.-.--++.+.++..+..+++...- .++ ++++++.-.+.. .....+.+.+ |.++...
T Consensus 38 iIsRG~t--a~~lr~~~~iPVV~I~~s~~Dil~al~~a~-~~~-~~Iavv~~~~~~----~~~~~~~~ll---~~~i~~~ 106 (176)
T PF06506_consen 38 IISRGGT--AELLRKHVSIPVVEIPISGFDILRALAKAK-KYG-PKIAVVGYPNII----PGLESIEELL---GVDIKIY 106 (176)
T ss_dssp EEEEHHH--HHHHHCC-SS-EEEE---HHHHHHHHHHCC-CCT-SEEEEEEESS-S----CCHHHHHHHH---T-EEEEE
T ss_pred EEECCHH--HHHHHHhCCCCEEEECCCHhHHHHHHHHHH-hcC-CcEEEEeccccc----HHHHHHHHHh---CCceEEE
Confidence 4455555 333433222235577777777777777744 344 899999877662 1266676666 5555433
Q ss_pred eecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCC
Q 003821 113 LVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLV 166 (793)
Q Consensus 113 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~ 166 (793)
.+.. ..++...+.++++.+.++||- +.. ..+.|++.|+.
T Consensus 107 -~~~~-------~~e~~~~i~~~~~~G~~viVG--g~~-----~~~~A~~~gl~ 145 (176)
T PF06506_consen 107 -PYDS-------EEEIEAAIKQAKAEGVDVIVG--GGV-----VCRLARKLGLP 145 (176)
T ss_dssp -EESS-------HHHHHHHHHHHHHTT--EEEE--SHH-----HHHHHHHTTSE
T ss_pred -EECC-------HHHHHHHHHHHHHcCCcEEEC--CHH-----HHHHHHHcCCc
Confidence 3322 367999999999999998664 221 35677888883
No 326
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=39.45 E-value=1.3e+02 Score=30.08 Aligned_cols=88 Identities=7% Similarity=-0.025 Sum_probs=55.3
Q ss_pred HHHHHHHHHHhhc--CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 003821 62 EQITCTAALVGSY--NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE 139 (793)
Q Consensus 62 ~~~~ai~~ll~~~--~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 139 (793)
..++.+++++... .-++|.++..+. ..+.+.+.|++.|..+.....|...... .. -......+++..
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~~-------~r~~l~~~L~~~G~~v~~~~vY~~~~~~-~~---~~~~~~~l~~~~ 170 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGRP-------RAPVFEDRLAAAGIPFRVAECYDMLPVM-YS---PATLSAILGGAP 170 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccCc-------ccchhHHHHHhCCCeeEEEEEEEeecCC-CC---hHHHHHHHhcCC
Confidence 3577777776542 345666665432 2578889999999998877777543210 11 122334455567
Q ss_pred ceEEEEeccChHHHHHHHHHHHH
Q 003821 140 SRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 140 ~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
.++|++ .++..+..+++....
T Consensus 171 ~d~i~f--~S~~~~~~f~~~~~~ 191 (240)
T PRK09189 171 FDAVLL--YSRVAARRFFALMRL 191 (240)
T ss_pred CCEEEE--eCHHHHHHHHHHHhh
Confidence 887766 678888888887654
No 327
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=39.40 E-value=3.4e+02 Score=25.70 Aligned_cols=24 Identities=21% Similarity=0.271 Sum_probs=20.6
Q ss_pred ceEEEEcCCChhhHHHHHHhccCC
Q 003821 6 EVKVIVGMETWGAATMVADIGSRA 29 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~ 29 (793)
.+++++||.+++=...+..++...
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~~ 26 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQEI 26 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhcC
Confidence 578999999998888888888776
No 328
>cd08197 DOIS 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes neomycin, kanamycin, gentamicin, and ribostamycin. They are important antibacterial agents. DOIS is a homologue of the dehydroquinate synthase which catalyzes the cyclization of 3-deoxy-D-arabino-heputulosonate-7-phosphate to dehydroquinate (DHQ) in the shikimate pathway.
Probab=38.97 E-value=2.6e+02 Score=29.97 Aligned_cols=103 Identities=15% Similarity=0.102 Sum_probs=61.4
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCce---
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESR--- 141 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~--- 141 (793)
..+.+.++.++-+++.+|++...+ ....+.+.+.+++.|+++.. ..++.... ..+.+.+.+.+..+++.+++
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~---~~~~~~l~~~L~~~g~~~~~-~~~~~~e~-~k~~~~v~~~~~~~~~~~~dr~~ 86 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE---DLYGHRLLEYLREAGAPVEL-LSVPSGEE-HKTLSTLSDLVERALALGATRRS 86 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhcCCceEE-EEeCCCCC-CCCHHHHHHHHHHHHHcCCCCCc
Confidence 335566777777899988887654 33667888999988886533 23443321 11235577777788877777
Q ss_pred EEEEeccC-hHHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 142 VFIILQSS-LAMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 142 vivvl~~~-~~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+||.+.+. .-++..++......| ..++-|-|
T Consensus 87 ~IIAvGGGsv~D~ak~~A~~~~rg---ip~I~IPT 118 (355)
T cd08197 87 VIVALGGGVVGNIAGLLAALLFRG---IRLVHIPT 118 (355)
T ss_pred EEEEECCcHHHHHHHHHHHHhccC---CCEEEecC
Confidence 77763332 234444444333223 34555555
No 329
>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=38.77 E-value=1e+02 Score=30.49 Aligned_cols=78 Identities=17% Similarity=0.082 Sum_probs=49.7
Q ss_pred EEEEEEEcC---CCccccccHHHHHHHHHh--cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHH
Q 003821 78 KVIIIYEDD---ATNADTGNLALLSEALQI--SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAM 152 (793)
Q Consensus 78 ~vaii~~dd---~~G~~~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~ 152 (793)
+|++|.... .|+ ....+.+++.+++ .++++... .... ...+....+.++...+++.+++ ......
T Consensus 1 ~Ig~i~~~~~~~~~~--~~~~~~~~~~~~~~g~~~~~~~~---~~~~----~~~~~~~~~~~~~~~~~d~ii~-~~~~~~ 70 (269)
T cd01391 1 KIGVLLPLSGSAPFG--AQLLAGIELAAEEIGRGLEVILA---DSQS----DPERALEALRDLIQQGVDGIIG-PPSSSS 70 (269)
T ss_pred CceEEeecCCCcHHH--HHHHHHHHHHHHHhCCceEEEEe---cCCC----CHHHHHHHHHHHHHcCCCEEEe-cCCCHH
Confidence 467777654 466 7788888888888 66655432 2111 1134666777777778998887 444444
Q ss_pred HHHHHHHHHHcCC
Q 003821 153 GIHLFREAKEMGL 165 (793)
Q Consensus 153 ~~~~l~~a~~~g~ 165 (793)
...+...+.+.++
T Consensus 71 ~~~~~~~~~~~~i 83 (269)
T cd01391 71 ALAVVELAAAAGI 83 (269)
T ss_pred HHHHHHHHHHcCC
Confidence 4446777777665
No 330
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair.
Probab=38.60 E-value=2e+02 Score=32.97 Aligned_cols=111 Identities=18% Similarity=0.243 Sum_probs=63.8
Q ss_pred CCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCC
Q 003821 43 PPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLT 122 (793)
Q Consensus 43 ~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~ 122 (793)
|.+.....|+.+ +.-..-+..+++.++. -++|+|+...|..| .+....+...|++.|.++...+.-+... ..
T Consensus 26 ~~l~~l~~p~~l---~~~~~a~~~i~~~i~~--~~~I~I~gh~D~DG--i~S~~~L~~~L~~~g~~v~~~ip~r~~~-~y 97 (539)
T TIGR00644 26 PDLIDLPDPFLL---KDMEKAVERIIEAIEN--NEKILIFGDYDVDG--ITSTAILVEFLKDLGVNVDYYIPNRITE-GY 97 (539)
T ss_pred cchhhcCChhhc---CCHHHHHHHHHHHHhc--CCeEEEEEccCCCc--HHHHHHHHHHHHHCCCceEEEeCCCCcc-cC
Confidence 334333445543 4444444555555554 36888888777788 8888889999999998765443211111 00
Q ss_pred CChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 123 DPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 123 ~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
.... ..+.++...+++.+|+++|....-..+ ..+++.|+
T Consensus 98 g~~~---~~i~~~~~~~~~LiI~vD~G~~~~~~~-~~~~~~g~ 136 (539)
T TIGR00644 98 GLSP---EALREAIENGVSLIITVDNGISAHEEI-DYAKELGI 136 (539)
T ss_pred CCCH---HHHHHHHhcCCCEEEEeCCCcccHHHH-HHHHhcCC
Confidence 0111 234445445677887768877665443 44566555
No 331
>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=38.45 E-value=1.1e+02 Score=30.92 Aligned_cols=78 Identities=14% Similarity=0.080 Sum_probs=48.9
Q ss_pred EEEEEEc---CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 79 VIIIYED---DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 79 vaii~~d---d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
|++|..+ +.|+ ....+.+++.+++.|..+... .... + .+...+.+..+...+++.+|+.....+....
T Consensus 2 i~vi~p~~~~~~~~--~~~~~g~~~~~~~~g~~~~~~---~~~~---~-~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~ 72 (275)
T cd06317 2 IGYTQNNVGSHSYQ--TTYNKAFQAAAEEDGVEVIVL---DANG---D-VARQAAQVEDLIAQKVDGIILWPTDGQAYIP 72 (275)
T ss_pred eEEEecccCCCHHH--HHHHHHHHHHHHhcCCEEEEE---cCCc---C-HHHHHHHHHHHHHcCCCEEEEecCCccccHH
Confidence 5666644 3476 788889999999999876543 2111 1 1334455666777789988872333333455
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++++.+.|.
T Consensus 73 ~l~~~~~~~i 82 (275)
T cd06317 73 GLRKAKQAGI 82 (275)
T ss_pred HHHHHHHCCC
Confidence 6777777665
No 332
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=38.37 E-value=1.2e+02 Score=32.46 Aligned_cols=88 Identities=9% Similarity=0.131 Sum_probs=53.1
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.++++.++.+++.||++...+ ....+.+.+.+++.|+++.......+.. ..+.+.+.+.+..+++ ++|+||
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~---~~~~~~v~~~l~~~~i~~~~~~~~~~~~--~pt~~~v~~~~~~~~~-~~d~II 85 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY---AAAGKKVEALLKRAGVVVLLIVLPAGDL--IADEKAVGRVLKELER-DTDLII 85 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH---HHHHHHHHHHHHHCCCeeEEeecCCCcc--cCCHHHHHHHHHHhhc-cCCEEE
Confidence 446677888888999888855443 2236788899999998654332222220 1123456666666766 899988
Q ss_pred EeccC-hHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFR 158 (793)
Q Consensus 145 vl~~~-~~~~~~~l~ 158 (793)
.+.+. .-++.+++.
T Consensus 86 aIGGGs~~D~aK~vA 100 (348)
T cd08175 86 AVGSGTINDITKYVS 100 (348)
T ss_pred EECCcHHHHHHHHHH
Confidence 73332 234444443
No 333
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. 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.
Probab=38.30 E-value=3.2e+02 Score=25.86 Aligned_cols=86 Identities=12% Similarity=0.103 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhc--CceeeEEeecCCCCCCCCChHHHHHHHHHhhcC
Q 003821 61 AEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQIS--NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT 138 (793)
Q Consensus 61 ~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 138 (793)
.+....+.+....-+ .+|.++-.. .+.++.+.+.+++. |++++.. ..... .++-...+.+|.++
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~------~~v~~~~~~~l~~~yP~l~i~g~--~g~f~-----~~~~~~i~~~I~~s 99 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGK------PDVLQQLKVKLIKEYPKLKIVGA--FGPLE-----PEERKAALAKIARS 99 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCC------HHHHHHHHHHHHHHCCCCEEEEE--CCCCC-----hHHHHHHHHHHHHc
Confidence 356677777776666 477777554 33456666666554 6776654 22222 13345678889999
Q ss_pred CceEEEEeccChHHHHHHHHHHH
Q 003821 139 ESRVFIILQSSLAMGIHLFREAK 161 (793)
Q Consensus 139 ~~~vivvl~~~~~~~~~~l~~a~ 161 (793)
++|++++ ....+.-..++.+.+
T Consensus 100 ~~dil~V-glG~PkQE~~~~~~~ 121 (177)
T TIGR00696 100 GAGIVFV-GLGCPKQEIWMRNHR 121 (177)
T ss_pred CCCEEEE-EcCCcHhHHHHHHhH
Confidence 9999998 666666556665543
No 334
>PF15179 Myc_target_1: Myc target protein 1
Probab=37.87 E-value=54 Score=30.54 Aligned_cols=30 Identities=20% Similarity=0.232 Sum_probs=24.2
Q ss_pred cccccccchhHHHHH-HHHHHHHHHHHHHHH
Q 003821 685 TECLSLQDFWGLFLI-SGTTSTICALVFLVR 714 (793)
Q Consensus 685 ~~~L~l~~l~g~f~i-l~~g~~ls~lvf~~E 714 (793)
.+.++++++..+|.+ +++|++|+.+|+++-
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~Ll 43 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALL 43 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356788899989865 788999998888876
No 335
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=37.65 E-value=1.7e+02 Score=29.93 Aligned_cols=95 Identities=8% Similarity=0.054 Sum_probs=63.1
Q ss_pred CeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHH
Q 003821 51 PFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQE 130 (793)
Q Consensus 51 ~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~ 130 (793)
.++++-..+ +..++++.++.+.+|.+.+.||-+.++ .+.+.+.|+..|.+.+..+. +-..+
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~~-------ieel~~~Lk~lGA~~ViTee-----------el~~~ 222 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRPN-------IEELKKQLKSLGATEVITEE-----------ELRDR 222 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCcc-------HHHHHHHHHHcCCceEecHH-----------Hhcch
Confidence 467666554 457899999999999999999988775 68899999999987554321 11112
Q ss_pred HHHHhhcC--CceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 131 KLLKLLRT--ESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 131 ~l~~l~~~--~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
...+.+.. .++.-+- +.....+..+.+...+-|.
T Consensus 223 ~~~k~~~~~~~prLalN-cVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 223 KMKKFKGDNPRPRLALN-CVGGKSATEIARYLERGGT 258 (354)
T ss_pred hhhhhhccCCCceEEEe-ccCchhHHHHHHHHhcCce
Confidence 23333333 4554444 4456677777777776554
No 336
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=37.27 E-value=4.6e+02 Score=27.07 Aligned_cols=72 Identities=8% Similarity=-0.060 Sum_probs=38.0
Q ss_pred cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCccccccceEEEecCCCcChHHHHHHHHhhh
Q 003821 583 LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLS 655 (793)
Q Consensus 583 ~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~ 655 (793)
...++.+.....+.+|..-+++. ..............+..+...-....++++.+++++....+...+..+.
T Consensus 217 ~~~~~~~~~~~~v~~g~gi~~lp-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~ 288 (305)
T PRK11233 217 GEIESIATLTAAIASGMGVTVLP-ESAARSLCGAVNGWMARITTPSMSLSLSLNLSARLPLSPQAQAVKEILL 288 (305)
T ss_pred EEEcCHHHHHHHHHcCCeeEecc-hhHhhcccccCceeEEeecCCccceEEEEEecCCCCCCHHHHHHHHHHH
Confidence 35677788888888887544443 3333322221111111122121235688888988776666555554443
No 337
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=37.10 E-value=22 Score=31.76 Aligned_cols=24 Identities=17% Similarity=0.184 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHH-HHhhhcccccc
Q 003821 701 GTTSTICALVFLV-RNYTSRQDASE 724 (793)
Q Consensus 701 ~~g~~ls~lvf~~-E~~~~~~~~~~ 724 (793)
+++++++++++++ -..+++|++++
T Consensus 5 ~~iii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344444444444 45565554443
No 338
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=36.96 E-value=50 Score=26.30 Aligned_cols=40 Identities=18% Similarity=0.204 Sum_probs=31.8
Q ss_pred HHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceee
Q 003821 68 AALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIE 110 (793)
Q Consensus 68 ~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~ 110 (793)
.++++.+ -++|.+.+++|.-| ......+.+.+.+.|.++.
T Consensus 36 ~~~L~~~-~~~vii~~D~D~aG--~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 36 AELLKRL-AKEVILAFDGDEAG--QKAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHhc-CCeEEEEECCCHHH--HHHHHHHHHHHHHCCCeEE
Confidence 4455544 58899999999988 8889999999999887753
No 339
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=36.64 E-value=2.1e+02 Score=26.28 Aligned_cols=65 Identities=12% Similarity=0.196 Sum_probs=41.6
Q ss_pred EEEEEEEcCC--Ccc-ccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC-CceEEEEeccC
Q 003821 78 KVIIIYEDDA--TNA-DTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT-ESRVFIILQSS 149 (793)
Q Consensus 78 ~vaii~~dd~--~G~-~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~vivvl~~~ 149 (793)
++++|...|+ .|- .......+.+.+++.|.++.....++... +.+.+.+++..+. .+|+||. .+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~------~~i~~~l~~~~~~~~~DlVit-tGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDDK------DEIREALIEWADEDGVDLILT-TGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CCC
Confidence 5777766664 331 12345678888999999877665555433 5677777765442 7898887 443
No 340
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=36.63 E-value=3.1e+02 Score=29.41 Aligned_cols=106 Identities=16% Similarity=0.186 Sum_probs=61.2
Q ss_pred CeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHH
Q 003821 51 PFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQE 130 (793)
Q Consensus 51 ~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~ 130 (793)
|+-+.+.+.. ...+.+.++.++.+++.+|++...+ ....+.+.+.|++.|+++.. ..++.... ..+.+.+.+
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~~---~~~~~~v~~~L~~~gi~~~~-~~~~~~e~-~~~~~~v~~ 80 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETVA---PLYLEKLRASLEAAGFEVDV-VVLPDGEQ-YKSLETLEK 80 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCchH---HHHHHHHHHHHHhcCCceEE-EEeCCCCC-CCCHHHHHH
Confidence 3434444442 3446667777788999999976553 55778888899988887542 22333221 112345666
Q ss_pred HHHHhhcCCc---eEEEEeccC-hHHHHHHHHHHHHcC
Q 003821 131 KLLKLLRTES---RVFIILQSS-LAMGIHLFREAKEMG 164 (793)
Q Consensus 131 ~l~~l~~~~~---~vivvl~~~-~~~~~~~l~~a~~~g 164 (793)
.+..+++.+. +.||.+.+. .-++..++......|
T Consensus 81 ~~~~~~~~~~~r~d~IIavGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 81 IYDALLEAGLDRSDTLIALGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred HHHHHHHcCCCCCCEEEEEcCcHHHHHHHHHHHHhcCC
Confidence 6777766544 888873332 234444444333333
No 341
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=36.37 E-value=2.9e+02 Score=27.73 Aligned_cols=88 Identities=14% Similarity=0.099 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHh-cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 003821 61 AEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQI-SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTE 139 (793)
Q Consensus 61 ~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 139 (793)
.+....+.+.....+ .+|.++-.+ .+.++.+.+.+++ .|+.++.... ...+ + ++....+.+|.+++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~------~~v~~~a~~~l~~~y~l~i~g~~~-Gyf~----~-~e~~~i~~~I~~s~ 157 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGK------PEVLAQTEAKLRTQWNVNIVGSQD-GYFT----P-EQRQALFERIHASG 157 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCC------HHHHHHHHHHHHHHhCCEEEEEeC-CCCC----H-HHHHHHHHHHHhcC
Confidence 345666666666666 677777554 3345555555543 4777654321 1111 1 34456788899999
Q ss_pred ceEEEEeccChHHHHHHHHHHHH
Q 003821 140 SRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 140 ~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+|++++ ....+.-..++...++
T Consensus 158 ~dil~V-glG~PkQE~~~~~~~~ 179 (243)
T PRK03692 158 AKIVTV-AMGSPKQEIFMRDCRL 179 (243)
T ss_pred CCEEEE-ECCCcHHHHHHHHHHH
Confidence 999998 6666665556555443
No 342
>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=36.12 E-value=1.1e+02 Score=30.64 Aligned_cols=77 Identities=9% Similarity=0.018 Sum_probs=47.5
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAMGIH 155 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~~~~ 155 (793)
|++|..+ +.|. ..+...+++.+++.|..+... .... ...+..+.+.++...+++.+|+ ... .+....
T Consensus 2 I~vv~~~~~~~~~--~~~~~~i~~~~~~~g~~v~~~---~~~~----~~~~~~~~~~~~~~~~~dgii~-~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFF--VTLKDGAQKEAKELGYELTVL---DAQN----DAAKQLNDIEDLITRGVDAIII-NPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHH--HHHHHHHHHHHHHcCceEEec---CCCC----CHHHHHHHHHHHHHcCCCEEEE-cCCChHHHHH
Confidence 4555543 4455 778888999999998876432 2111 1234556777777778898777 332 233345
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++++.+.|.
T Consensus 72 ~l~~l~~~~i 81 (268)
T cd06323 72 AVKAANEAGI 81 (268)
T ss_pred HHHHHHHCCC
Confidence 6777776654
No 343
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=36.04 E-value=2.6e+02 Score=29.86 Aligned_cols=84 Identities=8% Similarity=0.017 Sum_probs=53.3
Q ss_pred HHHHHHHhhcCc-eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 65 TCTAALVGSYNW-RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 65 ~ai~~ll~~~~w-~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
..+.++++.++. +++.+|.+...+ ....+.+++.+++.| ++... +.+.. +.+.+.+.+..+++.++++|
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~---~~~~~~l~~~l~~~~-~~~~~--~~~~~----t~~~v~~~~~~~~~~~~d~I 91 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTK---KIAGDRVEENLEDAG-DVEVV--IVDEA----TMEEVEKVEEKAKDVNAGFL 91 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHH---HHHHHHHHHHHHhcC-CeeEE--eCCCC----CHHHHHHHHHHhhccCCCEE
Confidence 446667777776 788888877665 334677888888877 54322 33322 33557777788888889998
Q ss_pred EEeccC-hHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFR 158 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~ 158 (793)
|.+.+. .-++..++.
T Consensus 92 IaiGGGsv~D~ak~vA 107 (350)
T PRK00843 92 IGVGGGKVIDVAKLAA 107 (350)
T ss_pred EEeCCchHHHHHHHHH
Confidence 873432 344444443
No 344
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=35.98 E-value=1.8e+02 Score=30.70 Aligned_cols=80 Identities=10% Similarity=0.105 Sum_probs=52.1
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAM 152 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~ 152 (793)
-.+|+++..+ +.|. ......+++++++.|..+... .... ......+.+..+.+.++|.+|+ ... .+.
T Consensus 25 ~~~Ig~i~~~~~~~f~--~~~~~gi~~~a~~~g~~l~i~---~~~~----~~~~~~~~i~~l~~~~vDGiIi-~~~~~~~ 94 (330)
T PRK10355 25 EVKIGMAIDDLRLERW--QKDRDIFVKKAESLGAKVFVQ---SANG----NEETQMSQIENMINRGVDVLVI-IPYNGQV 94 (330)
T ss_pred CceEEEEecCCCchHH--HHHHHHHHHHHHHcCCEEEEE---CCCC----CHHHHHHHHHHHHHcCCCEEEE-eCCChhh
Confidence 3567777754 4466 888999999999999876543 1111 1234556677788889999988 433 233
Q ss_pred HHHHHHHHHHcCC
Q 003821 153 GIHLFREAKEMGL 165 (793)
Q Consensus 153 ~~~~l~~a~~~g~ 165 (793)
....++.+.+.|.
T Consensus 95 ~~~~l~~~~~~~i 107 (330)
T PRK10355 95 LSNVIKEAKQEGI 107 (330)
T ss_pred HHHHHHHHHHCCC
Confidence 3455677777664
No 345
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=35.79 E-value=2.8e+02 Score=28.35 Aligned_cols=122 Identities=11% Similarity=0.045 Sum_probs=61.4
Q ss_pred CCCCCCChHHhhhCCCcccccCch--HHH--HHHHhhc-------------------CCCCccccccCCHHHHHHHhhcC
Q 003821 542 LKPNVTDIGWLKASNLNVGFDGDS--FVR--NYLENVL-------------------GFKPENILKVDHEYKYITDFESN 598 (793)
Q Consensus 542 ~~~~i~sl~dL~~~~~~~g~~~~~--~~~--~~l~~~~-------------------~~~~~~~~~~~~~~~~~~~l~~g 598 (793)
+...|+|++||.+ |.+|++..+. ..+ .+|++.- +..+.+++. .+..+....+.+|
T Consensus 117 ys~~i~si~DL~~-Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~-~~~~~~~~al~~g 194 (271)
T PRK11063 117 YSKKIKSLDELQD-GSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVE-LEAPQLPRSLDDA 194 (271)
T ss_pred cccCCCCHHHhcC-CCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEE-CcHHHHHHhcccc
Confidence 4557999999953 8899885422 111 2233310 011112222 2446777889999
Q ss_pred ceEEEEechhhHHHHHhcc-CCceEEeCccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHH
Q 003821 599 RIAAAFLELSYERAFLSQH-CKEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEK 666 (793)
Q Consensus 599 ~~~a~~~~~~~~~~~~~~~-c~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~ 666 (793)
++|+++...+++.-.-... -+.+. ..+.-...--.+++++..-=.+.+...+.-++....-+.+.++
T Consensus 195 ~vDaa~i~~~~a~~a~~~~~~~~l~-~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~ 262 (271)
T PRK11063 195 QIALAVINTTYASQIGLTPAKDGIF-VEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKV 262 (271)
T ss_pred cccEEEEChHHHHHcCCCCCCCeeE-ECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHH
Confidence 9999999877765322111 12121 1111111112455665544344555555545544444445444
No 346
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=35.78 E-value=2.8e+02 Score=29.52 Aligned_cols=83 Identities=5% Similarity=-0.065 Sum_probs=52.2
Q ss_pred HHHHHHh-hcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 66 CTAALVG-SYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 66 ai~~ll~-~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
.+.++++ ..+.+++.+|.+...+ ....+.+++.|++.| .+... +.+.. +.+.+.+.+..+++.++|+||
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~--~~~~~----~~~~v~~~~~~~~~~~~d~iI 83 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK---SIAGKKVEALLEDEG-EVDVV--IVEDA----TYEEVEKVESSARDIGADFVI 83 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH---HHHHHHHHHHHHhcC-CeEEE--EeCCC----CHHHHHHHHHHhhhcCCCEEE
Confidence 3556676 3567899888865543 456778888998888 54332 22221 235677777888888899988
Q ss_pred EeccC-hHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFR 158 (793)
Q Consensus 145 vl~~~-~~~~~~~l~ 158 (793)
.+.+. .-++..++.
T Consensus 84 aiGGGs~~D~aK~~a 98 (339)
T cd08173 84 GVGGGRVIDVAKVAA 98 (339)
T ss_pred EeCCchHHHHHHHHH
Confidence 73332 234444443
No 347
>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=35.77 E-value=1.4e+02 Score=30.98 Aligned_cols=71 Identities=11% Similarity=0.105 Sum_probs=44.3
Q ss_pred CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 86 DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 86 d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
++|. ....+.+++++++.|.++... .... ......+.+..+.+.++|.||+...........++.+.+.|+
T Consensus 10 ~~~~--~~~~~~i~~~a~~~g~~v~~~---~~~~----~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 10 LERW--QKDRDIFVAAAESLGAKVFVQ---SANG----NEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred hhhH--HHHHHHHHHHHHhcCCEEEEE---eCCC----CHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 4455 777888888888888876432 1111 113344677777778888888722233344567777777665
No 348
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=35.33 E-value=1.3e+02 Score=26.80 Aligned_cols=46 Identities=20% Similarity=0.231 Sum_probs=31.3
Q ss_pred ccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 93 GNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 93 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
.....+.+.+++.|.++.....++.. ...+.+.+.+..+. +|+||.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd------~~~i~~~i~~~~~~-~Dlvit 64 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDD------ADSIRAALIEASRE-ADLVLT 64 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCC------HHHHHHHHHHHHhc-CCEEEE
Confidence 34567788889999887655444432 35677777776544 898887
No 349
>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=34.86 E-value=1.3e+02 Score=30.11 Aligned_cols=76 Identities=11% Similarity=0.042 Sum_probs=48.1
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ..+...+++++++.|..+..... ..+ .+...+.+..+.+.+.|.+|+ ....... ..
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~~--~~~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~~~-~~ 70 (265)
T cd06299 2 IGVIVPDIRNPYF--ASLATAIQDAASAAGYSTIIGNS--DEN-----PETENRYLDNLLSQRVDGIIV-VPHEQSA-EQ 70 (265)
T ss_pred EEEEecCCCCccH--HHHHHHHHHHHHHcCCEEEEEeC--CCC-----HHHHHHHHHHHHhcCCCEEEE-cCCCCCh-HH
Confidence 5666653 4455 77888899999999987654311 111 133456677777788998888 4332222 34
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 71 ~~~l~~~~i 79 (265)
T cd06299 71 LEDLLKRGI 79 (265)
T ss_pred HHHHHhCCC
Confidence 778777765
No 350
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=34.65 E-value=51 Score=23.55 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccCC
Q 003821 452 GMWIVTGAILIYTMSVVWFLEHRWNP 477 (793)
Q Consensus 452 ~vWl~i~~~~i~~~~~~~~~~~~~~~ 477 (793)
++|.++..+++.+++++|.+.....+
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~ 37 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKK 37 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcch
Confidence 67888888889999999998866544
No 351
>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=34.26 E-value=1.4e+02 Score=30.29 Aligned_cols=79 Identities=10% Similarity=-0.017 Sum_probs=48.2
Q ss_pred EEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
+|++|..+ +.|. ..+...+++.+++.|.++... .... +. ..-.+.+.++.+.+++.+|+.....+....
T Consensus 1 ~i~vi~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~---~~~~---~~-~~~~~~i~~~~~~~~dgiii~~~~~~~~~~ 71 (277)
T cd06319 1 QIAYIVSDLRIPFW--QIMGRGVKSKAKALGYDAVEL---SAEN---SA-KKELENLRTAIDKGVSGIIISPTNSSAAVT 71 (277)
T ss_pred CeEEEeCCCCchHH--HHHHHHHHHHHHhcCCeEEEe---cCCC---CH-HHHHHHHHHHHhcCCCEEEEcCCchhhhHH
Confidence 35666654 3455 778888889999999876532 2111 11 223456667777789998872323333345
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++.+.+.|.
T Consensus 72 ~l~~~~~~~i 81 (277)
T cd06319 72 LLKLAAQAKI 81 (277)
T ss_pred HHHHHHHCCC
Confidence 6777777665
No 352
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=33.84 E-value=32 Score=32.64 Aligned_cols=31 Identities=26% Similarity=0.179 Sum_probs=27.9
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
|+.|+||.+|+=+.....+++.+++++|+.+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 5789999999999999999999999999843
No 353
>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=33.74 E-value=1.8e+02 Score=29.32 Aligned_cols=77 Identities=6% Similarity=0.008 Sum_probs=45.4
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHh--cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-hHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQI--SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-LAMG 153 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~~~~ 153 (793)
|++|..+ +.|- ..+...+++++++ .|.++... .... + .......+..+...+++.+|+ ... .+..
T Consensus 2 Ig~v~~~~~~~~~--~~~~~gi~~~~~~~~~~~~~~~~---~~~~---~-~~~~~~~i~~~~~~~~dgiIi-~~~~~~~~ 71 (271)
T cd06321 2 IGVSVGDLGNPFF--VALAKGAEAAAKKLNPGVKVTVV---SADY---D-LNKQVSQIDNFIAAKVDLILL-NAVDSKGI 71 (271)
T ss_pred eEEEecccCCHHH--HHHHHHHHHHHHHhCCCeEEEEc---cCCC---C-HHHHHHHHHHHHHhCCCEEEE-eCCChhHh
Confidence 5666654 3454 7788888888888 55544322 1111 1 123445666677778888887 443 2333
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...++.+.+.|.
T Consensus 72 ~~~i~~~~~~~i 83 (271)
T cd06321 72 APAVKRAQAAGI 83 (271)
T ss_pred HHHHHHHHHCCC
Confidence 566777777664
No 354
>COG3181 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.58 E-value=2.7e+02 Score=29.13 Aligned_cols=126 Identities=13% Similarity=0.047 Sum_probs=77.9
Q ss_pred ccCCCCCCChHHhh-----hCC-CcccccCc-h---HHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhh
Q 003821 540 QRLKPNVTDIGWLK-----ASN-LNVGFDGD-S---FVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSY 609 (793)
Q Consensus 540 ~~~~~~i~sl~dL~-----~~~-~~~g~~~~-~---~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~ 609 (793)
-+...+.+|++||. +.+ +.++.... + ..-..+.+..+. ..+..+|+.-.+.+.+|..|++++.+.....
T Consensus 128 v~~~s~~~t~~dlv~~~k~~p~~v~~~~~g~Gs~dhl~~~~~~k~~Gi-~~~~Vpy~g~gea~taLlgg~v~a~~~~~se 206 (319)
T COG3181 128 VRADSPYKTLKDLVAYAKADPGSVIGGGSGLGSADHLAGALFAKAAGI-KITYVPYKGGGEALTALLGGHVDAGSTNLSE 206 (319)
T ss_pred EeCCCCcccHHHHHHHHHhCCCeEEecCCCCCcHHHHHHHHHHHHhCC-ceeEEeecCccHHHHHHhcCceeeeecChhh
Confidence 34455789999994 233 33433222 1 112234444444 5677889999999999999999999987655
Q ss_pred HHHHHhc-cCC--------ceEEeC----------ccccccceEEEecCCCc--ChHHHHHHHHhhhccCchHHHHHH
Q 003821 610 ERAFLSQ-HCK--------EYTATI----------PTYRFGGFAFVFQKGSP--LAADFSEAILKLSENGELRSLEEK 666 (793)
Q Consensus 610 ~~~~~~~-~c~--------~~~~~~----------~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~~ 666 (793)
..-+.+. .-+ ++.... +.+.....++..|+|-| ....++.++.++.++..+++..++
T Consensus 207 ~~~~vksG~lr~Lav~s~eRl~~~pdvPT~~E~G~~~~~~~wrgvfap~g~~~e~~~~~~~a~kk~l~s~e~~~~~~~ 284 (319)
T COG3181 207 LLSQVKSGTLRLLAVFSEERLPGLPDVPTLKEQGYDVVMSIWRGVFAPAGTPDEIIAKLSAALKKALASPEWQKRLKE 284 (319)
T ss_pred hhhhhccCceEEEEeechhhcCCCCCCCChHhcCCceeeeeeeEEEeCCCCCHHHHHHHHHHHHHHhcCHHHHHHHHh
Confidence 5444332 111 111111 01112234788899965 999999999999999877654443
No 355
>PF15050 SCIMP: SCIMP protein
Probab=32.64 E-value=3.3e+02 Score=23.59 Aligned_cols=16 Identities=13% Similarity=0.154 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 003821 699 ISGTTSTICALVFLVR 714 (793)
Q Consensus 699 il~~g~~ls~lvf~~E 714 (793)
|..+++++++++|++-
T Consensus 16 II~vS~~lglIlyCvc 31 (133)
T PF15050_consen 16 IILVSVVLGLILYCVC 31 (133)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455666677777554
No 356
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=32.62 E-value=3.2e+02 Score=27.68 Aligned_cols=160 Identities=13% Similarity=0.028 Sum_probs=82.6
Q ss_pred CcccceEEEEc-CCChhhHHHHHHhcc-CCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 2 IKEKEVKVIVG-METWGAATMVADIGS-RAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 2 i~~~~V~aiiG-p~~s~~~~~va~i~~-~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
..+..|.|||= -.-++++.+.-.+=+ +-.|..|+..... +|..-...-.. -+.++....+..++...+.+|-+.+
T Consensus 58 AdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~E-Dp~~i~~~aDi--~~~~D~~~~G~~i~~~Ak~mGAktF 134 (275)
T PF12683_consen 58 ADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHE-DPEVISSAADI--VVNPDEISRGYTIVWAAKKMGAKTF 134 (275)
T ss_dssp GG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S--HHHHHHHSSE--EEE--HHHHHHHHHHHHHHTT-S-E
T ss_pred ccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcC-CHHHHhhccCe--EeccchhhccHHHHHHHHHcCCceE
Confidence 34566777763 333455555555543 3567777644331 12221222232 4557888889999999999999999
Q ss_pred EEEEEcCCCc--cccccHHHHHHHHHhcCceeeEEeecCCCCCCCCCh-HH-HH-HHHHHhhcCCceEEEEeccChHHHH
Q 003821 80 IIIYEDDATN--ADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPK-QF-LQ-EKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 80 aii~~dd~~G--~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~-~~-~~-~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+-+.-..+-+ ....-.+.+++..++.|++.+....-+|.++..... +. +. +.-+.+++-+.++-+. +++..+..
T Consensus 135 Vh~sfprhms~~~l~~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff-~TN~a~~e 213 (275)
T PF12683_consen 135 VHYSFPRHMSYELLARRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFF-CTNDAMTE 213 (275)
T ss_dssp EEEEETTGGGSHHHHHHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEE-ESSHHHHH
T ss_pred EEEechhhcchHHHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEE-ecCccccH
Confidence 9997766532 111224456677888999987664444433110000 11 11 1223355558888787 88888999
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
.+++++.+.|.
T Consensus 214 pllk~~~~~g~ 224 (275)
T PF12683_consen 214 PLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHH--
T ss_pred HHHHHHHHcCC
Confidence 99999999876
No 357
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=32.24 E-value=1.9e+02 Score=30.43 Aligned_cols=79 Identities=19% Similarity=0.125 Sum_probs=50.5
Q ss_pred eEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 77 RKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+.++++..+ +.|. ..+...+.+++++.|..+... . ...+ .......+..+.+.+.+.||+ ........
T Consensus 65 ~~Igvv~~~~~~~~~--~~i~~gi~~~a~~~g~~~~~~-~-~~~~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~~~~ 134 (342)
T PRK10014 65 GVIGLIVRDLSAPFY--AELTAGLTEALEAQGRMVFLL-Q-GGKD-----GEQLAQRFSTLLNQGVDGVVI-AGAAGSSD 134 (342)
T ss_pred CEEEEEeCCCccchH--HHHHHHHHHHHHHcCCEEEEE-e-CCCC-----HHHHHHHHHHHHhCCCCEEEE-eCCCCCcH
Confidence 478888864 4465 778888999999999765432 1 1111 133456677787788999888 43332334
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.|.
T Consensus 135 ~~~~~l~~~~i 145 (342)
T PRK10014 135 DLREMAEEKGI 145 (342)
T ss_pred HHHHHHhhcCC
Confidence 56666666665
No 358
>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=32.19 E-value=1.4e+02 Score=31.04 Aligned_cols=77 Identities=13% Similarity=0.197 Sum_probs=48.4
Q ss_pred EEEEEEc---CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC--CceEEEEeccChHHH
Q 003821 79 VIIIYED---DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT--ESRVFIILQSSLAMG 153 (793)
Q Consensus 79 vaii~~d---d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivvl~~~~~~~ 153 (793)
|+++..+ +.|. ......+++++++.|.++.... ...+ .+.....+..+.+. ++|.||+ .......
T Consensus 2 Igvi~~~~~~~~~~--~~~~~gi~~~~~~~g~~v~~~~--~~~~-----~~~~~~~i~~~~~~~~~vdgiIi-~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFW--NSVARFMQAAADDLGIELEVLY--AERD-----RFLMLQQARTILQRPDKPDALIF-TNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHH--HHHHHHHHHHHHhcCCeEEEEe--CCCC-----HHHHHHHHHHHHHhccCCCEEEE-cCCccch
Confidence 5666643 3455 7778888999999998765431 1111 12344567777777 8999888 4433334
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
..+++.+.+.|+
T Consensus 72 ~~~~~~~~~~gi 83 (305)
T cd06324 72 PELLRLAEGAGV 83 (305)
T ss_pred HHHHHHHHhCCC
Confidence 556777777765
No 359
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=32.03 E-value=36 Score=31.46 Aligned_cols=31 Identities=19% Similarity=0.313 Sum_probs=27.8
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
+++|=||.+|+.+.....+++.++.|+||.+
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG 32 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLKLVSAG 32 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCceeecc
Confidence 4678899999999999999999999999844
No 360
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=31.82 E-value=82 Score=21.87 Aligned_cols=20 Identities=20% Similarity=0.409 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 003821 694 WGLFLISGTTSTICALVFLV 713 (793)
Q Consensus 694 ~g~f~il~~g~~ls~lvf~~ 713 (793)
.-.|+.++.|+++++.+|++
T Consensus 5 LRs~L~~~F~~lIC~Fl~~~ 24 (54)
T PF06716_consen 5 LRSYLLLAFGFLICLFLFCL 24 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44577777787777666554
No 361
>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=31.71 E-value=1.3e+02 Score=30.21 Aligned_cols=76 Identities=11% Similarity=0.100 Sum_probs=45.0
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
++++..+ +.|. ..+...+++.+++.|.++.... .... .....+.+..+...+.|.+|+.....+. ..
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~--~~~~-----~~~~~~~i~~l~~~~~dgiii~~~~~~~--~~ 70 (270)
T cd06296 2 IGLVFPDLDSPWA--SEVLRGVEEAAAAAGYDVVLSE--SGRR-----TSPERQWVERLSARRTDGVILVTPELTS--AQ 70 (270)
T ss_pred eEEEECCCCCccH--HHHHHHHHHHHHHcCCeEEEec--CCCc-----hHHHHHHHHHHHHcCCCEEEEecCCCCh--HH
Confidence 4566543 4565 7788888888888888764331 1111 1234456677777788887772333222 34
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.+.
T Consensus 71 ~~~~~~~~i 79 (270)
T cd06296 71 RAALRRTGI 79 (270)
T ss_pred HHHHhcCCC
Confidence 666666554
No 362
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=31.66 E-value=2.1e+02 Score=29.92 Aligned_cols=80 Identities=14% Similarity=0.129 Sum_probs=48.9
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
-+.|+++..+ +.|. ..+...+++.+++.|..+.... ...+ .+...+.+..+...+.|.+|+ .......
T Consensus 61 ~~~Igvv~~~~~~~~~--~~l~~gi~~~~~~~g~~~~~~~--~~~~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~~~ 130 (328)
T PRK11303 61 TRSIGLIIPDLENTSY--ARIAKYLERQARQRGYQLLIAC--SDDQ-----PDNEMRCAEHLLQRQVDALIV-STSLPPE 130 (328)
T ss_pred CceEEEEeCCCCCchH--HHHHHHHHHHHHHcCCEEEEEe--CCCC-----HHHHHHHHHHHHHcCCCEEEE-cCCCCCC
Confidence 3578888754 3454 6778889999999998865431 1111 122345566677778999888 4332222
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...++++.+.|+
T Consensus 131 ~~~~~~l~~~~i 142 (328)
T PRK11303 131 HPFYQRLQNDGL 142 (328)
T ss_pred hHHHHHHHhcCC
Confidence 345666666664
No 363
>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=31.64 E-value=1.5e+02 Score=29.97 Aligned_cols=78 Identities=14% Similarity=0.009 Sum_probs=46.3
Q ss_pred CceEEEEEEEc---------CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 75 NWRKVIIIYED---------DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 75 ~w~~vaii~~d---------d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
..+.|++|..+ +.|. ....+.+++.+++.|..+... .... .+.......+.+.++|.||+
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~--~~~~~gi~~~~~~~g~~~~v~---~~~~------~~~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFF--LSLLGGIADALAERGYDLLLS---FVSS------PDRDWLARYLASGRADGVIL 70 (275)
T ss_pred CceEEEEEecCccccccccCCchH--HHHHHHHHHHHHHcCCEEEEE---eCCc------hhHHHHHHHHHhCCCCEEEE
Confidence 35678888853 2344 667788899999999886543 1111 11223334455568898887
Q ss_pred eccChHHHHHHHHHHHHcCC
Q 003821 146 LQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 146 l~~~~~~~~~~l~~a~~~g~ 165 (793)
..+..+ ...++++.+.|.
T Consensus 71 ~~~~~~--~~~~~~~~~~~i 88 (275)
T cd06295 71 IGQHDQ--DPLPERLAETGL 88 (275)
T ss_pred eCCCCC--hHHHHHHHhCCC
Confidence 232222 234677777666
No 364
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=31.57 E-value=2.3e+02 Score=29.92 Aligned_cols=83 Identities=7% Similarity=0.009 Sum_probs=51.1
Q ss_pred cCceEEEEEEEc--CCCccccccHHHHHHHHHhcC-ceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh
Q 003821 74 YNWRKVIIIYED--DATNADTGNLALLSEALQISN-SEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL 150 (793)
Q Consensus 74 ~~w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~ 150 (793)
-+-+.|+++..+ +.|- ..+...+++.+++.| ..+... .... ..+.-...+..+...+.|.+|+.....
T Consensus 22 ~~~~~Igvv~~~~~~~f~--~~~~~gi~~~a~~~g~~~~~~~---~~~~----~~~~~~~~i~~l~~~~vdgiIi~~~~~ 92 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFM--SVVRKAIEKDAKAAPDVQLLMN---DSQN----DQSKQNDQIDVLLAKGVKALAINLVDP 92 (330)
T ss_pred cCCceEEEEEecCcchHH--HHHHHHHHHHHHhcCCeEEEEe---cCCC----CHHHHHHHHHHHHHcCCCEEEEeccCH
Confidence 345678888865 3344 677888889998885 444321 2111 112233566777778899988822344
Q ss_pred HHHHHHHHHHHHcCC
Q 003821 151 AMGIHLFREAKEMGL 165 (793)
Q Consensus 151 ~~~~~~l~~a~~~g~ 165 (793)
+.....++++.+.|+
T Consensus 93 ~~~~~~l~~l~~~gi 107 (330)
T PRK15395 93 AAAPTVIEKARGQDV 107 (330)
T ss_pred HHHHHHHHHHHHCCC
Confidence 445567788887775
No 365
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=31.24 E-value=2.3e+02 Score=26.08 Aligned_cols=64 Identities=17% Similarity=0.082 Sum_probs=40.6
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS 149 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~ 149 (793)
+|+||...+.. ....+...+.|++.|+.....+.-.... .+.+.+.++++.+.+.++||...+.
T Consensus 2 ~V~Ii~gs~SD---~~~~~~a~~~L~~~gi~~~~~V~saHR~-----p~~l~~~~~~~~~~~~~viIa~AG~ 65 (150)
T PF00731_consen 2 KVAIIMGSTSD---LPIAEEAAKTLEEFGIPYEVRVASAHRT-----PERLLEFVKEYEARGADVIIAVAGM 65 (150)
T ss_dssp EEEEEESSGGG---HHHHHHHHHHHHHTT-EEEEEE--TTTS-----HHHHHHHHHHTTTTTESEEEEEEES
T ss_pred eEEEEeCCHHH---HHHHHHHHHHHHHcCCCEEEEEEeccCC-----HHHHHHHHHHhccCCCEEEEEECCC
Confidence 57777766532 6678888999999997665443222111 2456777777777788988883333
No 366
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=31.16 E-value=1.1e+02 Score=33.30 Aligned_cols=51 Identities=12% Similarity=0.148 Sum_probs=36.9
Q ss_pred ccccchhHHHHHHHHHhhcc-ccc-cccchhhHHHHHHHHHHHHHHHHHHhhhheee
Q 003821 483 WNIQIGTALWFTFSSLFFAH-RER-IYSNLTRLVVVVWLFVVLILNSSYTASLSSML 537 (793)
Q Consensus 483 ~~~~~~~~~~~~~~~l~~~~-~~~-~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~L 537 (793)
....+.+++|+...+++..| ++. |....+|.+.+.=- ++.+..+|-|+|.+
T Consensus 284 ~~~~~~nsmWli~iTFlsiGYGDiVP~TycGr~v~l~tG----ivGa~~sallvAvi 336 (489)
T KOG3684|consen 284 VTINYLNSMWLIAITFLSIGYGDIVPNTYCGRGVALLTG----IVGAGCSSLLVAVI 336 (489)
T ss_pred hHHHHHhhHHHHHHHHhhcccCcccCCccccchHHHHhh----hhhhhHHHHHHHHH
Confidence 44568999999999999999 774 79999998866544 44445555555543
No 367
>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=30.62 E-value=1.4e+02 Score=29.81 Aligned_cols=76 Identities=13% Similarity=0.034 Sum_probs=45.2
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ..+++.+++++++.|.++.... ...+ .......++++.+.++|.+|+ ..... ...+
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~--~~~~-----~~~~~~~i~~l~~~~~dgii~-~~~~~-~~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFST--SRTVKGILAALYENGYQMLLMN--TNFS-----IEKEIEALELLARQKVDGIIL-LATTI-TDEH 70 (259)
T ss_pred eEEEecCCccchH--HHHHHHHHHHHHHCCCEEEEEe--CCCC-----HHHHHHHHHHHHhcCCCEEEE-eCCCC-CHHH
Confidence 4566654 2344 6778888899999998765321 1111 133456677777778998888 33321 2345
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|.
T Consensus 71 ~~~~~~~~i 79 (259)
T cd01542 71 REAIKKLNV 79 (259)
T ss_pred HHHHhcCCC
Confidence 566665553
No 368
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.18 E-value=1.1e+02 Score=23.47 Aligned_cols=22 Identities=9% Similarity=-0.008 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 003821 696 LFLISGTTSTICALVFLVRNYT 717 (793)
Q Consensus 696 ~f~il~~g~~ls~lvf~~E~~~ 717 (793)
++..+++|.+++.++.+....+
T Consensus 24 il~~f~~G~llg~l~~~~~~~~ 45 (68)
T PF06305_consen 24 ILIAFLLGALLGWLLSLPSRLR 45 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666665433
No 369
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=29.92 E-value=3.9e+02 Score=25.74 Aligned_cols=76 Identities=12% Similarity=0.098 Sum_probs=42.9
Q ss_pred HHHHHHHHHhh--cCceEEEEEEEc-CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHH-HHhhcC
Q 003821 63 QITCTAALVGS--YNWRKVIIIYED-DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKL-LKLLRT 138 (793)
Q Consensus 63 ~~~ai~~ll~~--~~w~~vaii~~d-d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l-~~l~~~ 138 (793)
..++|++.++. .+-+-.++++++ +.|| .+.+++.|+... .+.+.. ..++.++...+ ..+++.
T Consensus 13 Nlqaiida~~~~~~~a~i~~Visd~~~A~~---------lerA~~~gIpt~---~~~~k~--~~~r~~~d~~l~~~l~~~ 78 (200)
T COG0299 13 NLQAIIDAIKGGKLDAEIVAVISDKADAYA---------LERAAKAGIPTV---VLDRKE--FPSREAFDRALVEALDEY 78 (200)
T ss_pred cHHHHHHHHhcCCCCcEEEEEEeCCCCCHH---------HHHHHHcCCCEE---Eecccc--CCCHHHHHHHHHHHHHhc
Confidence 35778887753 333445555555 3465 345667888642 223322 12334455554 557777
Q ss_pred CceEEEEeccChHHH
Q 003821 139 ESRVFIILQSSLAMG 153 (793)
Q Consensus 139 ~~~vivvl~~~~~~~ 153 (793)
++|.|++ .++..-.
T Consensus 79 ~~dlvvL-AGyMrIL 92 (200)
T COG0299 79 GPDLVVL-AGYMRIL 92 (200)
T ss_pred CCCEEEE-cchHHHc
Confidence 9999888 6765433
No 370
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=29.63 E-value=2.1e+02 Score=29.97 Aligned_cols=82 Identities=10% Similarity=0.035 Sum_probs=53.8
Q ss_pred eEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 77 RKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
.++++++.. +.|. ....+.++++.++.|.... ....+... |. ..-.+.+..+...+++.|++...++....
T Consensus 34 ~~i~~~~~~~~~~f~--~~~~~g~~~~a~~~g~~~~-~~~~~~~~---d~-~~Q~~~i~~~ia~~~daIiv~~~d~~~~~ 106 (322)
T COG1879 34 KTIGVVVPTLGNPFF--QAVRKGAEAAAKKLGVVVA-VVIADAQN---DV-AKQIAQIEDLIAQGVDAIIINPVDPDALT 106 (322)
T ss_pred ceEEEEeccCCChHH--HHHHHHHHHHHHHcCCcEE-EEeccccc---Ch-HHHHHHHHHHHHcCCCEEEEcCCChhhhH
Confidence 567777664 3365 6777788888888886211 21222111 12 22344556666778999888566778888
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..+++|.+.|.
T Consensus 107 ~~v~~a~~aGI 117 (322)
T COG1879 107 PAVKKAKAAGI 117 (322)
T ss_pred HHHHHHHHCCC
Confidence 99999999987
No 371
>PTZ00088 adenylate kinase 1; Provisional
Probab=29.59 E-value=42 Score=33.43 Aligned_cols=31 Identities=13% Similarity=0.277 Sum_probs=28.1
Q ss_pred EEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 8 KVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 8 ~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
++|+||.+|+=+.....+++.+++|+|+.+.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence 7889999999999999999999999998543
No 372
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=29.49 E-value=2.1e+02 Score=30.30 Aligned_cols=87 Identities=15% Similarity=0.124 Sum_probs=52.1
Q ss_pred HHHHHHHhhcCc-eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 65 TCTAALVGSYNW-RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 65 ~ai~~ll~~~~w-~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
..+.++++.++. +++.+|.+...+ ....+.+.+.|++.|+++... ..... ...+.+.+.+.+..+++ ++++|
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~---~~~~~~i~~~L~~~~~~~~i~--~~~~~-~~p~~~~v~~~~~~~~~-~~d~I 84 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTY---KVAGKEIIERLESNNFTKEVL--ERDSL-LIPDEYELGEVLIKLDK-DTEFL 84 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHH---HHHHHHHHHHHHHcCCeEEEE--ecCCC-CCCCHHHHHHHHHHhhc-CCCEE
Confidence 345667777776 788888877654 223578888998888765321 11111 11123556777777777 88988
Q ss_pred EEeccC-hHHHHHHHH
Q 003821 144 IILQSS-LAMGIHLFR 158 (793)
Q Consensus 144 vvl~~~-~~~~~~~l~ 158 (793)
|.+.+. .-++..++.
T Consensus 85 IaiGGGsv~D~aK~iA 100 (332)
T cd08549 85 LGIGSGTIIDLVKFVS 100 (332)
T ss_pred EEECCcHHHHHHHHHH
Confidence 873332 234444443
No 373
>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=29.48 E-value=3.8e+02 Score=23.36 Aligned_cols=64 Identities=14% Similarity=0.157 Sum_probs=41.4
Q ss_pred cccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC----hHHHHHHHHHHHHcCCC
Q 003821 92 TGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS----LAMGIHLFREAKEMGLV 166 (793)
Q Consensus 92 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~----~~~~~~~l~~a~~~g~~ 166 (793)
.-.+..+...++..|.++.+.-. .. + ....+..+.+.++++|.+ ++. .+.+..++++.++.+..
T Consensus 13 ~lG~~~~~~~l~~~G~~vi~lG~---~v----p---~e~~~~~a~~~~~d~V~i-S~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 13 DRGAKVIARALRDAGFEVIYTGL---RQ----T---PEEIVEAAIQEDVDVIGL-SSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred HHHHHHHHHHHHHCCCEEEECCC---CC----C---HHHHHHHHHHcCCCEEEE-cccchhhHHHHHHHHHHHHhcCCC
Confidence 33467777889999998765422 11 1 224455667779999888 554 34556677777777663
No 374
>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=29.30 E-value=2.3e+02 Score=25.76 Aligned_cols=48 Identities=21% Similarity=0.233 Sum_probs=33.6
Q ss_pred cHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC
Q 003821 94 NLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS 149 (793)
Q Consensus 94 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~ 149 (793)
....+.+.+++.|.++.....++... +++.+.+.+..+ ++|+||. .+.
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd~------~~i~~~l~~~~~-~~DliIt-tGG 75 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDDP------EEIREILRKAVD-EADVVLT-TGG 75 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCCH------HHHHHHHHHHHh-CCCEEEE-CCC
Confidence 45678888999999877665555433 567777777653 7899888 443
No 375
>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=29.15 E-value=2e+02 Score=29.01 Aligned_cols=78 Identities=12% Similarity=0.021 Sum_probs=44.7
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhc-CceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQIS-NSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~ 155 (793)
|+++..+ +.|. ..+...+++.+++. |..+... ... .+ . .+....+..+.+.++|.||+.....+....
T Consensus 2 ig~~~~~~~~~~~--~~~~~~i~~~~~~~~g~~~~~~-~~~-~~----~-~~~~~~i~~~~~~~vdgiii~~~~~~~~~~ 72 (270)
T cd06308 2 IGFSQCNLADPWR--AAMNDEIQREASNYPDVELIIA-DAA-DD----N-SKQVADIENFIRQGVDLLIISPNEAAPLTP 72 (270)
T ss_pred EEEEeeCCCCHHH--HHHHHHHHHHHHhcCCcEEEEE-cCC-CC----H-HHHHHHHHHHHHhCCCEEEEecCchhhchH
Confidence 5566654 2344 66778888888885 7776432 111 11 1 334456666666788888872223333345
Q ss_pred HHHHHHHcCC
Q 003821 156 LFREAKEMGL 165 (793)
Q Consensus 156 ~l~~a~~~g~ 165 (793)
.++.+.+.|+
T Consensus 73 ~~~~~~~~~i 82 (270)
T cd06308 73 VVEEAYRAGI 82 (270)
T ss_pred HHHHHHHCCC
Confidence 6667766665
No 376
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=29.06 E-value=91 Score=32.58 Aligned_cols=83 Identities=18% Similarity=0.155 Sum_probs=46.7
Q ss_pred eccCCCCCCChHHhhhCCCcccc-cCchHHHHH---HHhhcCCCCccccc--cCCHHHHHHHhhcCceEEEEechhh---
Q 003821 539 VQRLKPNVTDIGWLKASNLNVGF-DGDSFVRNY---LENVLGFKPENILK--VDHEYKYITDFESNRIAAAFLELSY--- 609 (793)
Q Consensus 539 ~~~~~~~i~sl~dL~~~~~~~g~-~~~~~~~~~---l~~~~~~~~~~~~~--~~~~~~~~~~l~~g~~~a~~~~~~~--- 609 (793)
+.+-...|++++||. |+|+.+ ..+|-.+.. +.+..+.....+.. .-...+..+++++|.+||.+.-...
T Consensus 122 v~r~d~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~g~iDA~~~~~G~p~~ 199 (321)
T COG2358 122 VTRKDAGIKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKNGTIDAAFYVAGVPNP 199 (321)
T ss_pred EEecCCCcceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhCCcccEEEEecCCCCc
Confidence 355556699999999 888877 333333322 22233333333222 2233455788999999998863222
Q ss_pred HHHHHhccCCceEEe
Q 003821 610 ERAFLSQHCKEYTAT 624 (793)
Q Consensus 610 ~~~~~~~~c~~~~~~ 624 (793)
.-..+...|+ +.++
T Consensus 200 ai~el~~~~~-i~lv 213 (321)
T COG2358 200 AISELATTCD-IVLV 213 (321)
T ss_pred cHHHHHhhCC-eEEE
Confidence 2244455565 4444
No 377
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=28.93 E-value=1e+02 Score=26.82 Aligned_cols=87 Identities=11% Similarity=0.125 Sum_probs=44.7
Q ss_pred eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 77 RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 77 ~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++||-..++-+ . ....+-..+.+.|.++. .+.+....-+... ....+..+ ....|.+++ +..++....+
T Consensus 1 ksiAVvGaS~~~~--~-~g~~v~~~l~~~G~~v~---~Vnp~~~~i~G~~-~y~sl~e~-p~~iDlavv-~~~~~~~~~~ 71 (116)
T PF13380_consen 1 KSIAVVGASDNPG--K-FGYRVLRNLKAAGYEVY---PVNPKGGEILGIK-CYPSLAEI-PEPIDLAVV-CVPPDKVPEI 71 (116)
T ss_dssp -EEEEET--SSTT--S-HHHHHHHHHHHTT-EEE---EESTTCSEETTEE--BSSGGGC-SST-SEEEE--S-HHHHHHH
T ss_pred CEEEEEcccCCCC--C-hHHHHHHHHHhCCCEEE---EECCCceEECcEE-eeccccCC-CCCCCEEEE-EcCHHHHHHH
Confidence 5788887655432 2 23444445555776643 2222221000101 11122222 357899888 8999999999
Q ss_pred HHHHHHcCCCCCCeEEEEe
Q 003821 157 FREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 157 l~~a~~~g~~~~~~~wi~~ 175 (793)
++++.+.|. ..+|+.+
T Consensus 72 v~~~~~~g~---~~v~~~~ 87 (116)
T PF13380_consen 72 VDEAAALGV---KAVWLQP 87 (116)
T ss_dssp HHHHHHHT----SEEEE-T
T ss_pred HHHHHHcCC---CEEEEEc
Confidence 999999985 5689988
No 378
>PRK00865 glutamate racemase; Provisional
Probab=28.75 E-value=4.7e+02 Score=26.56 Aligned_cols=32 Identities=28% Similarity=0.373 Sum_probs=22.1
Q ss_pred ccceEEEEcCCChhhHHHHHHhccCCCccEEe
Q 003821 4 EKEVKVIVGMETWGAATMVADIGSRAQVPVLS 35 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is 35 (793)
+.|+.+|+=+-++..+.++..+-+..++|+|.
T Consensus 65 ~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 65 EYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred hCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 45677777666666666666666677888887
No 379
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=28.61 E-value=2.2e+02 Score=28.29 Aligned_cols=78 Identities=19% Similarity=0.197 Sum_probs=48.2
Q ss_pred CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 75 NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 75 ~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
.-+++.++..+. ..+.+.+.|++.|..+.....|..... + ......+..+.....++|++ .++..+.
T Consensus 124 ~~~~ili~~~~~-------~~~~l~~~L~~~G~~v~~~~~Y~~~~~--~--~~~~~~~~~~~~~~~d~ivf--tS~~~v~ 190 (249)
T PRK05928 124 KGKRVLYLRGNG-------GREVLGDTLEERGAEVDECEVYERVPP--K--LDGAELLARLQSGEVDAVIF--TSPSTVR 190 (249)
T ss_pred CCCEEEEECCCC-------CHHHHHHHHHHCCCEEeEEEEEEeeCC--C--CChHHHHHHHHhCCCCEEEE--CCHHHHH
Confidence 445666664433 266788899999998776655543220 0 11223334444457887665 8888888
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
.+++.+.+.+.
T Consensus 191 ~~~~~~~~~~~ 201 (249)
T PRK05928 191 AFFSLAPELGR 201 (249)
T ss_pred HHHHHhcccch
Confidence 88888776553
No 380
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=28.59 E-value=1.4e+02 Score=30.83 Aligned_cols=89 Identities=18% Similarity=0.179 Sum_probs=54.1
Q ss_pred CCCCCChHHhhhCCCcccccCchHHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHH-HHhccCCce
Q 003821 543 KPNVTDIGWLKASNLNVGFDGDSFVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERA-FLSQHCKEY 621 (793)
Q Consensus 543 ~~~i~sl~dL~~~~~~~g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~c~~~ 621 (793)
..+|++++||+ |+++.+..+.....+++.. +..+ ......|...+|++|.+|+.......... -+.+.++.+
T Consensus 125 ~~pi~s~~Dlk--G~kiR~~~~~~~~~~~~~l-Ga~p----v~ip~~evy~aLq~G~vDg~~~~~~~~~~~~~~ev~~y~ 197 (286)
T PF03480_consen 125 KKPIRSPEDLK--GLKIRVPGSPVMSDFFEAL-GASP----VPIPWSEVYQALQQGVVDGAENSASSIYSLGLYEVAKYF 197 (286)
T ss_dssp SS--SSGGGGT--TEEEEETSSHHHHHHHHHC-TSEE----EE-TGGGHHHHHHTTSSSEEEEEHHHHHHTTGGGTSSEE
T ss_pred ccCCccHhhHh--hCeEEecCCHHHHHHHHHc-CCee----ecCcHHHHHHHHhcCCcCeEecCHHHHHhcChhhhCCee
Confidence 45799999999 8888887555556665542 2211 22445688999999999999987655522 223345533
Q ss_pred EEeCccccccceEEEecCC
Q 003821 622 TATIPTYRFGGFAFVFQKG 640 (793)
Q Consensus 622 ~~~~~~~~~~~~~~~~~k~ 640 (793)
+..+ ....++.+++.+.
T Consensus 198 ~~~~--~~~~~~~~~~n~~ 214 (286)
T PF03480_consen 198 TDTN--HGWSPYAVIMNKD 214 (286)
T ss_dssp EEEE--EEEEEEEEEEEHH
T ss_pred Eeec--ccCcceEEEEcHH
Confidence 3333 3344566677665
No 381
>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=28.50 E-value=1.6e+02 Score=29.56 Aligned_cols=58 Identities=17% Similarity=0.159 Sum_probs=38.5
Q ss_pred EEEEEEEc----CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 78 KVIIIYED----DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 78 ~vaii~~d----d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
||++|..+ +.|- ..+.+.+++.+++.|..+..... ... ....+.+..+...+++.+|+
T Consensus 1 ~Igvi~~~~~~~~~f~--~~l~~gi~~~~~~~gy~~~~~~~--~~~------~~~~~~~~~l~~~~vdgiii 62 (260)
T cd06304 1 KVALVYDGGGGDKSFN--QSAYEGLEKAEKELGVEVKYVES--VED------ADYEPNLRQLAAQGYDLIFG 62 (260)
T ss_pred CEEEEecCCCCcchHH--HHHHHHHHHHHHhcCceEEEEec--CCH------HHHHHHHHHHHHcCCCEEEE
Confidence 57777764 3454 67778888888888887654311 111 33456777777778898887
No 382
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=28.40 E-value=5.4e+02 Score=24.68 Aligned_cols=132 Identities=14% Similarity=0.089 Sum_probs=75.1
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCC-CCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEE
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTS-TRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIY 83 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~-~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~ 83 (793)
..+.+|.||++.+=+..+..+.+.. =-.+|.++|.-.|...+ .+-.|+|.+. ..-+.+.+.=+...|..+.
T Consensus 4 G~l~vlsgPSG~GKsTl~k~L~~~~-~l~~SVS~TTR~pR~gEv~G~dY~Fvs~----~EF~~~i~~~~fLE~a~~~--- 75 (191)
T COG0194 4 GLLIVLSGPSGVGKSTLVKALLEDD-KLRFSVSATTRKPRPGEVDGVDYFFVTE----EEFEELIERDEFLEWAEYH--- 75 (191)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhc-CeEEEEEeccCCCCCCCcCCceeEeCCH----HHHHHHHhcCCcEEEEEEc---
Confidence 3467888999999999999998888 44556666532444432 4456776442 2333443332334555432
Q ss_pred EcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 84 EDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 84 ~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
.+-|| .. ...+...+. .|..+...+.+. -..++++.-++++.+ +..++....+-+.....
T Consensus 76 -gnyYG--T~-~~~ve~~~~-~G~~vildId~q--------------Ga~qvk~~~p~~v~I-Fi~pPs~eeL~~RL~~R 135 (191)
T COG0194 76 -GNYYG--TS-REPVEQALA-EGKDVILDIDVQ--------------GALQVKKKMPNAVSI-FILPPSLEELERRLKGR 135 (191)
T ss_pred -CCccc--Cc-HHHHHHHHh-cCCeEEEEEehH--------------HHHHHHHhCCCeEEE-EEcCCCHHHHHHHHHcc
Confidence 36677 54 555565554 455544432211 133455555566666 56666666666665554
Q ss_pred C
Q 003821 164 G 164 (793)
Q Consensus 164 g 164 (793)
|
T Consensus 136 g 136 (191)
T COG0194 136 G 136 (191)
T ss_pred C
Confidence 4
No 383
>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=28.40 E-value=2.1e+02 Score=28.86 Aligned_cols=77 Identities=10% Similarity=-0.010 Sum_probs=39.6
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ..+...+.+.+++.|..+..... ..+ .+.....++.+.+.+.+.+|+ .........+
T Consensus 2 Igvv~~~~~~~~~--~~~~~~i~~~a~~~g~~~~~~~~--~~~-----~~~~~~~i~~l~~~~vdgii~-~~~~~~~~~~ 71 (269)
T cd06281 2 IGCLVSDITNPLL--AQLFSGAEDRLRAAGYSLLIANS--LND-----PERELEILRSFEQRRMDGIII-APGDERDPEL 71 (269)
T ss_pred EEEEecCCccccH--HHHHHHHHHHHHHcCCEEEEEeC--CCC-----hHHHHHHHHHHHHcCCCEEEE-ecCCCCcHHH
Confidence 4556543 3343 66677777777777776543211 111 122445556666667777776 3322222344
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++++.+.
T Consensus 72 ~~~~~~~~i 80 (269)
T cd06281 72 VDALASLDL 80 (269)
T ss_pred HHHHHhCCC
Confidence 555555443
No 384
>COG3439 Uncharacterized conserved protein [Function unknown]
Probab=28.20 E-value=1.4e+02 Score=26.89 Aligned_cols=70 Identities=20% Similarity=0.207 Sum_probs=52.3
Q ss_pred cccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHH-h-hcCCceEEEEeccChHHHHHHHHHHHHcCCCCCC
Q 003821 92 TGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLK-L-LRTESRVFIILQSSLAMGIHLFREAKEMGLVGPD 169 (793)
Q Consensus 92 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~-l-~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~ 169 (793)
.+..+.+.+.++++|..|...+ |..+.+++ . ++..+-.|+. .|.+..+..++.+-.+.|+.-|-
T Consensus 22 ~E~i~~l~~~lk~~G~~V~~~i-------------d~~e~l~~~g~~~~~p~~Il~-~cnP~~g~~ll~~~p~~gl~lPc 87 (137)
T COG3439 22 DETIERLEEKLKKNGFKVFTEI-------------DHAEALKNAGVLDIPPYTILV-FCNPKAGTPLLSKNPEFGLLLPC 87 (137)
T ss_pred HHHHHHHHHHHHhCCCeEEEEe-------------cHHHHHHhcCcCCCCCeEEEE-EcCCcccchhhccChhhhccCCe
Confidence 7788999999999999876542 23334444 2 3445666666 89999999999999999998886
Q ss_pred eEEEEe
Q 003821 170 SVWVIA 175 (793)
Q Consensus 170 ~~wi~~ 175 (793)
.+.+..
T Consensus 88 rv~V~e 93 (137)
T COG3439 88 RVLVYE 93 (137)
T ss_pred EEEEEE
Confidence 665554
No 385
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=27.94 E-value=70 Score=34.99 Aligned_cols=61 Identities=13% Similarity=0.216 Sum_probs=44.9
Q ss_pred HHHHHHHhhhcccCCCCCCCccccchhHHHHHHHHHhhcc-cc-ccccchhhHHHHHHHHHHHHHHH
Q 003821 463 YTMSVVWFLEHRWNPEFNGPWNIQIGTALWFTFSSLFFAH-RE-RIYSNLTRLVVVVWLFVVLILNS 527 (793)
Q Consensus 463 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~R~l~~~w~~~~lil~~ 527 (793)
+.+.++++.|+-.+... ..++=-++|++.-++.-.| ++ .|.+.++|++...=.+.++++.+
T Consensus 358 iFStlvY~~Ek~~~~~~----FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlA 420 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEPDTK----FTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLA 420 (477)
T ss_pred HHHHHHHHhhhcCCCCC----CccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhh
Confidence 44556777787654321 3456679999999998888 76 58999999999888887776543
No 386
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=27.47 E-value=77 Score=37.15 Aligned_cols=53 Identities=13% Similarity=0.162 Sum_probs=45.8
Q ss_pred chhHHHHHHHHHhhcc--ccccccchhhHHHHHHHHHHHHHHHHHHhhhheeeee
Q 003821 487 IGTALWFTFSSLFFAH--RERIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTV 539 (793)
Q Consensus 487 ~~~~~~~~~~~l~~~~--~~~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~ 539 (793)
...|+|+++.+|..-| -..+......++.++.++++++|.+.--+|+++++..
T Consensus 295 Y~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs 349 (727)
T KOG0498|consen 295 YVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQS 349 (727)
T ss_pred HHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHH
Confidence 5679999999997666 4456888899999999999999999999999999843
No 387
>PRK01215 competence damage-inducible protein A; Provisional
Probab=27.46 E-value=3.8e+02 Score=27.33 Aligned_cols=77 Identities=9% Similarity=-0.054 Sum_probs=47.0
Q ss_pred eEEEEEEEcCC--Ccc-ccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 77 RKVIIIYEDDA--TNA-DTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 77 ~~vaii~~dd~--~G~-~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
.+++||...|+ .|. .......+.+.+++.|+++.....++... +++.+.+.+..+ .+|+||+..+.....
T Consensus 4 ~~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~Dd~------~~I~~~l~~a~~-~~DlVIttGG~g~t~ 76 (264)
T PRK01215 4 WFAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVMDDI------EEIVSAFREAID-RADVVVSTGGLGPTY 76 (264)
T ss_pred CEEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeCCCH------HHHHHHHHHHhc-CCCEEEEeCCCcCCh
Confidence 46777776665 331 12346678888999999987765555433 667788877764 468888733333333
Q ss_pred HHHHHHH
Q 003821 154 IHLFREA 160 (793)
Q Consensus 154 ~~~l~~a 160 (793)
..+..++
T Consensus 77 dD~t~ea 83 (264)
T PRK01215 77 DDKTNEG 83 (264)
T ss_pred hhhHHHH
Confidence 3344433
No 388
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=27.42 E-value=91 Score=32.94 Aligned_cols=77 Identities=12% Similarity=0.094 Sum_probs=49.8
Q ss_pred eccCCCCCCChHHhhhCCCcccccCchH-HHH---HHHhhcCCCCcccc-ccCCHHHHHHHhhcCceEEEEechhhHHHH
Q 003821 539 VQRLKPNVTDIGWLKASNLNVGFDGDSF-VRN---YLENVLGFKPENIL-KVDHEYKYITDFESNRIAAAFLELSYERAF 613 (793)
Q Consensus 539 ~~~~~~~i~sl~dL~~~~~~~g~~~~~~-~~~---~l~~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 613 (793)
..+...+|++++||+ |.++|+...+. ... +.-...+.....+. ..-...+...++..|++|+++.-.++....
T Consensus 121 ~~~~~~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~ 198 (335)
T COG0715 121 LVLKDSGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAA 198 (335)
T ss_pred EeccCCCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhh
Confidence 345566899999998 99999965543 222 22223334333332 334445888899999999988877776655
Q ss_pred Hhcc
Q 003821 614 LSQH 617 (793)
Q Consensus 614 ~~~~ 617 (793)
..+.
T Consensus 199 ~~~~ 202 (335)
T COG0715 199 EGEG 202 (335)
T ss_pred hccC
Confidence 5554
No 389
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=27.37 E-value=34 Score=30.78 Aligned_cols=32 Identities=22% Similarity=0.316 Sum_probs=27.3
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
|+.++||.+|+=+..+..++...+.++|+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~D~ 32 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQDE 32 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeHHH
Confidence 57899999999999999999888888887543
No 390
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=27.37 E-value=3.6e+02 Score=31.71 Aligned_cols=93 Identities=16% Similarity=0.129 Sum_probs=57.3
Q ss_pred ChHHHHHHHHHHHhh----cCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHH
Q 003821 59 SSAEQITCTAALVGS----YNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLK 134 (793)
Q Consensus 59 ~~~~~~~ai~~ll~~----~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~ 134 (793)
+....++.+++++.. ..-++|.++..+. ..+.+.+.|++.|..|.....|...... .. ......+.+
T Consensus 118 ~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~-------gr~~L~~~L~~~Ga~V~~v~vY~~~~~~-~~-~~~~~~~~~ 188 (656)
T PRK06975 118 EARYDSEALFAEIDAAFGALAGKRVLIVRGDG-------GREWLAERLREAGAEVELVEAYRRVVPE-PS-IGAWERVHA 188 (656)
T ss_pred CCccchHHHHHhHHHhccCCCCCEEEEEcCCC-------CcHHHHHHHHHCCCEEEEEeEEEeeCCC-cc-hhHHHHHHH
Confidence 344567788887754 2446777766442 3667889999999999887777532110 01 111123333
Q ss_pred hhcCCceEEEEeccChHHHHHHHHHHHH
Q 003821 135 LLRTESRVFIILQSSLAMGIHLFREAKE 162 (793)
Q Consensus 135 l~~~~~~vivvl~~~~~~~~~~l~~a~~ 162 (793)
+.....+++++ .+++.+..+++.+.+
T Consensus 189 ~l~~~idav~f--TS~s~v~~f~~la~~ 214 (656)
T PRK06975 189 LLSGAPHAWLL--TSSEAVRNLDELARA 214 (656)
T ss_pred HHhCCCcEEEE--CCHHHHHHHHHHHHh
Confidence 43345776554 888888888887654
No 391
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=27.33 E-value=4.5e+02 Score=26.95 Aligned_cols=123 Identities=10% Similarity=0.099 Sum_probs=64.5
Q ss_pred CCCCCCChHHhhhCCCcccccC--chHHHHH--HHhh--------cCCC---------Cccccc-cCCHHHHHHHhhcCc
Q 003821 542 LKPNVTDIGWLKASNLNVGFDG--DSFVRNY--LENV--------LGFK---------PENILK-VDHEYKYITDFESNR 599 (793)
Q Consensus 542 ~~~~i~sl~dL~~~~~~~g~~~--~~~~~~~--l~~~--------~~~~---------~~~~~~-~~~~~~~~~~l~~g~ 599 (793)
+...|+|++||.+ |.+|++.. +...+.+ +... .+.. +.+++. -....+....+.+|+
T Consensus 118 Ys~~iksl~DL~~-Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~~~~q~~~al~dg~ 196 (272)
T PRK09861 118 YSKKIKTVAQIKE-GATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMELEGAQLPRVLDDPK 196 (272)
T ss_pred cccCCCCHHHcCC-CCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEcCHHHhHhhccCcc
Confidence 5678999999954 88898854 3222322 2221 1110 112221 234466788889999
Q ss_pred eEEEEechhhHHHHHhc-cC-CceEEeCccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHH
Q 003821 600 IAAAFLELSYERAFLSQ-HC-KEYTATIPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKW 667 (793)
Q Consensus 600 ~~a~~~~~~~~~~~~~~-~c-~~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w 667 (793)
+|+++...+++.- .. .. ..-...+......-..++++.+..=.+.+...+..++....-+.+.++|
T Consensus 197 vD~a~i~~~~~~~--ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 197 VDVAIISTTYIQQ--TGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred cCEEEEchhHHHH--cCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 9998887666642 11 11 1111111111111124556655445566666677777665555555554
No 392
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=27.31 E-value=1.8e+02 Score=27.45 Aligned_cols=67 Identities=15% Similarity=0.205 Sum_probs=41.7
Q ss_pred ccceEEEEcCCChh---hHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEE
Q 003821 4 EKEVKVIVGMETWG---AATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKV 79 (793)
Q Consensus 4 ~~~V~aiiGp~~s~---~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~v 79 (793)
.++.+.++|..... ....+.++++..++|+++...+ ...+...+ +.|. ....-.+..++..-+|.-+
T Consensus 34 AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~--~~~~~~kg------v~~~-~~~lg~lg~~~~~p~~e~~ 103 (171)
T PRK00945 34 AKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGS--YKGLIDKG------VDAK-YINLHELTNYLKDPNWKGL 103 (171)
T ss_pred CCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccc--ccccccCC------ccCC-cccHHHHHhhccCchhhhh
Confidence 36788899987654 6777899999999999976654 33343321 1121 2233456666665555543
No 393
>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=27.15 E-value=1.4e+02 Score=30.25 Aligned_cols=71 Identities=11% Similarity=0.128 Sum_probs=46.5
Q ss_pred CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 86 DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 86 d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
+.|- ....+.+++.+++.|.++... .... ......+.++.+...+.+.+|+.....+.....++++.+.|+
T Consensus 11 ~~~~--~~~~~~~~~~a~~~g~~~~~~---~~~~----~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 11 SPWR--TAETKSIKDAAEKRGFDLKFA---DAQQ----KQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CHHH--HHHHHHHHHHHHhcCCEEEEe---CCCC----CHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 4454 778899999999999987643 2111 123445677778878899988833333333456778887775
No 394
>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=27.11 E-value=1.8e+02 Score=29.10 Aligned_cols=76 Identities=12% Similarity=-0.018 Sum_probs=43.7
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ..+...+.+.+++.|..+... .... ......+.++++.+.+.+.+++ .+.. .....
T Consensus 2 i~vv~p~~~~~~~--~~~~~~i~~~~~~~g~~~~~~---~~~~----~~~~~~~~~~~l~~~~vdgiii-~~~~-~~~~~ 70 (268)
T cd06273 2 IGAIVPTLDNAIF--ARVIQAFQETLAAHGYTLLVA---SSGY----DLDREYAQARKLLERGVDGLAL-IGLD-HSPAL 70 (268)
T ss_pred eEEEeCCCCCchH--HHHHHHHHHHHHHCCCEEEEe---cCCC----CHHHHHHHHHHHHhcCCCEEEE-eCCC-CCHHH
Confidence 5666653 4455 777788888888888776532 1111 1133455666777777887777 3322 12244
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|.
T Consensus 71 ~~~l~~~~i 79 (268)
T cd06273 71 LDLLARRGV 79 (268)
T ss_pred HHHHHhCCC
Confidence 555666554
No 395
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=26.95 E-value=1.8e+02 Score=27.05 Aligned_cols=35 Identities=23% Similarity=0.366 Sum_probs=28.7
Q ss_pred ccceEEEEcCCCh--hhHHHHHHhccCCCccEEeeeC
Q 003821 4 EKEVKVIVGMETW--GAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 4 ~~~V~aiiGp~~s--~~~~~va~i~~~~~iP~Is~~~ 38 (793)
.++.+.++|+... .....+..+++..++|+++...
T Consensus 27 AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 27 AKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred CCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 3678899998664 7788899999999999997543
No 396
>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=26.95 E-value=2.1e+02 Score=28.95 Aligned_cols=58 Identities=17% Similarity=0.094 Sum_probs=39.4
Q ss_pred EEEEEEEc-----CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 78 KVIIIYED-----DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 78 ~vaii~~d-----d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
+|++|..+ +.|- ..+...+++.+++.|..+..... .. . .+..+.+..+.+.+.+.||+
T Consensus 1 ~I~~i~~~~~~~~~~f~--~~~~~gi~~~~~~~gy~~~i~~~---~~----~-~~~~~~i~~l~~~~vdgiI~ 63 (265)
T cd06354 1 KVALVTDVGGLGDKSFN--QSAWEGLERAAKELGIEYKYVES---KS----D-ADYEPNLEQLADAGYDLIVG 63 (265)
T ss_pred CEEEEeCCCCcCchhHH--HHHHHHHHHHHHHcCCeEEEEec---CC----H-HHHHHHHHHHHhCCCCEEEE
Confidence 46777754 3354 77888899999999987654311 11 1 33456677788888999888
No 397
>PRK14527 adenylate kinase; Provisional
Probab=26.51 E-value=49 Score=31.75 Aligned_cols=34 Identities=18% Similarity=0.228 Sum_probs=30.0
Q ss_pred cccceEEEEcCCChhhHHHHHHhccCCCccEEee
Q 003821 3 KEKEVKVIVGMETWGAATMVADIGSRAQVPVLSF 36 (793)
Q Consensus 3 ~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~ 36 (793)
.+..++.|+||.+|+=+..+..+++.+++++++.
T Consensus 4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~~~~is~ 37 (191)
T PRK14527 4 TKNKVVIFLGPPGAGKGTQAERLAQELGLKKLST 37 (191)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHhCCCCCCc
Confidence 4457899999999999999999999999999874
No 398
>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=26.20 E-value=3.3e+02 Score=26.72 Aligned_cols=121 Identities=14% Similarity=0.030 Sum_probs=65.1
Q ss_pred CCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCc
Q 003821 28 RAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNS 107 (793)
Q Consensus 28 ~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~ 107 (793)
..++++++.+... ...+...+++-.+ + .+..-++.+++++...+-..--|++... ......+.+.|++.|.
T Consensus 76 ~~~~~~~avG~~T-a~~l~~~g~~~~~-~--~~~~~~~~L~~~i~~~~~~~~~il~~~g-----~~~~~~l~~~L~~~g~ 146 (239)
T cd06578 76 LAGLKIAAVGPKT-AEALREAGLTADF-V--PEEGDSEGLLELLELQDGKGKRILRPRG-----GRAREDLAEALRERGA 146 (239)
T ss_pred ccCCEEEEECHHH-HHHHHHcCCCcee-C--CCccCHHHHHHHHHhcCCCCCEEEEEcC-----cchhHHHHHHHHHCCC
Confidence 4567777666541 1223333433222 1 2334467788887664222233333332 2225678888999998
Q ss_pred eeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcC
Q 003821 108 EIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMG 164 (793)
Q Consensus 108 ~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g 164 (793)
.+.....|..... .+. ......+.+...++|+ +.++..+..+++...+.+
T Consensus 147 ~v~~~~~Y~~~~~-~~~----~~~~~~l~~~~~~~ii--ftS~~~v~~f~~~~~~~~ 196 (239)
T cd06578 147 EVDEVEVYRTVPP-DLD----AELLELLEEGAIDAVL--FTSPSTVRNLLELLGKEG 196 (239)
T ss_pred EEEEEEEEEEECC-CCc----HHHHHHHHcCCCcEEE--EeCHHHHHHHHHHHhhhh
Confidence 8876666654321 011 1223334444455544 488888888888887644
No 399
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=26.18 E-value=7.5e+02 Score=25.61 Aligned_cols=91 Identities=11% Similarity=0.074 Sum_probs=60.6
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEe--c---CC---hHHHHHHHHHHHhhcC---
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRM--A---NS---SAEQITCTAALVGSYN--- 75 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~--~---p~---~~~~~~ai~~ll~~~~--- 75 (793)
|.-++||...+....++.++.+.++=++..+.. .. .....||.|+ . |. ......++.++.+.+|
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~--~d---~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~ 85 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQF--DD---DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQW 85 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEecccc--cc---cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeE
Confidence 788999999999999999999999888876553 21 2223466662 2 22 2444556677666654
Q ss_pred -------ceEEEEEEEcCCCccccccHHHHHHHHHhcCc
Q 003821 76 -------WRKVIIIYEDDATNADTGNLALLSEALQISNS 107 (793)
Q Consensus 76 -------w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~ 107 (793)
.+|++|+.+.... .++.+-+..+...+
T Consensus 86 ~i~~~~~~~kiavl~Sg~g~-----nl~al~~~~~~~~l 119 (289)
T PRK13010 86 AIHPDGQRPKVVIMVSKFDH-----CLNDLLYRWRMGEL 119 (289)
T ss_pred EEecCCCCeEEEEEEeCCCc-----cHHHHHHHHHCCCC
Confidence 4589998887642 36666666655443
No 400
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=26.15 E-value=7.5e+02 Score=25.63 Aligned_cols=115 Identities=13% Similarity=-0.023 Sum_probs=62.7
Q ss_pred CChHHhhhCCCcccc-cCchH----HHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCce
Q 003821 547 TDIGWLKASNLNVGF-DGDSF----VRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEY 621 (793)
Q Consensus 547 ~sl~dL~~~~~~~g~-~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~ 621 (793)
-+++||. +.++.. ..++. ...++... +.........++.+.....+..|..-+++.+ ........ -+ +
T Consensus 184 i~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~g~Gv~~lp~-~~~~~~~~--~~-l 256 (313)
T PRK12684 184 LTLEDLA--QYPLITYDFAFAGRSKINKAFALR-GLKPDIVLEAIDADVIKTYVELGLGVGIVAD-MAFDPERD--RN-L 256 (313)
T ss_pred cCHHHHh--cCCcEecCCCCcHHHHHHHHHHHc-CCCCCeEEEeCCHHHHHHHHHhCCceEEeeh-hhcccccc--CC-e
Confidence 4678887 344433 22222 23333322 3333334456778888899999865555544 23322211 12 3
Q ss_pred EEe--CccccccceEEEecCCCcChHHHHHHHHhhhccCchHHHHHHHcC
Q 003821 622 TAT--IPTYRFGGFAFVFQKGSPLAADFSEAILKLSENGELRSLEEKWFA 669 (793)
Q Consensus 622 ~~~--~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~w~~ 669 (793)
..+ ........++++.+|+.++...+...+..+.+. +..++.++-++
T Consensus 257 ~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~-~~~~~~~~~~~ 305 (313)
T PRK12684 257 RAIDAGHLFGSSTTRLGLRRGAYLRGYVYTFIELFAPT-LNRKLVEQALK 305 (313)
T ss_pred EEEECCCCCcceeEEEEEECCCcCCHHHHHHHHHHHHH-hCHHHHHHHhc
Confidence 322 222334568899999988887777777766653 44555554443
No 401
>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=26.09 E-value=2.5e+02 Score=28.27 Aligned_cols=78 Identities=14% Similarity=0.062 Sum_probs=46.5
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHH---H
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAM---G 153 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~---~ 153 (793)
|++|..+ +.|. ..++..+.+.+++.|..+... .... ..+...+.++.+.+.++|.+|++.+..++ .
T Consensus 2 Igvi~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~---~~~~----~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06292 2 VGLLVPELSNPIF--PAFAEAIEAALAQYGYTVLLC---NTYR----GGVSEADYVEDLLARGVRGVVFISSLHADTHAD 72 (273)
T ss_pred EEEEeCCCcCchH--HHHHHHHHHHHHHCCCEEEEE---eCCC----ChHHHHHHHHHHHHcCCCEEEEeCCCCCcccch
Confidence 4556543 3455 778888999999999876432 1111 11334566777888889988873322222 2
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...+.++.+.|+
T Consensus 73 ~~~i~~~~~~~i 84 (273)
T cd06292 73 HSHYERLAERGL 84 (273)
T ss_pred hHHHHHHHhCCC
Confidence 344566666655
No 402
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=26.03 E-value=68 Score=24.69 Aligned_cols=31 Identities=10% Similarity=-0.066 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccccccC
Q 003821 695 GLFLISGTTSTICALVFLVRNYTSRQDASEG 725 (793)
Q Consensus 695 g~f~il~~g~~ls~lvf~~E~~~~~~~~~~~ 725 (793)
+.++=+..|++++++-|+.-+|.|+|+.+|+
T Consensus 33 W~aIGvi~gi~~~~lt~ltN~YFK~k~drr~ 63 (68)
T PF04971_consen 33 WAAIGVIGGIFFGLLTYLTNLYFKIKEDRRK 63 (68)
T ss_pred chhHHHHHHHHHHHHHHHhHhhhhhhHhhhH
Confidence 3444455678888888888877777655444
No 403
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=25.96 E-value=52 Score=32.16 Aligned_cols=30 Identities=23% Similarity=0.309 Sum_probs=27.0
Q ss_pred EEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 8 KVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 8 ~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
+.|+||.+|+=+.....+++.+++++|+.+
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~g 31 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTG 31 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeehh
Confidence 578999999999999999999999999854
No 404
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=25.88 E-value=8.4e+02 Score=26.50 Aligned_cols=132 Identities=13% Similarity=0.134 Sum_probs=69.2
Q ss_pred EEcCCChhhHHHHHHhccC-CCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCCC
Q 003821 10 IVGMETWGAATMVADIGSR-AQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDAT 88 (793)
Q Consensus 10 iiGp~~s~~~~~va~i~~~-~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~~ 88 (793)
|++|.+...-.++..+... ..+=+|.++-. | ++|- +.....+...+..+...-++|+|+|....
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~HG-----------~-i~~~--~~~~~~~~Y~~~~~~~~~~kv~IvY~S~~- 258 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSHG-----------V-IWRD--NPLQIVEKYLEWAANYQENQVTILYDTMW- 258 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCCc-----------c-EEeC--CHHHHHHHHHHHhhcCCcCcEEEEEECCc-
Confidence 4556655555555555532 23334443322 2 3443 22223333444444444578999998864
Q ss_pred ccccccHHHHHHHHH--hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh------HHHHHHHHHH
Q 003821 89 NADTGNLALLSEALQ--ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL------AMGIHLFREA 160 (793)
Q Consensus 89 G~~~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~------~~~~~~l~~a 160 (793)
|.-+.+++.+.+.++ +.|+++... .+... +....+..+. .++.+++ .++. +....++...
T Consensus 259 GnTe~mA~~ia~g~~~~~~g~~v~~~-~~~~~--------~~~~i~~~~~--~~d~ii~-GspT~~~~~~~~~~~~l~~l 326 (394)
T PRK11921 259 NSTRRMAEAIAEGIKKANKDVTVKLY-NSAKS--------DKNDIITEVF--KSKAILV-GSSTINRGILSSTAAILEEI 326 (394)
T ss_pred hHHHHHHHHHHHHHhhcCCCCeEEEE-ECCCC--------CHHHHHHHHH--hCCEEEE-ECCCcCccccHHHHHHHHHh
Confidence 433566777777776 567665422 33221 1223334443 4777777 5543 3356677777
Q ss_pred HHcCCCCC
Q 003821 161 KEMGLVGP 168 (793)
Q Consensus 161 ~~~g~~~~ 168 (793)
...++.++
T Consensus 327 ~~~~~~~K 334 (394)
T PRK11921 327 KGLGFKNK 334 (394)
T ss_pred hccCcCCC
Confidence 77776655
No 405
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=25.71 E-value=5.1e+02 Score=23.88 Aligned_cols=119 Identities=18% Similarity=0.099 Sum_probs=70.2
Q ss_pred cceEEEEcCCCh--hhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCce-----
Q 003821 5 KEVKVIVGMETW--GAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWR----- 77 (793)
Q Consensus 5 ~~V~aiiGp~~s--~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~----- 77 (793)
+....|+||.-- +.-..+..+.+.++||.+..+++ ...+.+.+-. +...-..++-.+++.-+|.
T Consensus 36 krPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~--~~~~~~~~i~-------~~~~~lh~it~~l~Dp~w~G~dg~ 106 (170)
T COG1880 36 KRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASS--MGNLIGRGIG-------SEYINLHAITQYLTDPNWPGFDGN 106 (170)
T ss_pred CCceEEecccccCHHHHHHHHHHHHhcCCceEecchh--hcchhhcccc-------cchhHHHHHHHHhcCCCCCCcCCC
Confidence 456788998765 55667788999999999987766 4545433211 3334567788888886665
Q ss_pred ----EEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCC---CCChHHHHHHHHHhh
Q 003821 78 ----KVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYL---TDPKQFLQEKLLKLL 136 (793)
Q Consensus 78 ----~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~---~~~~~~~~~~l~~l~ 136 (793)
-|.++-.-..|. ...+..++.... =.++.-...|.+.++. .-.++++.+.|+++.
T Consensus 107 g~yDlviflG~~~yy~--sq~Ls~lKhFs~--i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 107 GNYDLVIFLGSIYYYL--SQVLSGLKHFSN--IKTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCcceEEEEeccHHHH--HHHHHHhhhhhc--ceEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 355555555565 555665555441 1122222233333321 123456777777664
No 406
>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=25.68 E-value=2.6e+02 Score=27.97 Aligned_cols=76 Identities=12% Similarity=0.082 Sum_probs=45.5
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|- ..+...+++.+++.|.++..... .. + .+...+.+..+...+.+.+++..+..+.. .
T Consensus 2 igvi~~~~~~~~~--~~~~~~~~~~~~~~g~~~~~~~~-~~-~-----~~~~~~~i~~l~~~~vdgiii~~~~~~~~--~ 70 (264)
T cd06274 2 IGLIIPDLENRSF--ARIAKRLEALARERGYQLLIACS-DD-D-----PETERETVETLIARQVDALIVAGSLPPDD--P 70 (264)
T ss_pred EEEEeccccCchH--HHHHHHHHHHHHHCCCEEEEEeC-CC-C-----HHHHHHHHHHHHHcCCCEEEEcCCCCchH--H
Confidence 4555544 3454 77788888889999987654311 11 1 13345667777888899888833322222 2
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 71 ~~~~~~~~i 79 (264)
T cd06274 71 YYLCQKAGL 79 (264)
T ss_pred HHHHHhcCC
Confidence 566666665
No 407
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=25.53 E-value=1.8e+02 Score=23.61 Aligned_cols=55 Identities=11% Similarity=0.105 Sum_probs=33.0
Q ss_pred hhccCchHHHHHHHcCCCCCCCCCcccCCCccccccccchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 003821 654 LSENGELRSLEEKWFAPSPECSGSAEVNNNKTECLSLQDFWGLFLISGTTSTICALVFLVRNYTS 718 (793)
Q Consensus 654 l~e~G~~~~~~~~w~~~~~~c~~~~~~~~~~~~~L~l~~l~g~f~il~~g~~ls~lvf~~E~~~~ 718 (793)
.+.-|.++++.+.=-... ..-.-.|.+..+.|+.=.++..++++++.+++++.+|
T Consensus 45 vHAPGV~EhLmQ~Qds~R----------Prveigl~VgTlFgLiPFL~Gc~~~~v~~l~lrwr~r 99 (100)
T PF10954_consen 45 VHAPGVYEHLMQVQDSGR----------PRVEIGLGVGTLFGLIPFLAGCLILGVIALILRWRHR 99 (100)
T ss_pred HhCcHHHHHHHHHHhcCC----------CceEEeehhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356677777776211111 1122346667777777667777777777777776654
No 408
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=25.47 E-value=7.5e+02 Score=25.39 Aligned_cols=71 Identities=8% Similarity=0.046 Sum_probs=41.0
Q ss_pred cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeC--ccccccceEEEecCCCcChHHHHHHHHhhhc
Q 003821 583 LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATI--PTYRFGGFAFVFQKGSPLAADFSEAILKLSE 656 (793)
Q Consensus 583 ~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~--~~~~~~~~~~~~~k~spl~~~in~~i~~l~e 656 (793)
...++.......+..|..-+++........ ... .+ +...+ .......+.++.+++.++.......+..+.+
T Consensus 219 ~~~~~~~~~~~~v~~g~gi~ilp~~~~~~~-~~~-~~-l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 291 (305)
T PRK11151 219 FRATSLETLRNMVAAGSGITLLPALAVPNE-RKR-DG-VCYLPCIKPEPRRTIGLVYRPGSPLRSRYEQLAEAIRA 291 (305)
T ss_pred EEeccHHHHHHHHHcCCCEEEeeHHhhhhh-ccc-CC-EEEEECcCCccceEEEEEEcCCCcchHHHHHHHHHHHH
Confidence 346777888888888876555554332222 111 22 33322 1222346788889988877777776665543
No 409
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=25.39 E-value=52 Score=29.64 Aligned_cols=31 Identities=19% Similarity=0.261 Sum_probs=27.8
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
|++|.|+.+|+-+.....++..+++|+++..
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 5789999999999999999999999999754
No 410
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=25.30 E-value=2.6e+02 Score=27.01 Aligned_cols=72 Identities=21% Similarity=0.221 Sum_probs=44.6
Q ss_pred HHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEe
Q 003821 67 TAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIIL 146 (793)
Q Consensus 67 i~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl 146 (793)
+|..++.. -++|++|..|..- .+..+.++...+..|+.+... ... .++.....+.+.+.++.+.|+|++
T Consensus 21 LAa~~~~~-~~~v~lis~D~~R---~ga~eQL~~~a~~l~vp~~~~---~~~---~~~~~~~~~~l~~~~~~~~D~vlI- 89 (196)
T PF00448_consen 21 LAARLKLK-GKKVALISADTYR---IGAVEQLKTYAEILGVPFYVA---RTE---SDPAEIAREALEKFRKKGYDLVLI- 89 (196)
T ss_dssp HHHHHHHT-T--EEEEEESTSS---THHHHHHHHHHHHHTEEEEES---STT---SCHHHHHHHHHHHHHHTTSSEEEE-
T ss_pred HHHHHhhc-cccceeecCCCCC---ccHHHHHHHHHHHhccccchh---hcc---hhhHHHHHHHHHHHhhcCCCEEEE-
Confidence 34433333 6789999887653 557888998888889875321 111 122233556777777778999998
Q ss_pred ccC
Q 003821 147 QSS 149 (793)
Q Consensus 147 ~~~ 149 (793)
+..
T Consensus 90 DT~ 92 (196)
T PF00448_consen 90 DTA 92 (196)
T ss_dssp EE-
T ss_pred ecC
Confidence 776
No 411
>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=25.27 E-value=3.4e+02 Score=28.27 Aligned_cols=80 Identities=11% Similarity=0.112 Sum_probs=48.9
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
-+.|+++..+ +.|. ..+...+++.+++.|..+.... ... + .......+..+...+.|.+|+ .......
T Consensus 60 ~~~Igvi~~~~~~~~~--~~~~~~i~~~~~~~gy~~~i~~-~~~-~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~~~ 129 (327)
T TIGR02417 60 SRTIGLVIPDLENYSY--ARIAKELEQQCREAGYQLLIAC-SDD-N-----PDQEKVVIENLLARQVDALIV-ASCMPPE 129 (327)
T ss_pred CceEEEEeCCCCCccH--HHHHHHHHHHHHHCCCEEEEEe-CCC-C-----HHHHHHHHHHHHHcCCCEEEE-eCCCCCC
Confidence 3578888764 4455 7788889999999998865431 111 1 123345666777778898887 3322212
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
...++++.+.+.
T Consensus 130 ~~~~~~l~~~~i 141 (327)
T TIGR02417 130 DAYYQKLQNEGL 141 (327)
T ss_pred hHHHHHHHhcCC
Confidence 344566666554
No 412
>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=25.20 E-value=2.4e+02 Score=28.29 Aligned_cols=76 Identities=12% Similarity=0.066 Sum_probs=44.8
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|- ..+...+.+.+++.|..+... .... ......+.+..+.+..+|.+++ ....... ..
T Consensus 2 igvi~p~~~~~~~--~~~~~gi~~~~~~~~~~~~~~---~~~~----~~~~~~~~i~~l~~~~~dgiii-~~~~~~~-~~ 70 (265)
T cd06285 2 IGVLVPRLTDTVM--ATMYEGIEEAAAERGYSTFVA---NTGD----NPDAQRRAIEMLLDRRVDGLIL-GDARSDD-HF 70 (265)
T ss_pred EEEEeCCCCCccH--HHHHHHHHHHHHHCCCEEEEE---eCCC----CHHHHHHHHHHHHHcCCCEEEE-ecCCCCh-HH
Confidence 5666654 3455 777888888888888875422 1111 1123445666777778888877 3322222 34
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.+.
T Consensus 71 ~~~~~~~~i 79 (265)
T cd06285 71 LDELTRRGV 79 (265)
T ss_pred HHHHHHcCC
Confidence 666666654
No 413
>PF13362 Toprim_3: Toprim domain
Probab=24.93 E-value=1.9e+02 Score=23.91 Aligned_cols=51 Identities=18% Similarity=0.154 Sum_probs=35.1
Q ss_pred CceEEEEEEEcCCC--ccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHH
Q 003821 75 NWRKVIIIYEDDAT--NADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLK 134 (793)
Q Consensus 75 ~w~~vaii~~dd~~--G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~ 134 (793)
..++|.|..++|.- | ......+.+.++..|..+..... ++.. .|+.+.+++
T Consensus 40 ~~~~vii~~D~D~~~~G--~~~a~~~~~~~~~~g~~~~~~~p-~~~g------~D~ND~l~~ 92 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEG--QKAAEKAAERLEAAGIAVSIVEP-GPEG------KDWNDLLQA 92 (96)
T ss_pred CCCeEEEEECCCCchhh--HHHHHHHHHHHHhCCCeEEEECC-CCCC------chHHHHHHh
Confidence 67889777777777 7 88888888889888987653322 1221 467666554
No 414
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=24.89 E-value=7.7e+02 Score=25.34 Aligned_cols=70 Identities=7% Similarity=-0.150 Sum_probs=40.3
Q ss_pred cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEE--eCccccccceEEEecCCCcChHHHHHHHHhhh
Q 003821 583 LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTA--TIPTYRFGGFAFVFQKGSPLAADFSEAILKLS 655 (793)
Q Consensus 583 ~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~--~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~ 655 (793)
....+.+.....+.+|...+++....... .... .. +.. +........+.++.+++.+....+...+..+.
T Consensus 229 ~~~~~~~~~~~~v~~g~g~~~lp~~~~~~-~~~~-~~-l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~ 300 (305)
T CHL00180 229 MELNSIEAIKNAVQSGLGAAFVSVSAIEK-ELEL-GL-LHWIKIENITIKRMLSIITNPNRYKSKASETFYNEIL 300 (305)
T ss_pred EEeCCHHHHHHHHHcCCcEEEeEhHHHHH-Hhhc-Cc-EEEEEcCCCCceEEEEEEEeCCCccCHHHHHHHHHHH
Confidence 34677888889999987666665432222 2222 11 222 22222234678888888777776666655443
No 415
>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=24.87 E-value=2.8e+02 Score=27.81 Aligned_cols=76 Identities=12% Similarity=0.017 Sum_probs=44.7
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ..+.+.+++.+++.|..+.... ...+ . +.-.+.+..+.+.++|.||+ ....... ..
T Consensus 2 igvi~p~~~~~~~--~~~~~g~~~~a~~~g~~~~~~~--~~~~----~-~~~~~~i~~~~~~~vdgii~-~~~~~~~-~~ 70 (268)
T cd06270 2 IGLVVSDLDGPFF--GPLLSGVESVARKAGKHLIITA--GHHS----A-EKEREAIEFLLERRCDALIL-HSKALSD-DE 70 (268)
T ss_pred EEEEEccccCcch--HHHHHHHHHHHHHCCCEEEEEe--CCCc----h-HHHHHHHHHHHHcCCCEEEE-ecCCCCH-HH
Confidence 4555543 4454 7778888888999988765331 1111 1 22345666777778898888 3332111 22
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 71 ~~~~~~~~i 79 (268)
T cd06270 71 LIELAAQVP 79 (268)
T ss_pred HHHHhhCCC
Confidence 666766665
No 416
>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=24.80 E-value=2.3e+02 Score=28.65 Aligned_cols=66 Identities=6% Similarity=0.035 Sum_probs=42.8
Q ss_pred cccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEecc-ChHHHHHHHHHHHHcCC
Q 003821 92 TGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQS-SLAMGIHLFREAKEMGL 165 (793)
Q Consensus 92 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~-~~~~~~~~l~~a~~~g~ 165 (793)
..+...+++.+++.|..+.... ...+ .......+..+.+.+++.+|+ .. ..+.....++++.+.|+
T Consensus 15 ~~~~~gi~~~~~~~G~~~~~~~--~~~d-----~~~~~~~i~~~~~~~vdgiii-~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 15 AQGKQAADEAGKLLGVDVTWYG--GALD-----AVKQVAAIENMASQGWDFIAV-DPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred HHHHHHHHHHHHHcCCEEEEec--CCCC-----HHHHHHHHHHHHHcCCCEEEE-cCCChHHhHHHHHHHHHCCC
Confidence 6677888888888998765431 1111 133456677777778898888 44 33445567788777665
No 417
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=24.77 E-value=2.5e+02 Score=26.36 Aligned_cols=45 Identities=20% Similarity=0.155 Sum_probs=29.1
Q ss_pred cHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 94 NLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 94 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
....+.+.+++.|.++.....++... ..+.+.+.+..+ .+|+||.
T Consensus 20 n~~~l~~~L~~~G~~v~~~~~v~Dd~------~~I~~~l~~~~~-~~dlVIt 64 (170)
T cd00885 20 NAAFLAKELAELGIEVYRVTVVGDDE------DRIAEALRRASE-RADLVIT 64 (170)
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCCCH------HHHHHHHHHHHh-CCCEEEE
Confidence 35567777888888876655554332 556667666653 5777776
No 418
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=24.72 E-value=2e+02 Score=26.27 Aligned_cols=37 Identities=8% Similarity=-0.043 Sum_probs=24.4
Q ss_pred CccccccccchhHHHHHHHHHHHHHHHHHHHHHhhhc
Q 003821 683 NKTECLSLQDFWGLFLISGTTSTICALVFLVRNYTSR 719 (793)
Q Consensus 683 ~~~~~L~l~~l~g~f~il~~g~~ls~lvf~~E~~~~~ 719 (793)
..+.++++--....+.++++.++++++++++..++++
T Consensus 9 ~~P~~vswwP~a~GWwll~~lll~~~~~~~~~~~r~~ 45 (146)
T PF14316_consen 9 HLPPPVSWWPLAPGWWLLLALLLLLLILLLWRLWRRW 45 (146)
T ss_pred CCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777777777777776666644443
No 419
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=24.63 E-value=1.6e+02 Score=31.12 Aligned_cols=79 Identities=18% Similarity=0.236 Sum_probs=47.7
Q ss_pred hhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC-h
Q 003821 72 GSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS-L 150 (793)
Q Consensus 72 ~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~-~ 150 (793)
..++.+++.+|++...+- .+..+.+.+.+++. +++.....+.+.. +.+.+.+.+..+++.++|+||-+.+. .
T Consensus 18 ~~~~~~~~lvv~~~~~~~--~g~~~~v~~~l~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~IiaiGGGs~ 90 (332)
T cd08180 18 KELKNKRVLIVTDPFMVK--SGMLDKVTDHLDSS-IEVEIFSDVVPDP----PIEVVAKGIKKFLDFKPDIVIALGGGSA 90 (332)
T ss_pred HHhCCCeEEEEeCchhhh--CccHHHHHHHHHhc-CcEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEEEEECCchH
Confidence 445568998888654442 44678888888876 5433222222222 23557777788888899999873442 2
Q ss_pred HHHHHHH
Q 003821 151 AMGIHLF 157 (793)
Q Consensus 151 ~~~~~~l 157 (793)
-++.+.+
T Consensus 91 ~D~aKa~ 97 (332)
T cd08180 91 IDAAKAI 97 (332)
T ss_pred HHHHHHH
Confidence 3444433
No 420
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. 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=24.45 E-value=2.2e+02 Score=30.41 Aligned_cols=83 Identities=8% Similarity=0.072 Sum_probs=50.3
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEE
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFI 144 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 144 (793)
..+.++++.++ +++.||++...+ ....+.+.+.|++.++.+. .+.... +.+.+.+.+...++.++|+||
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~---~~~~~~l~~~L~~~~~~~~---~~~~~p----~~~~v~~~~~~~~~~~~D~iI 81 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW---AAAKPYLPESLAAGEAFVL---RYDGEC----SEENIERLAAQAKENGADVII 81 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHhcCeEEEE---EeCCCC----CHHHHHHHHHHHHhcCCCEEE
Confidence 34556676665 888888877654 4567777777755554332 232111 235677778888888999988
Q ss_pred EeccC-hHHHHHHHH
Q 003821 145 ILQSS-LAMGIHLFR 158 (793)
Q Consensus 145 vl~~~-~~~~~~~l~ 158 (793)
.+.+. .-++.+++.
T Consensus 82 avGGGs~~D~aK~ia 96 (347)
T cd08172 82 GIGGGKVLDTAKAVA 96 (347)
T ss_pred EeCCcHHHHHHHHHH
Confidence 73332 233444443
No 421
>PRK09273 hypothetical protein; Provisional
Probab=24.44 E-value=4.5e+02 Score=25.63 Aligned_cols=76 Identities=9% Similarity=-0.065 Sum_probs=45.1
Q ss_pred EEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHh-hcCCceEEEEeccChHHHHH
Q 003821 78 KVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKL-LRTESRVFIILQSSLAMGIH 155 (793)
Q Consensus 78 ~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~vivvl~~~~~~~~~ 155 (793)
++++|-+++.-+-+.-..+.+.+.|++.|.+|...-.+...... .+..++...+... .+...+..|+ .|.......
T Consensus 2 kiali~e~sqa~kn~~i~~~L~~~L~~~G~eV~D~G~~~~~~~s-~dYpd~a~~vA~~V~~g~~d~GIl-iCGTGiG~s 78 (211)
T PRK09273 2 KIALINENSQAAKNAIIYEALKKVADPKGHEVFNYGMYDEEDHQ-LTYVQNGIMASILLNSKAVDFVVT-GCGTGQGAM 78 (211)
T ss_pred eEEeecccchhhhhHHHHHHHHHHHHHCCCEEEEeCCCCCCCCC-CChHHHHHHHHHHHHcCCCCEEEE-EcCcHHHHH
Confidence 68889888764411237888999999999998765444322101 2234565555554 3445555555 466555543
No 422
>PRK03537 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional
Probab=24.35 E-value=6.2e+02 Score=24.04 Aligned_cols=54 Identities=7% Similarity=-0.093 Sum_probs=28.0
Q ss_pred HHHHH-HhhcCceEEEEechhhHHHHHhccCC-ceEEeC-ccccccceEEEecCCCc
Q 003821 589 YKYIT-DFESNRIAAAFLELSYERAFLSQHCK-EYTATI-PTYRFGGFAFVFQKGSP 642 (793)
Q Consensus 589 ~~~~~-~l~~g~~~a~~~~~~~~~~~~~~~c~-~~~~~~-~~~~~~~~~~~~~k~sp 642 (793)
.+.+. .+.+|++|+.+.-...........-. .+..+. +......|.+++.|+++
T Consensus 102 ~~~~~~~v~~G~adag~vy~s~~~~~~~~~~~~~~i~iP~~~~~~i~y~iav~k~~~ 158 (188)
T PRK03537 102 RNAAEWLIENKQADIFIGYASNAPLAQREVPSLQVVDLPEPLAVGAEYGLAILKDAS 158 (188)
T ss_pred chHHHHHHHCCCCCEEEEEecHHHHHhccCCCCeEEeCCCCcceeeeeeEEEecCCh
Confidence 34555 77899999876533333221111111 122233 23334567888888876
No 423
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=24.31 E-value=4.1e+02 Score=26.91 Aligned_cols=56 Identities=13% Similarity=0.027 Sum_probs=30.9
Q ss_pred cCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEeCc-cccccceEEEecCCCc
Q 003821 585 VDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTATIP-TYRFGGFAFVFQKGSP 642 (793)
Q Consensus 585 ~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~~~-~~~~~~~~~~~~k~sp 642 (793)
..+..+....+.+|++|+.+.-.... ...+..+...++++ ......|.+++.|+++
T Consensus 173 ~~~v~~~~~~v~~G~ad~gi~~~s~a--~~~~~~~~~~~~P~e~~~~i~~~~avlk~~~ 229 (257)
T PRK10677 173 AEDVRGALALVERNEAPLGIVYGSDA--VASKKVKVVGTFPEDSHKPVEYPMAIVKGHN 229 (257)
T ss_pred cccHHHHHHHHHcCCCCEEEEEeeee--eccCCCeEEEECCcccCCcceeeEEEEcCCC
Confidence 45667788889999999877432221 11222221222222 2234467777888865
No 424
>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=24.28 E-value=2.1e+02 Score=28.59 Aligned_cols=76 Identities=14% Similarity=0.010 Sum_probs=43.0
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ..+...+++.+++.|..+.... ...+ .....+.+.++.+.+.+.+|+ .... .....
T Consensus 2 i~vi~~~~~~~~~--~~~~~~~~~~~~~~g~~~~~~~--~~~~-----~~~~~~~i~~l~~~~vdgiii-~~~~-~~~~~ 70 (268)
T cd06298 2 VGVIIPDITNSYF--AELARGIDDIATMYKYNIILSN--SDND-----KEKELKVLNNLLAKQVDGIIF-MGGK-ISEEH 70 (268)
T ss_pred EEEEECCCcchHH--HHHHHHHHHHHHHcCCeEEEEe--CCCC-----HHHHHHHHHHHHHhcCCEEEE-eCCC-CcHHH
Confidence 4566644 3354 6778888888888888765432 1111 133455666677778888887 3321 11234
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.++
T Consensus 71 ~~~l~~~~i 79 (268)
T cd06298 71 REEFKRSPT 79 (268)
T ss_pred HHHHhcCCC
Confidence 455544443
No 425
>PHA02650 hypothetical protein; Provisional
Probab=24.27 E-value=1.3e+02 Score=23.83 Aligned_cols=24 Identities=17% Similarity=0.051 Sum_probs=14.5
Q ss_pred ecCCChhHHHHHHHHHHHHHHHHH
Q 003821 446 IKPFTWGMWIVTGAILIYTMSVVW 469 (793)
Q Consensus 446 l~PF~~~vWl~i~~~~i~~~~~~~ 469 (793)
..++.|..|+.++++++++.++.+
T Consensus 44 ~~~~~~~~~ii~i~~v~i~~l~~f 67 (81)
T PHA02650 44 VSWFNGQNFIFLIFSLIIVALFSF 67 (81)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHH
Confidence 456777777777665555544433
No 426
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=24.02 E-value=6.5e+02 Score=24.21 Aligned_cols=86 Identities=10% Similarity=0.028 Sum_probs=54.9
Q ss_pred eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC----hHH
Q 003821 77 RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS----LAM 152 (793)
Q Consensus 77 ~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~----~~~ 152 (793)
.+|.+....++.= .-+..-+...++..|+++.+- .... + ....+..+++.++++|.+ .+. .+.
T Consensus 85 ~~vv~~t~~gd~H--~lG~~~v~~~l~~~G~~vi~L---G~~v----p---~e~~v~~~~~~~pd~v~l-S~~~~~~~~~ 151 (197)
T TIGR02370 85 GKVVCGVAEGDVH--DIGKNIVVTMLRANGFDVIDL---GRDV----P---IDTVVEKVKKEKPLMLTG-SALMTTTMYG 151 (197)
T ss_pred CeEEEEeCCCchh--HHHHHHHHHHHHhCCcEEEEC---CCCC----C---HHHHHHHHHHcCCCEEEE-ccccccCHHH
Confidence 3565555554421 444777888899999987643 2222 2 234566677778998876 443 366
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEe
Q 003821 153 GIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 153 ~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+..++++.++.|...+-.+|+.+
T Consensus 152 ~~~~i~~l~~~~~~~~v~i~vGG 174 (197)
T TIGR02370 152 QKDINDKLKEEGYRDSVKFMVGG 174 (197)
T ss_pred HHHHHHHHHHcCCCCCCEEEEEC
Confidence 78888999998876544455554
No 427
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=23.81 E-value=2.8e+02 Score=26.53 Aligned_cols=37 Identities=19% Similarity=0.211 Sum_probs=30.2
Q ss_pred HHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCC
Q 003821 129 QEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 129 ~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~ 165 (793)
.+.++.+++.+++-+++.+..++++..+-..+++.|+
T Consensus 113 e~~iq~ak~aGanGfiivDlPpEEa~~~Rne~~k~gi 149 (268)
T KOG4175|consen 113 ENYIQVAKNAGANGFIIVDLPPEEAETLRNEARKHGI 149 (268)
T ss_pred HHHHHHHHhcCCCceEeccCChHHHHHHHHHHHhcCc
Confidence 4567778888887777668889999999999999887
No 428
>PRK03427 cell division protein ZipA; Provisional
Probab=23.79 E-value=76 Score=33.11 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=26.9
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 003821 690 LQDFWGLFLISGTTSTICALVFLVRNYTSRQ 720 (793)
Q Consensus 690 l~~l~g~f~il~~g~~ls~lvf~~E~~~~~~ 720 (793)
+++|..+.+++|+..++|+|+.-+|..||-|
T Consensus 2 MqdLrLiLivvGAIAIiAlL~HGlWtsRKer 32 (333)
T PRK03427 2 MQDLRLILIIVGAIAIIALLVHGFWTSRKER 32 (333)
T ss_pred chhhhhHHHHHHHHHHHHHHHHhhhhccccc
Confidence 5788999999999999999999999777655
No 429
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=23.68 E-value=2.9e+02 Score=29.37 Aligned_cols=59 Identities=12% Similarity=0.106 Sum_probs=47.7
Q ss_pred ccchhHHHHHHHHHhhcc-cc---ccccchhhHHHHHHHHHHHHHHHHHHhhhheeeeeccCC
Q 003821 485 IQIGTALWFTFSSLFFAH-RE---RIYSNLTRLVVVVWLFVVLILNSSYTASLSSMLTVQRLK 543 (793)
Q Consensus 485 ~~~~~~~~~~~~~l~~~~-~~---~~~s~s~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~ 543 (793)
.++..++++++.++.-.| +. .|..+.+-+++.+=.+.++++.+.-++-+.+-++.|+..
T Consensus 83 ~~f~~aF~FSveT~tTIGYG~~~~~~~c~~a~~l~~~q~~~g~l~~a~~~Glvfar~srP~~R 145 (336)
T PF01007_consen 83 NSFTSAFLFSVETQTTIGYGSRYPTPECPYAIFLVTIQSLVGLLLDAFMTGLVFARFSRPKKR 145 (336)
T ss_dssp TTHHHHHHHHHHHHTT---SSSEB-CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCCG
T ss_pred cchhhheeEEEEEEEEeccCCcccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccc
Confidence 469999999999998887 44 357778888888889999999999999999999887653
No 430
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=23.67 E-value=3.4e+02 Score=28.40 Aligned_cols=78 Identities=12% Similarity=0.129 Sum_probs=48.1
Q ss_pred eEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHH
Q 003821 77 RKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGI 154 (793)
Q Consensus 77 ~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~ 154 (793)
+.|+++..+ +.|. ..+...+++.+++.|..+... ... .+ . +.....+..+...+.|.+|+ ... ....
T Consensus 64 ~~Igvi~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~-~~~-~~----~-~~~~~~~~~~~~~~vdgiI~-~~~-~~~~ 132 (331)
T PRK14987 64 RAIGVLLPSLTNQVF--AEVLRGIESVTDAHGYQTMLA-HYG-YK----P-EMEQERLESMLSWNIDGLIL-TER-THTP 132 (331)
T ss_pred CEEEEEeCCCcchhH--HHHHHHHHHHHHHCCCEEEEe-cCC-CC----H-HHHHHHHHHHHhcCCCEEEE-cCC-CCCH
Confidence 478888764 3455 778888999999999876532 111 11 1 22345566677778999888 432 1123
Q ss_pred HHHHHHHHcCC
Q 003821 155 HLFREAKEMGL 165 (793)
Q Consensus 155 ~~l~~a~~~g~ 165 (793)
..++.+.+.|+
T Consensus 133 ~~~~~l~~~~i 143 (331)
T PRK14987 133 RTLKMIEVAGI 143 (331)
T ss_pred HHHHHHHhCCC
Confidence 45566666665
No 431
>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=23.64 E-value=2.3e+02 Score=28.21 Aligned_cols=75 Identities=21% Similarity=0.209 Sum_probs=44.0
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|+++..+ +.|. ....+.+.+.+++.|..+... .... . .+..+.+.++.+.+++.+|+..+..+ ...
T Consensus 2 I~~i~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~---~~~~----~-~~~~~~i~~~~~~~vdgiii~~~~~~--~~~ 69 (266)
T cd06278 2 IGVVVADLDNPFY--SELLEALSRALQARGYQPLLI---NTDD----D-EDLDAALRQLLQYRVDGVIVTSGTLS--SEL 69 (266)
T ss_pred EEEEeCCCCCchH--HHHHHHHHHHHHHCCCeEEEE---cCCC----C-HHHHHHHHHHHHcCCCEEEEecCCCC--HHH
Confidence 4555543 3454 667788888888888876433 1111 1 23455666777778888887333322 234
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|.
T Consensus 70 ~~~~~~~~i 78 (266)
T cd06278 70 AEECRRNGI 78 (266)
T ss_pred HHHHhhcCC
Confidence 666666665
No 432
>PF13155 Toprim_2: Toprim-like
Probab=23.55 E-value=1.5e+02 Score=24.43 Aligned_cols=42 Identities=10% Similarity=0.259 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcC
Q 003821 63 QITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISN 106 (793)
Q Consensus 63 ~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g 106 (793)
....+.++++..+-++|.+..++|.-| ....+.+.+.+++.+
T Consensus 34 ~~~~~~~~l~~~~~~~i~l~~DnD~aG--~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 34 SEKQQIKFLKENPYKKIVLAFDNDEAG--RKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCCHHH--HHHHHHHHHHHHhhC
Confidence 345788888765558888888889899 999999999998877
No 433
>PRK11914 diacylglycerol kinase; Reviewed
Probab=23.55 E-value=3.4e+02 Score=28.29 Aligned_cols=81 Identities=6% Similarity=-0.031 Sum_probs=49.2
Q ss_pred hhcCceEEEEEEEcCC-CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccCh
Q 003821 72 GSYNWRKVIIIYEDDA-TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSL 150 (793)
Q Consensus 72 ~~~~w~~vaii~~dd~-~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~ 150 (793)
++...+++.+|+.-.. -|......+.+.+.|++.|.++.... .... .+.....++..+.+.|+||+ .+..
T Consensus 4 ~~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~--t~~~------~~~~~~a~~~~~~~~d~vvv-~GGD 74 (306)
T PRK11914 4 RRHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIV--GTDA------HDARHLVAAALAKGTDALVV-VGGD 74 (306)
T ss_pred CcCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEE--eCCH------HHHHHHHHHHHhcCCCEEEE-ECCc
Confidence 4456688898887654 12002345567788888898754322 2212 44556666666667788887 5666
Q ss_pred HHHHHHHHHHH
Q 003821 151 AMGIHLFREAK 161 (793)
Q Consensus 151 ~~~~~~l~~a~ 161 (793)
.....++..+.
T Consensus 75 GTi~evv~~l~ 85 (306)
T PRK11914 75 GVISNALQVLA 85 (306)
T ss_pred hHHHHHhHHhc
Confidence 66666666554
No 434
>TIGR03061 pip_yhgE_Nterm YhgE/Pip N-terminal domain. This family contains the N-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, TIGR03062, represents the conserved C-terminal domain. The domains are separated by regions highly variable in both length and sequence, often containing extended heptad repeats as described in model TIGR03057.
Probab=23.55 E-value=2.8e+02 Score=25.69 Aligned_cols=26 Identities=0% Similarity=-0.015 Sum_probs=19.6
Q ss_pred CHHHHHHHhhcCceEEEEe-chhhHHH
Q 003821 587 HEYKYITDFESNRIAAAFL-ELSYERA 612 (793)
Q Consensus 587 ~~~~~~~~l~~g~~~a~~~-~~~~~~~ 612 (793)
+.+++.+.+++|++++++. +..+.+-
T Consensus 84 ~~~ea~~~l~~g~~~~~ivIP~~Fs~~ 110 (164)
T TIGR03061 84 SAKEAEKGLADGKYYMVITIPEDFSEN 110 (164)
T ss_pred CHHHHHHHhHcCcEEEEEEECcchhHH
Confidence 7889999999999987774 4444443
No 435
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=23.47 E-value=2.1e+02 Score=31.01 Aligned_cols=69 Identities=16% Similarity=0.110 Sum_probs=45.3
Q ss_pred CceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEecc
Q 003821 75 NWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQS 148 (793)
Q Consensus 75 ~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~ 148 (793)
+-+++.||++...+- ..+..+.+.+.|++.|+++.....+.+.. +.+.+.+.+..+++.++|.||-+.+
T Consensus 22 ~~~r~livt~~~~~~-~~g~~~~v~~~L~~~g~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~IIavGG 90 (375)
T cd08179 22 KGKKAFIVTGGGSMK-KFGFLDKVEAYLKEAGIEVEVFEGVEPDP----SVETVLKGAEAMREFEPDWIIALGG 90 (375)
T ss_pred cCCeEEEEeCchHHH-hCChHHHHHHHHHHcCCeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 448888887654321 03467889999999898764322233332 2355777788888889999987433
No 436
>PRK08118 topology modulation protein; Reviewed
Probab=23.36 E-value=61 Score=30.41 Aligned_cols=31 Identities=19% Similarity=0.471 Sum_probs=27.8
Q ss_pred eEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 7 VKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 7 V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
-+.|+||.+|+=+..+..+++..++|+++..
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD 33 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence 3689999999999999999999999999754
No 437
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=23.12 E-value=3.8e+02 Score=28.66 Aligned_cols=88 Identities=8% Similarity=0.052 Sum_probs=54.8
Q ss_pred HHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEe
Q 003821 67 TAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIIL 146 (793)
Q Consensus 67 i~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl 146 (793)
+.+++...+-+++.+|+++..+ .-..+.+.+.++..|. .+...... .. +.+++.+...++...++|++|-
T Consensus 21 ~~~~~~~~~~~~~lvv~g~~~~---~~~~~~~~~~l~~~g~-~~~~~~~~-~a----~~~ev~~~~~~~~~~~~d~vIG- 90 (360)
T COG0371 21 LLEVLLKLGLSRALVVTGENTY---AIAGEKVEKSLKDEGL-VVHVVFVG-EA----SEEEVERLAAEAGEDGADVVIG- 90 (360)
T ss_pred HHHHHHhccCCceEEEEChhHH---HHHHHHHHHHhcccCc-ceeeeecC-cc----CHHHHHHHHHHhcccCCCEEEE-
Confidence 4456666666899999888776 5567888999999998 44343333 22 2344555555565567898876
Q ss_pred ccChHHHHHHHHH-HHHcCC
Q 003821 147 QSSLAMGIHLFRE-AKEMGL 165 (793)
Q Consensus 147 ~~~~~~~~~~l~~-a~~~g~ 165 (793)
.+. ..+....+. |.++|+
T Consensus 91 VGG-Gk~iD~aK~~A~~~~~ 109 (360)
T COG0371 91 VGG-GKTIDTAKAAAYRLGL 109 (360)
T ss_pred ecC-cHHHHHHHHHHHHcCC
Confidence 343 334444443 455665
No 438
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=23.01 E-value=5.5e+02 Score=22.99 Aligned_cols=20 Identities=5% Similarity=-0.012 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHhhcCceEEE
Q 003821 61 AEQITCTAALVGSYNWRKVI 80 (793)
Q Consensus 61 ~~~~~ai~~ll~~~~w~~va 80 (793)
..|-+++-++.+..||.-+.
T Consensus 21 e~Q~~~l~~~a~~~g~~i~~ 40 (140)
T cd03770 21 ENQKAILEEYAKENGLENIR 40 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEE
Confidence 34445555555556665443
No 439
>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=22.97 E-value=2.5e+02 Score=27.99 Aligned_cols=76 Identities=16% Similarity=0.151 Sum_probs=42.9
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ....+.+++++++.|.++.... ...+ . ....+.+..+...++|.+|+...... ...
T Consensus 2 Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g~~~~~~~--~~~~----~-~~~~~~~~~l~~~~vdgiii~~~~~~--~~~ 70 (268)
T cd01575 2 VAVLVPSLSNSVF--ADVLQGISDVLEAAGYQLLLGN--TGYS----P-EREEELLRTLLSRRPAGLILTGLEHT--ERT 70 (268)
T ss_pred EEEEeCCCcchhH--HHHHHHHHHHHHHcCCEEEEec--CCCC----c-hhHHHHHHHHHHcCCCEEEEeCCCCC--HHH
Confidence 4566644 2343 6677788888888887764321 1111 1 33456667777778888887322222 234
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++.+.+.|+
T Consensus 71 ~~~~~~~~i 79 (268)
T cd01575 71 RQLLRAAGI 79 (268)
T ss_pred HHHHHhcCC
Confidence 555555554
No 440
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=22.95 E-value=1.1e+02 Score=28.36 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=21.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHhhhc
Q 003821 691 QDFWGLFLISGTTSTICALVFLVRNYTSR 719 (793)
Q Consensus 691 ~~l~g~f~il~~g~~ls~lvf~~E~~~~~ 719 (793)
..+.-.|+++++..+++++.|++..+|-+
T Consensus 92 ~~l~R~~~Vl~g~s~l~i~yfvir~~R~r 120 (163)
T PF06679_consen 92 PMLKRALYVLVGLSALAILYFVIRTFRLR 120 (163)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34667788888888888888998855543
No 441
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=22.95 E-value=77 Score=32.88 Aligned_cols=66 Identities=18% Similarity=0.273 Sum_probs=45.7
Q ss_pred EEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhh--cCce--EEEEEE
Q 003821 8 KVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGS--YNWR--KVIIIY 83 (793)
Q Consensus 8 ~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~--~~w~--~vaii~ 83 (793)
+.+|||.+|+-+..+..+|...++|+--..+| .|++.+| + .. ..-..+.++++. |+.. .-+|||
T Consensus 100 ILLiGPTGsGKTlLAqTLAk~LnVPFaiADAT----tLTEAGY--V----GE--DVENillkLlqaadydV~rAerGIIy 167 (408)
T COG1219 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADAT----TLTEAGY--V----GE--DVENILLKLLQAADYDVERAERGIIY 167 (408)
T ss_pred EEEECCCCCcHHHHHHHHHHHhCCCeeecccc----chhhccc--c----ch--hHHHHHHHHHHHcccCHHHHhCCeEE
Confidence 57899999999999999999999999876655 5666664 2 12 233466677765 4332 236666
Q ss_pred Ec
Q 003821 84 ED 85 (793)
Q Consensus 84 ~d 85 (793)
-|
T Consensus 168 ID 169 (408)
T COG1219 168 ID 169 (408)
T ss_pred Ee
Confidence 43
No 442
>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold. The nodulation (nod) genes in soil bacteria play important roles in the development of nodules. nod genes are involved in synthesis of Nod factors that are required for bacterial entry into root hairs. Thirteen nod genes have been identified and are classified into five transcription units: nodD, nodABCIJ, nodFEL, nodMNT, and nodO. NodD is negatively auto-regulates its own expression of nodD gene, while other nod genes are inducible and positively regulated by NodD in the presence of flavonoids released by plant roots. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. T
Probab=22.85 E-value=6.1e+02 Score=23.47 Aligned_cols=69 Identities=4% Similarity=-0.174 Sum_probs=36.8
Q ss_pred cccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEEe--CccccccceEEEecCCCcChHHHHHHHHhh
Q 003821 583 LKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTAT--IPTYRFGGFAFVFQKGSPLAADFSEAILKL 654 (793)
Q Consensus 583 ~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~~--~~~~~~~~~~~~~~k~spl~~~in~~i~~l 654 (793)
...++.......+..|..-+++.+ .......... + +... ........++++.+|+...-..+...+..+
T Consensus 127 ~~~~~~~~~~~~v~~g~giailp~-~~~~~~~~~~-~-l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i 197 (200)
T cd08462 127 VVTPSFSSIPPLLVGTNRIATLHR-RLAEQFARRL-P-LRILPLPFPLPPMREALQWHRYRNNDPGLIWLRELI 197 (200)
T ss_pred EEeChHHHHHHHHHcCchhhhhHH-HHHHhhhhcC-C-ceEeCCCcCCCCeeEEEEEcccccCChHHHHHHHHH
Confidence 456788888888988865444433 3333222221 1 2222 212234567888888866555555444433
No 443
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=22.80 E-value=79 Score=32.89 Aligned_cols=34 Identities=18% Similarity=0.300 Sum_probs=30.8
Q ss_pred cceEEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
..+.+|+||..|+=+...-.+|.+++.++||..+
T Consensus 3 ~~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~DS 36 (308)
T COG0324 3 PKLIVIAGPTASGKTALAIALAKRLGGEIISLDS 36 (308)
T ss_pred ccEEEEECCCCcCHHHHHHHHHHHcCCcEEecch
Confidence 4689999999999999999999999999998654
No 444
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=22.79 E-value=4.1e+02 Score=26.86 Aligned_cols=61 Identities=20% Similarity=0.148 Sum_probs=42.9
Q ss_pred EEEEEEEcCC--Cc-cccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 78 KVIIIYEDDA--TN-ADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 78 ~vaii~~dd~--~G-~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
++++|..-|+ -| --...+..|.+.|.+.|+.+.....++... +++..+++...+. +|++|+
T Consensus 3 ~a~iI~vG~ElL~G~ivdtNa~~la~~L~~~G~~v~~~~~VgD~~------~~I~~~l~~a~~r-~D~vI~ 66 (255)
T COG1058 3 KAEIIAVGDELLSGRIVDTNAAFLADELTELGVDLARITTVGDNP------DRIVEALREASER-ADVVIT 66 (255)
T ss_pred eEEEEEEccceecCceecchHHHHHHHHHhcCceEEEEEecCCCH------HHHHHHHHHHHhC-CCEEEE
Confidence 4555555444 33 013357889999999999988776666443 7788888888776 998887
No 445
>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=22.75 E-value=3.2e+02 Score=27.22 Aligned_cols=59 Identities=14% Similarity=0.176 Sum_probs=35.3
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
|++|..+ +.|. ..+...+++.+++.|..+... ..... ......+.+..+.+.+.|.+++
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~~~~~~~~--~~~~~----~~~~~~~~~~~l~~~~vdgiii 62 (264)
T cd01574 2 IGVVTTDLALHGP--SSTLAAIESAAREAGYAVTLS--MLAEA----DEEALRAAVRRLLAQRVDGVIV 62 (264)
T ss_pred EEEEeCCCCcccH--HHHHHHHHHHHHHCCCeEEEE--eCCCC----chHHHHHHHHHHHhcCCCEEEE
Confidence 4556543 3344 677888888888888775433 11111 1123445566677777888877
No 446
>PF03180 Lipoprotein_9: NLPA lipoprotein; InterPro: IPR004872 This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence. Their precise function is unknown. However they are probably distantly related to IPR001638 from INTERPRO which are solute binding proteins.; PDB: 4EF2_A 4EF1_B 3GXA_C 3IR1_D 3TQW_A 3K2D_B 3UP9_A 1XS5_A 1P99_A.
Probab=22.71 E-value=1.9e+02 Score=28.99 Aligned_cols=81 Identities=17% Similarity=0.260 Sum_probs=54.9
Q ss_pred ccccccCCHHHHHHHhhcCceEEEEe-chhhHHHHHhccCCceEEeCccccccceEEEecCCCcCh--------------
Q 003821 580 ENILKVDHEYKYITDFESNRIAAAFL-ELSYERAFLSQHCKEYTATIPTYRFGGFAFVFQKGSPLA-------------- 644 (793)
Q Consensus 580 ~~~~~~~~~~~~~~~l~~g~~~a~~~-~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~k~spl~-------------- 644 (793)
..++.+.+..+.-.+|.+|++|+-+. ..++++-+..++...+..+++.+ ..++|++-.|-..+.
T Consensus 28 vevv~f~D~~~~N~AL~~G~iDaN~fQh~~yl~~~n~~~~~~L~~v~~~~-~~p~glYS~k~~sl~~lp~Ga~VaIpnD~ 106 (237)
T PF03180_consen 28 VEVVEFSDYVQPNEALADGEIDANFFQHIPYLEQFNKENGYNLVPVGPTY-IEPMGLYSKKYKSLDDLPDGATVAIPNDP 106 (237)
T ss_dssp EEEEEESSTTHHHHHHHTTSSSEEEEEEHHHHHHHHHHHT--EEEEEEEE-E---EEEESSSSSGGGS-TTEEEEEESSH
T ss_pred EEEEEecchhhcChHHHCCCcceeccCCHHHHHHHHHHCCCcEEEeccee-EEeEEEeecccCchhhcCCCCEEEEeCCc
Confidence 35567888889999999999998776 56677666666554577666544 446677655543332
Q ss_pred HHHHHHHHhhhccCchH
Q 003821 645 ADFSEAILKLSENGELR 661 (793)
Q Consensus 645 ~~in~~i~~l~e~G~~~ 661 (793)
....++|.-|++.|++.
T Consensus 107 sN~~RaL~lLq~aGLI~ 123 (237)
T PF03180_consen 107 SNQARALKLLQEAGLIT 123 (237)
T ss_dssp HHHHHHHHHHHHTTSEE
T ss_pred cchhHHHHHHHhCCeEE
Confidence 25678999999999876
No 447
>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold. This CD includes LysR-like bacterial transcriptional regulators, DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. DntR from Burkholderia species controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The active form of DntR is homotetrameric, consisting of a dimer of dimers. NahR is a salicylate-dependent transcription activator of the nah and sal operons for naphthalene degradation. Salicylic acid is an intermediate o
Probab=22.66 E-value=6.1e+02 Score=23.38 Aligned_cols=103 Identities=13% Similarity=0.005 Sum_probs=49.8
Q ss_pred CChHHhhhCCCccccc---CchHHHHHHHhhcCCCCccccccCCHHHHHHHhhcCceEEEEechhhHHHHHhccCCceEE
Q 003821 547 TDIGWLKASNLNVGFD---GDSFVRNYLENVLGFKPENILKVDHEYKYITDFESNRIAAAFLELSYERAFLSQHCKEYTA 623 (793)
Q Consensus 547 ~sl~dL~~~~~~~g~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~c~~~~~ 623 (793)
-+++||.+...-.-.. .....+.++... +.........++.....+.+..|..-+++.+. ........ .. +..
T Consensus 89 i~~~~L~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~-~~~~~~~~-~~-l~~ 164 (201)
T cd08459 89 LTLEQFLAARHVVVSASGTGHGLVEQALREA-GIRRRIALRVPHFLALPLIVAQTDLVATVPER-LARLFARA-GG-LRI 164 (201)
T ss_pred cCHHHHhhCCcEEEccCCCCcchHHHHHHHh-CccccEEEEcCcHHHHHHHHhcCCEEEecHHH-HHHHHhhc-CC-eeE
Confidence 4677886332221111 112233444432 23222334567788888888888654444433 33322221 11 222
Q ss_pred e--CccccccceEEEecCCCcChHHHHHHHHh
Q 003821 624 T--IPTYRFGGFAFVFQKGSPLAADFSEAILK 653 (793)
Q Consensus 624 ~--~~~~~~~~~~~~~~k~spl~~~in~~i~~ 653 (793)
. .+......++++.+++......+...+..
T Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (201)
T cd08459 165 VPLPFPLPPFEVKLYWHRRFHRDPGNRWLRQL 196 (201)
T ss_pred ecCCCCCCCceEEEEEccccCCChHHHHHHHH
Confidence 2 22223456788888876665555544433
No 448
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=22.55 E-value=4.2e+02 Score=28.63 Aligned_cols=32 Identities=19% Similarity=0.148 Sum_probs=15.2
Q ss_pred cCceEEEEEEEcCCCccccccHHHHHHHHHhcCce
Q 003821 74 YNWRKVIIIYEDDATNADTGNLALLSEALQISNSE 108 (793)
Q Consensus 74 ~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~ 108 (793)
+|-++|+++..|.. - .+..+.++...+..|+.
T Consensus 165 ~G~~~V~lit~D~~-R--~ga~EqL~~~a~~~gv~ 196 (374)
T PRK14722 165 FGASKVALLTTDSY-R--IGGHEQLRIFGKILGVP 196 (374)
T ss_pred cCCCeEEEEecccc-c--ccHHHHHHHHHHHcCCc
Confidence 34455665553332 2 33455555555555543
No 449
>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=22.49 E-value=2.5e+02 Score=27.95 Aligned_cols=58 Identities=9% Similarity=-0.049 Sum_probs=36.7
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEE
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFII 145 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivv 145 (793)
|+++..+ +.|. ..+.+.+++.+++.|.++..... . .+ . ..-...+..+.+.+++.+|+
T Consensus 2 i~~i~~~~~~~~~--~~i~~gi~~~~~~~g~~~~~~~~-~-~~----~-~~~~~~i~~l~~~~vdgiii 61 (260)
T cd06286 2 IGVVLPYINHPYF--SQLVDGIEKAALKHGYKVVLLQT-N-YD----K-EKELEYLELLKTKQVDGLIL 61 (260)
T ss_pred EEEEeCCCCCchH--HHHHHHHHHHHHHcCCEEEEEeC-C-CC----h-HHHHHHHHHHHHcCCCEEEE
Confidence 5666664 4455 77788888888888887654311 1 11 1 22345666677778888877
No 450
>PF14981 FAM165: FAM165 family
Probab=22.35 E-value=1.5e+02 Score=20.73 Aligned_cols=31 Identities=23% Similarity=0.263 Sum_probs=23.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHH-Hhhhcc
Q 003821 690 LQDFWGLFLISGTTSTICALVFLVR-NYTSRQ 720 (793)
Q Consensus 690 l~~l~g~f~il~~g~~ls~lvf~~E-~~~~~~ 720 (793)
++++-.+++|++.-.++-++.|..- .|++++
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~kr 34 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKR 34 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 5677888999998887777777765 666553
No 451
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=22.30 E-value=1.5e+02 Score=28.19 Aligned_cols=103 Identities=18% Similarity=0.187 Sum_probs=59.6
Q ss_pred cccceEEEEcCCChhhHHHHHHhccCCCccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEE
Q 003821 3 KEKEVKVIVGMETWGAATMVADIGSRAQVPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIII 82 (793)
Q Consensus 3 ~~~~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii 82 (793)
..+++.+|+|+...+...+ +.+|...++|++-.--. ..+....+.....+... ........+.++ .-++|.||
T Consensus 50 ~~~~id~Iv~iea~Gi~~a-~~vA~~Lgvp~v~vRK~---~kl~~~~~~~~~~~~~~-~~~l~~~~~~l~--~G~rVlIV 122 (179)
T COG0503 50 KDDGIDKIVTIEARGIPLA-AAVALELGVPFVPVRKK---GKLPEESVVETYYLEYG-SETLELHKDALK--PGDRVLIV 122 (179)
T ss_pred cccCCCEEEEEccccchhH-HHHHHHhCCCEEEEEec---CCCCCcceeEEEEEecc-ceEEEEEhhhCC--CCCEEEEE
Confidence 3457999999887766555 67888999999965543 23333332222222222 111111122222 44676666
Q ss_pred EEcCCCccccccHHHHHHHHHhcCceeeEEeec
Q 003821 83 YEDDATNADTGNLALLSEALQISNSEIEYRLVL 115 (793)
Q Consensus 83 ~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~ 115 (793)
=+=-.-| +.+..+.+.+++.|.+++....+
T Consensus 123 DDllaTG---gT~~a~~~Ll~~~ga~vvg~~~~ 152 (179)
T COG0503 123 DDLLATG---GTALALIELLEQAGAEVVGAAFV 152 (179)
T ss_pred ecchhcC---hHHHHHHHHHHHCCCEEEEEEEE
Confidence 3322333 45888999999999998876443
No 452
>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=22.29 E-value=2.2e+02 Score=28.39 Aligned_cols=75 Identities=19% Similarity=0.012 Sum_probs=40.1
Q ss_pred EEEEEEc------CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHh-hcCCceEEEEeccChH
Q 003821 79 VIIIYED------DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKL-LRTESRVFIILQSSLA 151 (793)
Q Consensus 79 vaii~~d------d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~vivvl~~~~~ 151 (793)
|++|..+ +.|. ..+...+++.+++.|..+..... . .. .+-.+.+.++ .+...+.+|+ .+...
T Consensus 2 igvi~p~~~~~~~~~~~--~~~~~~i~~~~~~~g~~~~~~~~-~-~~------~~~~~~~~~~~~~~~vdgiii-~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFF--AEFLSGLSEALAEHGYDLVLLPV-D-PD------EDPLEVYRRLVESGLVDGVII-SRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccH--HHHHHHHHHHHHHCCceEEEecC-C-Cc------HHHHHHHHHHHHcCCCCEEEE-ecCCC
Confidence 4555544 5565 77788888888888887654321 1 11 1222334443 3456888777 33221
Q ss_pred HHHHHHHHHHHcCC
Q 003821 152 MGIHLFREAKEMGL 165 (793)
Q Consensus 152 ~~~~~l~~a~~~g~ 165 (793)
. ...+..+.+.+.
T Consensus 71 ~-~~~~~~~~~~~i 83 (268)
T cd06271 71 D-DPRVALLLERGF 83 (268)
T ss_pred C-ChHHHHHHhcCC
Confidence 1 123455555554
No 453
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=22.20 E-value=56 Score=30.18 Aligned_cols=29 Identities=21% Similarity=0.284 Sum_probs=25.5
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEE
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVL 34 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~I 34 (793)
++++|+||-+|+-+..+-.+++.++.|..
T Consensus 9 K~VailG~ESsGKStLv~kLA~~fnt~~~ 37 (187)
T COG3172 9 KTVAILGGESSGKSTLVNKLANIFNTTSA 37 (187)
T ss_pred eeeeeecCcccChHHHHHHHHHHhCCCch
Confidence 68999999999999999999998887643
No 454
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=22.13 E-value=39 Score=30.91 Aligned_cols=29 Identities=21% Similarity=0.276 Sum_probs=26.2
Q ss_pred EEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 10 IVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 10 iiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
|+||..|+=+.....++..+++++|+.+.
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~~~ 29 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISVGD 29 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEHHH
T ss_pred CcCCCCCChHHHHHHHHHhcCcceechHH
Confidence 78999999999999999999999998653
No 455
>cd02008 TPP_IOR_alpha Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the transamination of aromatic amino acids, to the corresponding aryl acetyl-CoA.
Probab=21.85 E-value=2.1e+02 Score=26.95 Aligned_cols=36 Identities=11% Similarity=0.057 Sum_probs=22.4
Q ss_pred ccceEEEEcCCChhhH-HHHHHhccCCCccEEeeeCC
Q 003821 4 EKEVKVIVGMETWGAA-TMVADIGSRAQVPVLSFAEP 39 (793)
Q Consensus 4 ~~~V~aiiGp~~s~~~-~~va~i~~~~~iP~Is~~~~ 39 (793)
+..|++|+|..+-... ......+.++++|++..--.
T Consensus 69 ~~~Vv~i~GDG~f~~~g~~eL~ta~~~~l~i~vvV~n 105 (178)
T cd02008 69 DKKVVAVIGDSTFFHSGILGLINAVYNKANITVVILD 105 (178)
T ss_pred CCCEEEEecChHHhhccHHHHHHHHHcCCCEEEEEEC
Confidence 3579999997665433 23334466778887655443
No 456
>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=21.83 E-value=3e+02 Score=30.61 Aligned_cols=74 Identities=7% Similarity=0.005 Sum_probs=46.9
Q ss_pred ccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHHHHcCCCCCCeEE
Q 003821 93 GNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREAKEMGLVGPDSVW 172 (793)
Q Consensus 93 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a~~~g~~~~~~~w 172 (793)
+..+.+.+.|++.+.+++..-.+. .+.++..+...++++.+.+.+|+..........++..++..+. |-.+|
T Consensus 23 ~~~~~~~~~l~~~~~~vv~~~~~~------~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~--Pvll~ 94 (452)
T cd00578 23 EYAREVADLLNELPVEVVDKPEVT------GTPDEARKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRK--PVLLL 94 (452)
T ss_pred HHHHHHHHHHhcCCceEEecCccc------CCHHHHHHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCC--CEEEE
Confidence 345566667777777765432222 1346788888888888899988855566666667777766543 53444
Q ss_pred EE
Q 003821 173 VI 174 (793)
Q Consensus 173 i~ 174 (793)
-.
T Consensus 95 a~ 96 (452)
T cd00578 95 AT 96 (452)
T ss_pred eC
Confidence 33
No 457
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=21.77 E-value=7.1e+02 Score=26.51 Aligned_cols=93 Identities=8% Similarity=-0.018 Sum_probs=52.8
Q ss_pred HHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHh-cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcC---Cc
Q 003821 65 TCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQI-SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRT---ES 140 (793)
Q Consensus 65 ~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~ 140 (793)
..+.+.++.++-+++.+|.+...+ ....+.+.+.+++ .++++. .++.... ..+.+.+.+.+..+++. ..
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~---~~~~~~v~~~L~~~~~~~~~---~~~~~e~-~k~~~~v~~~~~~~~~~~~~r~ 84 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA---DLIAHYIAEYLSKILPVHIL---VIEGGEE-YKTFETVTRILERAIALGANRR 84 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhhcCceEE---EeCCCCC-CCCHHHHHHHHHHHHHcCCCCC
Confidence 345566777777899888876553 4467778888876 565432 2333221 11234566666666654 48
Q ss_pred eEEEEeccC-hHHHHHHHHHHHHcC
Q 003821 141 RVFIILQSS-LAMGIHLFREAKEMG 164 (793)
Q Consensus 141 ~vivvl~~~-~~~~~~~l~~a~~~g 164 (793)
+.||.+.+. .-++..++......|
T Consensus 85 d~IIaiGGGsv~D~ak~vA~~~~rg 109 (344)
T cd08169 85 TAIVAVGGGATGDVAGFVASTLFRG 109 (344)
T ss_pred cEEEEECCcHHHHHHHHHHHHhccC
Confidence 888873332 234444444433333
No 458
>PRK14529 adenylate kinase; Provisional
Probab=21.74 E-value=2.7e+02 Score=27.53 Aligned_cols=30 Identities=17% Similarity=0.136 Sum_probs=27.1
Q ss_pred EEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 8 KVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 8 ~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
.+|+||.+|+=+.....++..+++++|+.+
T Consensus 3 I~l~G~PGsGK~T~a~~La~~~~~~~is~g 32 (223)
T PRK14529 3 ILIFGPNGSGKGTQGALVKKKYDLAHIESG 32 (223)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCcccc
Confidence 578999999999999999999999999754
No 459
>PRK10586 putative oxidoreductase; Provisional
Probab=21.71 E-value=4e+02 Score=28.68 Aligned_cols=71 Identities=11% Similarity=0.127 Sum_probs=45.3
Q ss_pred HHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEE
Q 003821 64 ITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVF 143 (793)
Q Consensus 64 ~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 143 (793)
..-+.++++.+|.+++.+|+....+ ......+.+.|++.|+.+. .+.... +.+++.+..+ ....++|+|
T Consensus 22 ~~~l~~~~~~~g~~~~lvv~g~~~~---~~~~~~~~~~l~~~~~~~~---~~~g~~----~~~~v~~l~~-~~~~~~d~i 90 (362)
T PRK10586 22 IDHLHDFFTDEQLSRAVWIYGERAI---AAAQPYLPPAFELPGAKHI---LFRGHC----SESDVAQLAA-ASGDDRQVV 90 (362)
T ss_pred HHHHHHHHHhcCCCeEEEEEChHHH---HHHHHHHHHHHHHcCCeEE---EeCCCC----CHHHHHHHHH-HhccCCCEE
Confidence 3567788899999999999887654 3334667778888887542 333222 2344554333 333578988
Q ss_pred EE
Q 003821 144 II 145 (793)
Q Consensus 144 vv 145 (793)
|-
T Consensus 91 ia 92 (362)
T PRK10586 91 IG 92 (362)
T ss_pred EE
Confidence 86
No 460
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=21.67 E-value=5.9e+02 Score=22.84 Aligned_cols=97 Identities=12% Similarity=0.113 Sum_probs=52.7
Q ss_pred HHHHHHHHHHhhcCce---EEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHH----
Q 003821 62 EQITCTAALVGSYNWR---KVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLK---- 134 (793)
Q Consensus 62 ~~~~ai~~ll~~~~w~---~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~---- 134 (793)
.+...+..+++..... .+.++++|+.-| +-.++.+++.+++.|..+... .+...+ ..+ ..+|..-|..
T Consensus 5 AElnsl~~~~~~~~~~~~~~~~Ll~SDT~~G--~~~a~il~~~l~~~g~~v~~~-~i~~l~-~~~-~~~F~~Gl~~Lv~~ 79 (136)
T PF09651_consen 5 AELNSLVRLLEKGKDDDKDEVVLLHSDTPDG--RLCAEILKEYLEEKGINVEVV-EIEGLQ-TED-PEKFREGLRNLVRW 79 (136)
T ss_dssp HHHHHHHHHHHHHT--GGGEEEEEEESSHHH--HHHHHHHHHHHHHTT-EEEEE-E---E------HHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHhCccccCcEEEEEeCCCHHH--HHHHHHHHHHHHHcCCeEEEE-Eeeeec-ccc-hHHHHHHHHHHHHH
Confidence 4556677777654432 899999999888 889999999999998875432 322221 011 1223332222
Q ss_pred -------hhcCCceEEEEeccChHHHHHHHHHHHHc
Q 003821 135 -------LLRTESRVFIILQSSLAMGIHLFREAKEM 163 (793)
Q Consensus 135 -------l~~~~~~vivvl~~~~~~~~~~l~~a~~~ 163 (793)
.+..+-++++-..+.......++..+...
T Consensus 80 ~~~~v~~~~~~~~~v~~n~TGGfK~~~~~~~~~g~~ 115 (136)
T PF09651_consen 80 VAEEVKNYKGRGYEVIFNATGGFKAEIAYLTLLGML 115 (136)
T ss_dssp THHHHHHHHHTT-EEEEE-SSS-HHHHHHHHHHHHH
T ss_pred HHHHHHHhhcCCCeEEEEeCCChHHHHHHHHHHHHH
Confidence 12345667776455555555555544444
No 461
>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=21.56 E-value=2.8e+02 Score=27.68 Aligned_cols=76 Identities=13% Similarity=0.087 Sum_probs=44.0
Q ss_pred EEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 79 VIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 79 vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
|++|..+ +.|- ......+++++++.|..+... ....+ .+.....+..+...+.|.||+.....+. ..
T Consensus 2 igvi~~~~~~~~~--~~~~~~i~~~a~~~g~~~~~~--~~~~~-----~~~~~~~~~~l~~~~~dgiii~~~~~~~--~~ 70 (267)
T cd06283 2 IGVIVADITNPFS--SLVLKGIEDVCRAHGYQVLVC--NSDND-----PEKEKEYLESLLAYQVDGLIVNPTGNNK--EL 70 (267)
T ss_pred EEEEecCCccccH--HHHHHHHHHHHHHcCCEEEEE--cCCCC-----HHHHHHHHHHHHHcCcCEEEEeCCCCCh--HH
Confidence 4555543 3354 777888889999998776432 11111 1334456677777788888872332222 23
Q ss_pred HHHHHHcCC
Q 003821 157 FREAKEMGL 165 (793)
Q Consensus 157 l~~a~~~g~ 165 (793)
++++.+.|.
T Consensus 71 l~~~~~~~i 79 (267)
T cd06283 71 YQRLAKNGK 79 (267)
T ss_pred HHHHhcCCC
Confidence 566666554
No 462
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=21.38 E-value=2.8e+02 Score=27.99 Aligned_cols=60 Identities=18% Similarity=0.040 Sum_probs=37.4
Q ss_pred HHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHHHHHH
Q 003821 95 LALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHLFREA 160 (793)
Q Consensus 95 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~l~~a 160 (793)
.+.+.+.|++.|.++.....|...... .........+.....+++++ .++..+..+++.+
T Consensus 142 r~~L~~~L~~~G~~v~~~~vY~~~~~~----~~~~~~~~~~~~~~~d~v~f--tS~~~~~~~~~~~ 201 (255)
T PRK05752 142 RELLAERLREQGASVDYLELYRRCLPD----YPAGTLLQRVEAERLNGLVV--SSGQGFEHLQQLA 201 (255)
T ss_pred HHHHHHHHHHCCCEEeEEEEEeecCCC----CCHHHHHHHHHhCCCCEEEE--CCHHHHHHHHHHh
Confidence 567888898999888777666543210 11122334455556787666 6777777776654
No 463
>PRK13054 lipid kinase; Reviewed
Probab=21.36 E-value=4.9e+02 Score=26.96 Aligned_cols=76 Identities=9% Similarity=0.003 Sum_probs=44.9
Q ss_pred eEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHHHHH
Q 003821 77 RKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMGIHL 156 (793)
Q Consensus 77 ~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~~~ 156 (793)
+++.+|+....-+ ......+...+++.|.++.... .... .+.....++....+.++||+ .+.......+
T Consensus 4 ~~~~~i~N~~~~~--~~~~~~~~~~l~~~g~~~~v~~--t~~~------~~a~~~a~~~~~~~~d~vvv-~GGDGTl~ev 72 (300)
T PRK13054 4 PKSLLILNGKSAG--NEELREAVGLLREEGHTLHVRV--TWEK------GDAARYVEEALALGVATVIA-GGGDGTINEV 72 (300)
T ss_pred ceEEEEECCCccc--hHHHHHHHHHHHHcCCEEEEEE--ecCC------CcHHHHHHHHHHcCCCEEEE-ECCccHHHHH
Confidence 5777777744322 3445566667888888754322 2211 22344555555566788887 5666667777
Q ss_pred HHHHHHc
Q 003821 157 FREAKEM 163 (793)
Q Consensus 157 l~~a~~~ 163 (793)
+..+.+.
T Consensus 73 v~~l~~~ 79 (300)
T PRK13054 73 ATALAQL 79 (300)
T ss_pred HHHHHhh
Confidence 7776543
No 464
>PHA02594 nadV nicotinamide phosphoribosyl transferase; Provisional
Probab=20.99 E-value=1.2e+03 Score=26.12 Aligned_cols=149 Identities=12% Similarity=0.068 Sum_probs=76.1
Q ss_pred EcCCChhhHHHHHHhccCCC---ccEEeeeCCCCCCCCCCCCCCeEEEecCChHHHHHHHHHHHhhcCceEEEEEEEcCC
Q 003821 11 VGMETWGAATMVADIGSRAQ---VPVLSFAEPAIAPPLTSTRWPFLVRMANSSAEQITCTAALVGSYNWRKVIIIYEDDA 87 (793)
Q Consensus 11 iGp~~s~~~~~va~i~~~~~---iP~Is~~~~~~~~~l~~~~~~~~~r~~p~~~~~~~ai~~ll~~~~w~~vaii~~dd~ 87 (793)
.|-..+++..++.-....++ +|++.++-. . ..+.+ ....+. ..+.+|...+++.|.=.-+++|.+.-|
T Consensus 202 ~gF~gTdtv~A~~~a~~~Yg~~~~~~~G~SIP----a---~eHS~-~~s~~~-~~E~~AF~~~~~~~p~~~~s~v~DTYD 272 (470)
T PHA02594 202 YNFKGTDTVEALYMAKRYYGDDEVEMAGISVP----A---REHST-MCSYGA-ENEDEAFKNSLTLYGTGIYSIVSDTYD 272 (470)
T ss_pred cCCccccchhHHHHHHHHhCCccccccccccc----h---hhhhh-hhhcCC-chHHHHHHHHHHHCCCCcEEEEEeccc
Confidence 34344444444444445566 787764433 1 11111 122222 346688888888886555667777766
Q ss_pred Cc-cccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhh--------cCC-----ceEEEEeccC---h
Q 003821 88 TN-ADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLL--------RTE-----SRVFIILQSS---L 150 (793)
Q Consensus 88 ~G-~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~--------~~~-----~~vivvl~~~---~ 150 (793)
+- +....+..+.+.+.+.|..+ .++.+.++ ...-....++.|. +++ +++-|+ .++ .
T Consensus 273 ~~~~v~~~i~~l~~~i~~~~~~l--~IR~DSGD----~~~l~~~~~~~L~~~FG~~ln~~G~kvL~~~v~Ii-~gd~ide 345 (470)
T PHA02594 273 FKRAVTEILPELKDEIMARGGKL--VIRPDSGD----PVDIICGALETLGEIFGGTVNSKGYKVLDEHVRLI-QGDGITL 345 (470)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcE--EEeCCCCC----HHHHHHHHHHHHHHhcCCcccCccccccCCCeEEE-EcCCCCH
Confidence 42 11112224555555566654 44444444 3222222244451 112 455555 444 3
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEe
Q 003821 151 AMGIHLFREAKEMGLVGPDSVWVIA 175 (793)
Q Consensus 151 ~~~~~~l~~a~~~g~~~~~~~wi~~ 175 (793)
+.+..+++..++.|...+.-+|-++
T Consensus 346 ~~i~~il~~L~~~G~~a~n~~fGvG 370 (470)
T PHA02594 346 ERINRILTRMKENGFASENVAFGMG 370 (470)
T ss_pred HHHHHHHHHHHHCCCCCCcceEecC
Confidence 6667788888888876665555444
No 465
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=20.87 E-value=5.6e+02 Score=23.53 Aligned_cols=81 Identities=10% Similarity=0.085 Sum_probs=51.1
Q ss_pred HHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceE
Q 003821 63 QITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRV 142 (793)
Q Consensus 63 ~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 142 (793)
.++.+....++++-+++.++-+.-. . ..+.+.+-+.+.-.|+++... +. ++....+.+-...+.++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A-~--D~~~k~~lkma~P~gvk~~i~---sv--------e~a~~~l~~~~~~~~~v 78 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVNDDVA-N--DEVRQTLMGIVAPTGFKVRFV---SL--------EKTINVIHKPAYHDQTI 78 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEccccc-C--CHHHHHHHHhhCCCCCEEEEE---EH--------HHHHHHHhCcCCCCceE
Confidence 4566777888899999887755443 2 445555555555567765432 11 23334444434445688
Q ss_pred EEEeccChHHHHHHHH
Q 003821 143 FIILQSSLAMGIHLFR 158 (793)
Q Consensus 143 ivvl~~~~~~~~~~l~ 158 (793)
+++ +-++.++..+++
T Consensus 79 ~vl-~k~~~da~~l~~ 93 (151)
T TIGR00854 79 FLL-FRNPQDVLTLVE 93 (151)
T ss_pred EEE-ECCHHHHHHHHH
Confidence 888 899999988865
No 466
>PLN02674 adenylate kinase
Probab=20.86 E-value=75 Score=31.93 Aligned_cols=33 Identities=15% Similarity=0.114 Sum_probs=28.9
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEEeeeC
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVLSFAE 38 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~~ 38 (793)
.-+.|+||.+|+=+.....++..+++++|+.+.
T Consensus 32 ~~i~l~G~PGsGKgT~a~~La~~~~~~his~Gd 64 (244)
T PLN02674 32 KRLILIGPPGSGKGTQSPIIKDEYCLCHLATGD 64 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHcCCcEEchhH
Confidence 346789999999999999999999999998653
No 467
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=20.86 E-value=8e+02 Score=29.36 Aligned_cols=25 Identities=28% Similarity=0.365 Sum_probs=20.9
Q ss_pred cceEEEEcCCChhhHHHHHHhccCC
Q 003821 5 KEVKVIVGMETWGAATMVADIGSRA 29 (793)
Q Consensus 5 ~~V~aiiGp~~s~~~~~va~i~~~~ 29 (793)
.+|++++||.+++=+..++.++..+
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhH
Confidence 4699999999998888888888654
No 468
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=20.85 E-value=1.9e+02 Score=29.63 Aligned_cols=65 Identities=12% Similarity=0.010 Sum_probs=41.0
Q ss_pred eEEEEEEEcCC--CccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHH
Q 003821 77 RKVIIIYEDDA--TNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAM 152 (793)
Q Consensus 77 ~~vaii~~dd~--~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~ 152 (793)
+.+++|..+.. |- ..++..+++++++.|..+..... .. . .+..+.+..+.+...|.+|+ .+...+
T Consensus 2 ~~IGvivp~~~npff--~~ii~gIe~~a~~~Gy~l~l~~t-~~-~------~~~e~~i~~l~~~~vDGiI~-~s~~~~ 68 (279)
T PF00532_consen 2 KTIGVIVPDISNPFF--AEIIRGIEQEAREHGYQLLLCNT-GD-D------EEKEEYIELLLQRRVDGIIL-ASSEND 68 (279)
T ss_dssp CEEEEEESSSTSHHH--HHHHHHHHHHHHHTTCEEEEEEE-TT-T------HHHHHHHHHHHHTTSSEEEE-ESSSCT
T ss_pred CEEEEEECCCCCcHH--HHHHHHHHHHHHHcCCEEEEecC-CC-c------hHHHHHHHHHHhcCCCEEEE-ecccCC
Confidence 35777777644 44 67788888888888887643211 11 1 22236777788788888888 444433
No 469
>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=20.71 E-value=4.7e+02 Score=26.24 Aligned_cols=80 Identities=16% Similarity=0.072 Sum_probs=45.7
Q ss_pred EEEEEEEcC----CCccccccHHHHHHHHHh-------cCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEe
Q 003821 78 KVIIIYEDD----ATNADTGNLALLSEALQI-------SNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIIL 146 (793)
Q Consensus 78 ~vaii~~dd----~~G~~~~~~~~l~~~l~~-------~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl 146 (793)
+|+++...+ .+| ......++..++. .|.++..... +.. .++ ....+.++++.+.+.+++|.
T Consensus 1 ~ig~~~p~sg~~~~~~--~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~-d~~---~~~-~~~~~~~~~l~~~~v~~iig- 72 (298)
T cd06268 1 KIGVLLPLSGPLAALG--EPVRNGAELAVEEINAAGGILGRKIELVVE-DTQ---GDP-EAAAAAARELVDDGVDAVIG- 72 (298)
T ss_pred CeeeeecCcCchhhcC--hhHHHHHHHHHHHHHhcCCCCCeEEEEEEe-cCC---CCH-HHHHHHHHHHHhCCceEEEc-
Confidence 356666553 366 6677777766665 2444433322 221 112 33556667777677887765
Q ss_pred ccChHHHHHHHHHHHHcCC
Q 003821 147 QSSLAMGIHLFREAKEMGL 165 (793)
Q Consensus 147 ~~~~~~~~~~l~~a~~~g~ 165 (793)
......+..+...+.+.++
T Consensus 73 ~~~~~~~~~~~~~~~~~~i 91 (298)
T cd06268 73 PLSSGVALAAAPVAEEAGV 91 (298)
T ss_pred CCcchhHHhhHHHHHhCCC
Confidence 4445555566777777765
No 470
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=20.60 E-value=4.7e+02 Score=27.46 Aligned_cols=69 Identities=12% Similarity=0.174 Sum_probs=47.2
Q ss_pred cCceEEEEEEEcCC--Ccc-ccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccC
Q 003821 74 YNWRKVIIIYEDDA--TNA-DTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSS 149 (793)
Q Consensus 74 ~~w~~vaii~~dd~--~G~-~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~ 149 (793)
|.-.+|+||...++ .|. .......+++.+++.|.++.....++... +.+.+.+.+..+.++|+||. .+.
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd~------~~I~~ai~~~~~~g~DlIIt-TGG 228 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHDE------AAIAAAIAEALEAGAELLIL-TGG 228 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCCH------HHHHHHHHHHhcCCCCEEEE-eCC
Confidence 55568899987663 220 13346678888999999987766655433 66888888876656898887 443
No 471
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=20.42 E-value=6e+02 Score=27.89 Aligned_cols=104 Identities=17% Similarity=0.174 Sum_probs=62.9
Q ss_pred CCCCeEEEecC----ChHHHHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCC
Q 003821 48 TRWPFLVRMAN----SSAEQITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTD 123 (793)
Q Consensus 48 ~~~~~~~r~~p----~~~~~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~ 123 (793)
.+-|.++-++- .-+.-+.-+|.+++. .-++|.++..|..- -...+.|+...++.|+.+- +.. ...+
T Consensus 97 ~~~P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~R---pAA~eQL~~La~q~~v~~f-----~~~-~~~~ 166 (451)
T COG0541 97 KKPPTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYR---PAAIEQLKQLAEQVGVPFF-----GSG-TEKD 166 (451)
T ss_pred CCCCeEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCC---hHHHHHHHHHHHHcCCcee-----cCC-CCCC
Confidence 34455554432 224455668888888 55788888877652 4467778888888887632 221 1123
Q ss_pred ChHHHHHHHHHhhcCCceEEEEeccChHHHH--HHHHHHHH
Q 003821 124 PKQFLQEKLLKLLRTESRVFIILQSSLAMGI--HLFREAKE 162 (793)
Q Consensus 124 ~~~~~~~~l~~l~~~~~~vivvl~~~~~~~~--~~l~~a~~ 162 (793)
+-+-..+.+.+.+....|++|+ +....... .++.++.+
T Consensus 167 Pv~Iak~al~~ak~~~~DvvIv-DTAGRl~ide~Lm~El~~ 206 (451)
T COG0541 167 PVEIAKAALEKAKEEGYDVVIV-DTAGRLHIDEELMDELKE 206 (451)
T ss_pred HHHHHHHHHHHHHHcCCCEEEE-eCCCcccccHHHHHHHHH
Confidence 4334567778888888898888 77654332 34444443
No 472
>PF09002 DUF1887: Domain of unknown function (DUF1887); InterPro: IPR015093 This entry represents a set of hypothetical bacterial and archaeal proteins. ; PDB: 1XMX_A.
Probab=20.34 E-value=3.4e+02 Score=29.46 Aligned_cols=89 Identities=16% Similarity=0.264 Sum_probs=48.2
Q ss_pred HHHHH-hhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHH----hhcCCce
Q 003821 67 TAALV-GSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLK----LLRTESR 141 (793)
Q Consensus 67 i~~ll-~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~----l~~~~~~ 141 (793)
+..++ ..+..++|++|++++. ....+.++..++..|+.+... .++... ...++.+.+.+ +++ ..+
T Consensus 17 l~~ll~~~~~p~kvvlI~t~~~----~~~~~~L~~~l~~~~~~~e~~-~i~d~~----d~~~i~~~l~~l~~~~~~-~~~ 86 (381)
T PF09002_consen 17 LPILLDRKFKPDKVVLIGTEDM----KEKAERLKSVLKQRGIKVEFF-EIPDEY----DIEEIKESLEQLLEKLKA-GDE 86 (381)
T ss_dssp HHHHHSTT----EEEEEE-GGG----HHHHHHHHHHHHHTT-EEEEE-E--SSS-----HHHHHHHHHHHHHHHHH-T-E
T ss_pred ehhhhhccCCCCEEEEEECchH----HHHHHHHHHHHHhcCCCceEE-ecCChh----hHHHHHHHHHHHHHhccC-CCe
Confidence 33456 4789999999999876 567889999999999987543 333322 12334444444 443 678
Q ss_pred EEEEeccChHH-HHHHHHHHHHcCC
Q 003821 142 VFIILQSSLAM-GIHLFREAKEMGL 165 (793)
Q Consensus 142 vivvl~~~~~~-~~~~l~~a~~~g~ 165 (793)
+++-+.|.... +..+...+++.+.
T Consensus 87 i~lNlTGGTK~MaLaay~~~r~~~~ 111 (381)
T PF09002_consen 87 IILNLTGGTKLMALAAYEAFRKYGW 111 (381)
T ss_dssp EEEE-SSS-HHHHHHHHHHHHHTT-
T ss_pred EEEEeCCChHHHHHHHHHHHHhcCC
Confidence 87765666554 5556666655543
No 473
>PRK01184 hypothetical protein; Provisional
Probab=20.33 E-value=81 Score=29.92 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=25.7
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
.+++++||.+|+=+. ++.++..+++|+++.+
T Consensus 2 ~~i~l~G~~GsGKsT-~a~~~~~~g~~~i~~~ 32 (184)
T PRK01184 2 KIIGVVGMPGSGKGE-FSKIAREMGIPVVVMG 32 (184)
T ss_pred cEEEEECCCCCCHHH-HHHHHHHcCCcEEEhh
Confidence 378999999998777 4678999999999853
No 474
>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=20.32 E-value=4.4e+02 Score=27.48 Aligned_cols=79 Identities=13% Similarity=-0.010 Sum_probs=47.2
Q ss_pred ceEEEEEEEc--CCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceEEEEeccChHHH
Q 003821 76 WRKVIIIYED--DATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRVFIILQSSLAMG 153 (793)
Q Consensus 76 w~~vaii~~d--d~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivvl~~~~~~~ 153 (793)
-+.|+++..+ +.|- ..+...+++.+++.|..+.... .. .+ .......+..+.+.+.|.+|+ .... ..
T Consensus 59 ~~~Igvv~~~~~~~f~--~~l~~~i~~~~~~~g~~~~i~~-~~-~~-----~~~~~~~~~~l~~~~vdGiIi-~~~~-~~ 127 (329)
T TIGR01481 59 TTTVGVIIPDISNIYY--AELARGIEDIATMYKYNIILSN-SD-ED-----PEKEVQVLNTLLSKQVDGIIF-MGGT-IT 127 (329)
T ss_pred CCEEEEEeCCCCchhH--HHHHHHHHHHHHHcCCEEEEEe-CC-CC-----HHHHHHHHHHHHhCCCCEEEE-eCCC-CC
Confidence 3578888864 3455 6778889999999998764321 11 11 123345566677778998887 4322 11
Q ss_pred HHHHHHHHHcCC
Q 003821 154 IHLFREAKEMGL 165 (793)
Q Consensus 154 ~~~l~~a~~~g~ 165 (793)
..+++.+.+.++
T Consensus 128 ~~~~~~l~~~~i 139 (329)
T TIGR01481 128 EKLREEFSRSPV 139 (329)
T ss_pred hHHHHHHHhcCC
Confidence 233445555554
No 475
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=20.28 E-value=6.1e+02 Score=23.51 Aligned_cols=80 Identities=10% Similarity=0.019 Sum_probs=50.6
Q ss_pred HHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHH-hcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCce
Q 003821 63 QITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQ-ISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESR 141 (793)
Q Consensus 63 ~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 141 (793)
.++.+...+++++-+++.++-+.-. . ..+.+.+-+.+. -.|+++... +. ++....+.+ ...+.+
T Consensus 17 HGQV~~~W~~~~~~~~IiVvdD~vA-~--D~~~k~~lkma~~P~gvk~~i~---sv--------~~a~~~l~~-~~~~~~ 81 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVDDVVA-N--DDIQQKLMGITAETYGFGIRFF---TI--------EKTINVIGK-AAPHQK 81 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEcchhc-C--CHHHHHHHHhcCCCCCCEEEEE---EH--------HHHHHHHHh-ccCCce
Confidence 4667778899999999887755433 2 444555555444 356655422 11 334455555 445667
Q ss_pred EEEEeccChHHHHHHHH
Q 003821 142 VFIILQSSLAMGIHLFR 158 (793)
Q Consensus 142 vivvl~~~~~~~~~~l~ 158 (793)
++++ +.++.++..+++
T Consensus 82 vlvl-~~~~~da~~l~~ 97 (158)
T PRK09756 82 IFLI-CRTPQTVRKLVE 97 (158)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8887 899999988875
No 476
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=20.28 E-value=5.8e+02 Score=23.45 Aligned_cols=81 Identities=12% Similarity=0.090 Sum_probs=51.3
Q ss_pred HHHHHHHHHhhcCceEEEEEEEcCCCccccccHHHHHHHHHhcCceeeEEeecCCCCCCCCChHHHHHHHHHhhcCCceE
Q 003821 63 QITCTAALVGSYNWRKVIIIYEDDATNADTGNLALLSEALQISNSEIEYRLVLPPISYLTDPKQFLQEKLLKLLRTESRV 142 (793)
Q Consensus 63 ~~~ai~~ll~~~~w~~vaii~~dd~~G~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 142 (793)
.++.+....++++-+++.++-+.-. . ..+.+.+-+.+.-.|+++... + .++....+.+-+..+.++
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A-~--D~~~k~~l~ma~P~gvk~~i~---s--------ve~a~~~l~~~~~~~~~v 77 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVA-N--DELRKTLLKLAAPPGVKLRIF---T--------VEKAIEAINSPKYDKQRV 77 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEccccc-C--CHHHHHHHHhhCCCCCeEEEE---E--------HHHHHHHHhCcCCCCceE
Confidence 4567778888999999877755433 2 445555555555567665432 1 133444444434456788
Q ss_pred EEEeccChHHHHHHHH
Q 003821 143 FIILQSSLAMGIHLFR 158 (793)
Q Consensus 143 ivvl~~~~~~~~~~l~ 158 (793)
+++ +-++.++..+++
T Consensus 78 ~il-~k~~~~~~~l~~ 92 (151)
T cd00001 78 FLL-FKNPQDVLRLVE 92 (151)
T ss_pred EEE-ECCHHHHHHHHH
Confidence 888 899999988865
No 477
>PRK14530 adenylate kinase; Provisional
Probab=20.11 E-value=90 Score=30.60 Aligned_cols=32 Identities=13% Similarity=0.170 Sum_probs=28.5
Q ss_pred ceEEEEcCCChhhHHHHHHhccCCCccEEeee
Q 003821 6 EVKVIVGMETWGAATMVADIGSRAQVPVLSFA 37 (793)
Q Consensus 6 ~V~aiiGp~~s~~~~~va~i~~~~~iP~Is~~ 37 (793)
..++|+||.+|+=+.....+++.+++++|+.+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~g 35 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTTG 35 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHhCCeEEecc
Confidence 46889999999999999999999999999753
No 478
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=20.05 E-value=1.2e+02 Score=20.66 Aligned_cols=24 Identities=21% Similarity=0.465 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhc
Q 003821 696 LFLISGTTSTICALVFLVRNYTSR 719 (793)
Q Consensus 696 ~f~il~~g~~ls~lvf~~E~~~~~ 719 (793)
+|.+.++..+.-+..|+.+.+..+
T Consensus 13 VF~lVglv~i~iva~~iYRKw~aR 36 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRKWQAR 36 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHH
Confidence 455544433333334444444433
Done!