Query 036525
Match_columns 783
No_of_seqs 503 out of 3185
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 02:55:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036525.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036525hhsearch_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 5E-77 1.1E-81 616.8 38.5 644 7-678 89-846 (897)
2 KOG1053 Glutamate-gated NMDA-t 100.0 9.9E-67 2.1E-71 561.7 50.5 652 2-683 94-864 (1258)
3 KOG4440 NMDA selective glutama 100.0 8.4E-69 1.8E-73 557.9 24.3 646 2-678 90-858 (993)
4 KOG1052 Glutamate-gated kainat 100.0 1.3E-55 2.9E-60 517.3 47.6 534 125-677 5-624 (656)
5 cd06361 PBP1_GPC6A_like Ligand 100.0 4.7E-36 1E-40 330.3 28.0 282 7-306 102-397 (403)
6 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.4E-35 3.1E-40 320.9 29.4 288 3-306 52-363 (364)
7 cd06367 PBP1_iGluR_NMDA N-term 100.0 1.3E-35 2.8E-40 324.8 29.1 283 2-302 57-351 (362)
8 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 5.2E-35 1.1E-39 321.5 29.9 277 2-303 75-364 (377)
9 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 2.4E-34 5.2E-39 313.6 29.1 293 3-307 53-369 (370)
10 cd06393 PBP1_iGluR_Kainate_Glu 100.0 2E-34 4.2E-39 317.3 27.5 283 7-307 71-382 (384)
11 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3.3E-34 7.2E-39 311.8 28.2 291 3-307 59-370 (371)
12 cd06380 PBP1_iGluR_AMPA N-term 100.0 4.7E-34 1E-38 314.8 28.8 296 2-306 57-381 (382)
13 cd06362 PBP1_mGluR Ligand bind 100.0 1.1E-33 2.5E-38 318.6 29.4 290 7-307 102-451 (452)
14 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.9E-33 4.1E-38 303.6 29.7 289 3-306 59-371 (372)
15 cd06374 PBP1_mGluR_groupI Liga 100.0 1.6E-33 3.4E-38 318.1 28.6 286 6-302 115-464 (472)
16 cd06375 PBP1_mGluR_groupII Lig 100.0 2.8E-33 6.1E-38 313.5 30.1 284 6-302 103-454 (458)
17 cd06376 PBP1_mGluR_groupIII Li 100.0 2.7E-33 5.8E-38 315.7 30.0 285 7-302 102-452 (463)
18 cd06365 PBP1_Pheromone_recepto 100.0 3.5E-33 7.6E-38 313.9 30.6 286 7-304 102-454 (469)
19 cd06392 PBP1_iGluR_delta_1 N-t 100.0 3.3E-33 7.1E-38 302.6 27.0 288 2-307 57-399 (400)
20 cd06386 PBP1_NPR_C_like Ligand 100.0 3.5E-33 7.5E-38 307.3 24.9 277 6-304 65-380 (387)
21 cd06364 PBP1_CaSR Ligand-bindi 100.0 4.7E-32 1E-36 306.8 32.7 289 7-303 117-494 (510)
22 cd06391 PBP1_iGluR_delta_2 N-t 100.0 7.8E-32 1.7E-36 294.9 30.4 294 2-307 57-399 (400)
23 cd06363 PBP1_Taste_receptor Li 100.0 6E-32 1.3E-36 300.2 27.8 283 6-303 105-396 (410)
24 cd06371 PBP1_sensory_GC_DEF_li 100.0 1E-31 2.2E-36 295.0 24.9 270 6-300 64-369 (382)
25 cd06366 PBP1_GABAb_receptor Li 100.0 7.2E-32 1.6E-36 294.0 23.3 262 2-307 60-347 (350)
26 cd06385 PBP1_NPR_A Ligand-bind 100.0 3.7E-31 8E-36 293.9 26.6 277 6-304 72-392 (405)
27 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 9.1E-31 2E-35 283.0 28.8 284 2-302 56-350 (362)
28 cd06372 PBP1_GC_G_like Ligand- 100.0 5.5E-31 1.2E-35 291.2 25.5 282 2-305 62-388 (391)
29 cd06373 PBP1_NPR_like Ligand b 100.0 7.4E-31 1.6E-35 290.7 25.0 282 2-304 67-390 (396)
30 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.8E-30 4E-35 287.4 28.0 277 7-305 72-394 (399)
31 cd06352 PBP1_NPR_GC_like Ligan 100.0 8.1E-31 1.8E-35 290.0 24.6 285 2-306 62-385 (389)
32 cd06370 PBP1_Speract_GC_like L 100.0 4E-30 8.7E-35 285.0 24.3 267 2-291 64-382 (404)
33 PF01094 ANF_receptor: Recepto 100.0 1.1E-29 2.4E-34 276.6 22.7 274 5-291 48-348 (348)
34 PRK15404 leucine ABC transport 100.0 1.4E-28 2.9E-33 268.9 21.0 261 2-293 87-363 (369)
35 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.4E-28 3E-33 265.4 20.5 244 2-306 58-326 (327)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 3.5E-28 7.6E-33 263.3 21.9 258 2-290 61-334 (334)
37 cd06338 PBP1_ABC_ligand_bindin 100.0 4.3E-28 9.2E-33 263.8 19.3 258 2-289 65-344 (345)
38 cd06345 PBP1_ABC_ligand_bindin 100.0 6.6E-28 1.4E-32 262.1 20.2 252 2-282 61-338 (344)
39 KOG1056 Glutamate-gated metabo 100.0 2.2E-27 4.7E-32 267.5 23.9 290 7-307 124-476 (878)
40 cd06381 PBP1_iGluR_delta_like 100.0 1.8E-26 3.9E-31 249.9 27.2 262 2-307 57-363 (363)
41 cd06346 PBP1_ABC_ligand_bindin 100.0 1.9E-27 4.1E-32 254.7 18.7 236 2-287 61-310 (312)
42 cd06348 PBP1_ABC_ligand_bindin 99.9 7.6E-27 1.6E-31 253.8 21.2 265 2-287 61-343 (344)
43 cd06368 PBP1_iGluR_non_NMDA_li 99.9 6.3E-27 1.4E-31 252.3 20.1 245 2-306 57-323 (324)
44 cd06340 PBP1_ABC_ligand_bindin 99.9 7.9E-27 1.7E-31 253.7 18.0 253 2-282 64-341 (347)
45 cd06327 PBP1_SBP_like_1 Peripl 99.9 1.2E-26 2.5E-31 251.2 17.6 252 2-282 60-329 (334)
46 cd06394 PBP1_iGluR_Kainate_KA1 99.9 1E-26 2.2E-31 247.4 16.5 261 6-307 63-332 (333)
47 cd06355 PBP1_FmdD_like Peripla 99.9 4E-26 8.7E-31 248.1 21.4 261 2-293 61-340 (348)
48 cd06344 PBP1_ABC_ligand_bindin 99.9 2.6E-26 5.7E-31 248.2 18.9 250 2-282 60-326 (332)
49 cd06329 PBP1_SBP_like_3 Peripl 99.9 2.9E-26 6.2E-31 248.9 19.2 244 2-276 61-329 (342)
50 cd06350 PBP1_GPCR_family_C_lik 99.9 6.6E-26 1.4E-30 246.9 21.0 240 7-303 90-340 (348)
51 TIGR03669 urea_ABC_arch urea A 99.9 7.2E-26 1.6E-30 246.9 21.2 268 2-301 62-349 (374)
52 cd06360 PBP1_alkylbenzenes_lik 99.9 7.5E-26 1.6E-30 245.2 21.1 257 2-284 59-331 (336)
53 COG0683 LivK ABC-type branched 99.9 1.1E-25 2.3E-30 245.6 20.1 260 2-291 72-353 (366)
54 cd06383 PBP1_iGluR_AMPA_Like N 99.9 2.2E-25 4.8E-30 241.8 21.6 269 3-288 61-356 (368)
55 cd06336 PBP1_ABC_ligand_bindin 99.9 1E-25 2.2E-30 245.0 18.2 255 2-286 65-345 (347)
56 cd06328 PBP1_SBP_like_2 Peripl 99.9 2.1E-25 4.6E-30 241.0 20.1 249 2-281 62-327 (333)
57 cd06331 PBP1_AmiC_like Type I 99.9 1.9E-25 4E-30 241.7 19.3 247 2-279 61-324 (333)
58 cd06359 PBP1_Nba_like Type I p 99.9 2.8E-25 6E-30 240.3 20.3 257 2-288 59-331 (333)
59 cd06343 PBP1_ABC_ligand_bindin 99.9 5E-25 1.1E-29 241.3 21.8 263 2-291 68-358 (362)
60 cd06349 PBP1_ABC_ligand_bindin 99.9 7.4E-25 1.6E-29 237.8 22.7 257 2-291 61-336 (340)
61 cd06347 PBP1_ABC_ligand_bindin 99.9 7.2E-25 1.6E-29 237.3 22.5 251 2-283 61-329 (334)
62 cd06357 PBP1_AmiC Periplasmic 99.9 2.5E-24 5.4E-29 235.1 23.5 260 2-290 61-337 (360)
63 TIGR03407 urea_ABC_UrtA urea A 99.9 2.3E-24 5E-29 235.2 21.7 261 2-293 62-341 (359)
64 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 2.9E-23 6.2E-28 221.0 28.8 276 7-305 80-373 (382)
65 cd06330 PBP1_Arsenic_SBP_like 99.9 1.4E-24 3.1E-29 236.2 17.8 252 2-278 61-333 (346)
66 cd06332 PBP1_aromatic_compound 99.9 4.4E-24 9.6E-29 231.1 20.4 251 2-281 59-325 (333)
67 cd06356 PBP1_Amide_Urea_BP_lik 99.9 5.2E-24 1.1E-28 230.2 19.3 241 2-276 61-321 (334)
68 cd06337 PBP1_ABC_ligand_bindin 99.9 3.2E-24 6.9E-29 234.0 17.3 245 2-277 63-341 (357)
69 cd06358 PBP1_NHase Type I peri 99.9 5.4E-24 1.2E-28 230.2 18.7 242 2-277 61-321 (333)
70 cd06335 PBP1_ABC_ligand_bindin 99.9 1.2E-23 2.5E-28 228.8 20.6 246 2-277 61-334 (347)
71 PF13458 Peripla_BP_6: Peripla 99.9 9E-24 1.9E-28 229.6 17.8 260 2-293 63-342 (343)
72 cd06334 PBP1_ABC_ligand_bindin 99.9 2E-23 4.2E-28 226.7 19.7 257 2-276 61-343 (351)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 4.7E-23 1E-27 222.5 21.7 261 2-302 57-322 (328)
74 cd06339 PBP1_YraM_LppC_lipopro 99.9 7.1E-23 1.5E-27 221.3 17.3 240 2-281 54-330 (336)
75 TIGR03863 PQQ_ABC_bind ABC tra 99.9 4.9E-23 1.1E-27 221.5 14.6 245 2-282 54-308 (347)
76 cd06326 PBP1_STKc_like Type I 99.9 1.9E-21 4.2E-26 210.7 20.0 250 2-280 62-329 (336)
77 cd06269 PBP1_glutamate_recepto 99.9 2.3E-21 5E-26 205.7 18.1 165 7-174 70-235 (298)
78 PF13433 Peripla_BP_5: Peripla 99.9 6E-21 1.3E-25 198.6 18.1 262 2-297 62-346 (363)
79 cd06341 PBP1_ABC_ligand_bindin 99.8 8.6E-20 1.9E-24 198.2 19.2 237 2-271 61-318 (341)
80 KOG1055 GABA-B ion channel rec 99.8 7.2E-21 1.6E-25 207.8 7.3 285 8-305 113-432 (865)
81 cd04509 PBP1_ABC_transporter_G 99.8 1.6E-18 3.4E-23 183.8 14.6 212 2-218 61-290 (299)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.8 4.8E-18 1E-22 182.0 16.9 211 2-220 60-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.7 5.9E-17 1.3E-21 171.7 16.3 210 3-220 62-287 (298)
84 PRK10797 glutamate and asparta 99.7 1.1E-16 2.5E-21 169.4 17.9 220 310-626 40-272 (302)
85 cd06369 PBP1_GC_C_enterotoxin_ 99.7 8.4E-16 1.8E-20 159.7 23.5 265 7-303 80-365 (380)
86 PRK09495 glnH glutamine ABC tr 99.7 1.1E-16 2.4E-21 165.2 17.2 219 310-627 25-245 (247)
87 PF00497 SBP_bac_3: Bacterial 99.7 1.7E-16 3.6E-21 161.0 9.9 221 312-626 1-225 (225)
88 PRK11260 cystine transporter s 99.6 3.7E-15 8.1E-20 155.6 17.3 221 310-627 41-263 (266)
89 TIGR02995 ectoine_ehuB ectoine 99.6 4.1E-15 8.9E-20 156.0 17.1 222 310-624 33-260 (275)
90 PRK15007 putative ABC transpor 99.6 6.4E-15 1.4E-19 151.7 16.6 215 310-625 21-242 (243)
91 PRK15010 ABC transporter lysin 99.6 1.2E-14 2.6E-19 151.3 16.7 220 310-626 26-255 (260)
92 PRK11917 bifunctional adhesin/ 99.6 1.4E-14 3E-19 150.3 16.9 214 310-624 38-258 (259)
93 PF00060 Lig_chan: Ligand-gate 99.6 1.9E-16 4.1E-21 149.7 2.0 99 418-516 1-107 (148)
94 TIGR01096 3A0103s03R lysine-ar 99.6 1.7E-14 3.6E-19 149.4 16.5 218 310-624 24-250 (250)
95 PRK09959 hybrid sensory histid 99.6 8.2E-14 1.8E-18 176.2 19.6 217 310-626 302-521 (1197)
96 PRK15437 histidine ABC transpo 99.5 8.6E-14 1.9E-18 144.7 16.4 220 310-626 26-255 (259)
97 PRK10859 membrane-bound lytic 99.5 3.7E-14 8E-19 159.9 13.9 219 310-626 43-267 (482)
98 COG0834 HisJ ABC-type amino ac 99.4 1.5E-12 3.3E-17 136.7 16.4 223 310-626 34-265 (275)
99 PRK09959 hybrid sensory histid 99.4 1.4E-12 3.1E-17 165.0 15.1 219 310-626 56-278 (1197)
100 TIGR02285 conserved hypothetic 99.4 1.9E-12 4.1E-17 135.3 12.8 232 310-628 18-264 (268)
101 TIGR03870 ABC_MoxJ methanol ox 99.4 4.1E-12 8.9E-17 130.9 13.1 209 311-623 1-241 (246)
102 TIGR03871 ABC_peri_MoxJ_2 quin 99.2 2.3E-10 5E-15 116.9 14.9 210 311-624 1-228 (232)
103 cd01391 Periplasmic_Binding_Pr 99.2 2.3E-10 5E-15 118.4 14.6 204 6-218 56-261 (269)
104 smart00062 PBPb Bacterial peri 99.2 3E-10 6.5E-15 113.4 14.0 216 311-624 1-219 (219)
105 cd00134 PBPb Bacterial peripla 99.1 7.2E-10 1.6E-14 110.8 15.2 214 312-624 1-218 (218)
106 smart00079 PBPe Eukaryotic hom 99.1 7.5E-10 1.6E-14 102.5 10.8 107 513-625 17-133 (134)
107 COG4623 Predicted soluble lyti 98.7 6.8E-08 1.5E-12 98.7 11.0 218 310-626 23-248 (473)
108 PF04348 LppC: LppC putative l 98.5 9.1E-07 2E-11 100.4 13.2 180 6-195 276-457 (536)
109 PF10613 Lig_chan-Glu_bd: Liga 98.4 5E-08 1.1E-12 75.7 0.8 52 324-376 1-65 (65)
110 cd01537 PBP1_Repressors_Sugar_ 98.2 2.1E-05 4.5E-10 81.4 13.3 154 7-168 54-212 (264)
111 cd06267 PBP1_LacI_sugar_bindin 98.0 4.7E-05 1E-09 78.8 12.0 154 7-168 54-211 (264)
112 cd01536 PBP1_ABC_sugar_binding 97.9 0.00019 4.1E-09 74.5 14.3 154 7-169 54-215 (267)
113 TIGR01098 3A0109s03R phosphate 97.8 0.00013 2.8E-09 75.5 10.4 208 310-610 32-254 (254)
114 PRK00489 hisG ATP phosphoribos 97.7 9.1E-05 2E-09 77.8 8.0 168 364-626 50-220 (287)
115 cd06282 PBP1_GntR_like_2 Ligan 97.6 0.00053 1.1E-08 71.2 12.0 190 6-225 53-248 (266)
116 cd06300 PBP1_ABC_sugar_binding 97.5 0.001 2.2E-08 69.4 12.3 145 7-161 59-211 (272)
117 cd06320 PBP1_allose_binding Pe 97.3 0.0031 6.8E-08 65.9 13.9 155 7-170 56-217 (275)
118 cd06273 PBP1_GntR_like_1 This 97.3 0.0018 3.9E-08 67.3 11.9 148 7-164 54-208 (268)
119 cd01545 PBP1_SalR Ligand-bindi 97.3 0.0023 4.9E-08 66.6 12.4 160 3-169 51-215 (270)
120 cd06319 PBP1_ABC_sugar_binding 97.3 0.0041 8.8E-08 65.0 14.1 156 7-170 54-220 (277)
121 cd06323 PBP1_ribose_binding Pe 97.3 0.0034 7.3E-08 65.2 13.1 155 6-170 53-215 (268)
122 cd06325 PBP1_ABC_uncharacteriz 97.2 0.0023 5E-08 67.0 11.6 144 6-158 58-208 (281)
123 cd06298 PBP1_CcpA_like Ligand- 96.9 0.008 1.7E-07 62.3 12.1 154 6-169 53-213 (268)
124 cd06317 PBP1_ABC_sugar_binding 96.9 0.014 2.9E-07 60.9 13.6 159 6-169 54-221 (275)
125 cd06271 PBP1_AglR_RafR_like Li 96.9 0.012 2.5E-07 61.0 12.9 157 3-167 54-214 (268)
126 cd06301 PBP1_rhizopine_binding 96.9 0.018 3.9E-07 59.9 14.3 158 6-170 54-219 (272)
127 PF13407 Peripla_BP_4: Peripla 96.8 0.016 3.4E-07 59.9 13.2 150 7-161 54-209 (257)
128 cd06312 PBP1_ABC_sugar_binding 96.8 0.018 3.9E-07 59.9 13.6 156 7-169 56-217 (271)
129 cd06289 PBP1_MalI_like Ligand- 96.8 0.012 2.6E-07 61.0 11.7 157 6-169 53-214 (268)
130 TIGR01481 ccpA catabolite cont 96.8 0.016 3.4E-07 62.4 12.9 149 6-164 113-266 (329)
131 COG3107 LppC Putative lipoprot 96.7 0.021 4.5E-07 62.1 13.2 180 4-193 315-518 (604)
132 cd06305 PBP1_methylthioribose_ 96.7 0.018 3.9E-07 59.9 12.9 195 7-224 54-257 (273)
133 TIGR03431 PhnD phosphonate ABC 96.5 0.0089 1.9E-07 63.1 8.9 81 535-619 171-258 (288)
134 cd06284 PBP1_LacI_like_6 Ligan 96.5 0.026 5.7E-07 58.4 12.3 157 4-169 51-212 (267)
135 cd01542 PBP1_TreR_like Ligand- 96.5 0.07 1.5E-06 54.9 15.3 151 6-169 53-208 (259)
136 cd06309 PBP1_YtfQ_like Peripla 96.5 0.04 8.7E-07 57.4 13.3 196 7-224 54-258 (273)
137 PRK10653 D-ribose transporter 96.4 0.053 1.1E-06 57.3 13.8 154 7-170 81-241 (295)
138 cd06295 PBP1_CelR Ligand bindi 96.3 0.043 9.4E-07 57.2 12.5 156 4-169 60-222 (275)
139 cd01575 PBP1_GntR Ligand-bindi 96.3 0.051 1.1E-06 56.2 12.6 155 6-168 53-211 (268)
140 cd06310 PBP1_ABC_sugar_binding 96.2 0.14 3E-06 53.2 15.6 155 7-170 56-218 (273)
141 cd06281 PBP1_LacI_like_5 Ligan 96.2 0.039 8.4E-07 57.3 11.3 154 5-167 52-209 (269)
142 cd06313 PBP1_ABC_sugar_binding 96.2 0.13 2.9E-06 53.5 15.2 155 7-169 54-216 (272)
143 cd06294 PBP1_ycjW_transcriptio 96.1 0.06 1.3E-06 55.8 12.5 159 4-169 56-219 (270)
144 cd06274 PBP1_FruR Ligand bindi 96.0 0.12 2.6E-06 53.4 13.8 154 6-168 53-212 (264)
145 cd06288 PBP1_sucrose_transcrip 95.9 0.051 1.1E-06 56.3 10.8 155 6-169 54-212 (269)
146 cd06278 PBP1_LacI_like_2 Ligan 95.9 0.069 1.5E-06 55.1 11.6 144 6-159 52-200 (266)
147 cd06270 PBP1_GalS_like Ligand 95.9 0.16 3.4E-06 52.7 14.1 151 6-164 53-207 (268)
148 PRK10014 DNA-binding transcrip 95.8 0.12 2.6E-06 55.8 13.6 148 6-161 118-270 (342)
149 cd06293 PBP1_LacI_like_11 Liga 95.8 0.17 3.7E-06 52.4 14.2 157 4-168 51-211 (269)
150 cd06283 PBP1_RegR_EndR_KdgR_li 95.8 0.11 2.5E-06 53.5 12.9 154 7-168 54-212 (267)
151 PRK10703 DNA-binding transcrip 95.8 0.096 2.1E-06 56.6 12.5 156 6-168 113-273 (341)
152 cd06299 PBP1_LacI_like_13 Liga 95.7 0.12 2.6E-06 53.4 12.5 155 6-168 53-209 (265)
153 cd06322 PBP1_ABC_sugar_binding 95.7 0.27 5.9E-06 50.8 14.9 144 6-158 53-203 (267)
154 cd06303 PBP1_LuxPQ_Quorum_Sens 95.6 0.28 6E-06 51.3 14.9 161 6-170 58-225 (280)
155 cd06311 PBP1_ABC_sugar_binding 95.6 0.29 6.3E-06 50.9 14.9 156 7-170 59-220 (274)
156 cd06307 PBP1_uncharacterized_s 95.6 0.27 5.8E-06 51.2 14.6 193 8-225 58-258 (275)
157 cd06275 PBP1_PurR Ligand-bindi 95.6 0.13 2.9E-06 53.2 12.1 133 29-168 76-212 (269)
158 cd06285 PBP1_LacI_like_7 Ligan 95.5 0.14 3E-06 53.0 12.0 153 6-169 53-211 (265)
159 PF00532 Peripla_BP_1: Peripla 95.5 0.1 2.3E-06 54.6 11.1 159 3-168 51-215 (279)
160 cd01539 PBP1_GGBP Periplasmic 95.5 0.27 5.8E-06 52.2 14.4 164 6-170 55-241 (303)
161 COG1609 PurR Transcriptional r 95.5 0.16 3.5E-06 54.7 12.7 150 4-163 110-266 (333)
162 cd01574 PBP1_LacI Ligand-bindi 95.5 0.19 4.2E-06 51.8 12.9 151 6-168 54-208 (264)
163 cd06324 PBP1_ABC_sugar_binding 95.5 0.22 4.8E-06 52.9 13.6 195 8-224 58-275 (305)
164 PRK11303 DNA-binding transcrip 95.4 0.24 5.3E-06 53.1 13.8 153 6-168 115-272 (328)
165 cd01540 PBP1_arabinose_binding 95.4 0.5 1.1E-05 49.5 16.0 164 7-170 53-230 (289)
166 cd06292 PBP1_LacI_like_10 Liga 95.4 0.21 4.5E-06 51.9 12.8 157 6-168 53-215 (273)
167 cd06308 PBP1_sensor_kinase_lik 95.4 0.42 9.1E-06 49.5 15.1 156 7-171 55-218 (270)
168 cd06296 PBP1_CatR_like Ligand- 95.3 0.15 3.4E-06 52.7 11.7 156 6-169 53-214 (270)
169 cd06272 PBP1_hexuronate_repres 95.3 0.17 3.6E-06 52.2 11.9 153 6-167 49-205 (261)
170 cd06318 PBP1_ABC_sugar_binding 95.3 0.47 1E-05 49.5 15.2 158 6-169 53-224 (282)
171 cd06277 PBP1_LacI_like_1 Ligan 95.2 0.18 3.8E-06 52.3 11.7 154 6-169 56-213 (268)
172 cd06279 PBP1_LacI_like_3 Ligan 95.2 0.17 3.8E-06 52.9 11.7 155 6-169 54-231 (283)
173 cd06297 PBP1_LacI_like_12 Liga 95.1 0.24 5.1E-06 51.5 12.3 187 6-225 53-250 (269)
174 COG2984 ABC-type uncharacteriz 95.1 0.54 1.2E-05 48.7 14.0 144 7-158 87-240 (322)
175 PRK10936 TMAO reductase system 95.1 0.86 1.9E-05 49.3 16.8 189 7-224 103-302 (343)
176 cd06290 PBP1_LacI_like_9 Ligan 95.1 0.25 5.4E-06 51.0 12.2 132 31-169 76-212 (265)
177 cd06291 PBP1_Qymf_like Ligand 95.0 0.26 5.6E-06 50.9 12.2 148 6-167 53-206 (265)
178 cd01544 PBP1_GalR Ligand-bindi 95.0 0.48 1E-05 49.1 14.3 150 7-167 51-212 (270)
179 cd01543 PBP1_XylR Ligand-bindi 95.0 0.33 7.2E-06 50.2 12.9 157 3-169 45-207 (265)
180 PRK10423 transcriptional repre 95.0 0.35 7.7E-06 51.8 13.4 131 31-168 135-269 (327)
181 cd06321 PBP1_ABC_sugar_binding 94.9 0.39 8.4E-06 49.8 13.3 192 7-225 56-255 (271)
182 cd06287 PBP1_LacI_like_8 Ligan 94.9 0.51 1.1E-05 49.1 13.9 156 5-168 53-212 (269)
183 PRK15408 autoinducer 2-binding 94.8 0.85 1.8E-05 49.2 15.8 145 7-158 79-233 (336)
184 cd06306 PBP1_TorT-like TorT-li 94.7 0.5 1.1E-05 49.0 13.4 151 6-167 55-215 (268)
185 PRK10727 DNA-binding transcrip 94.6 0.41 8.9E-06 51.7 13.0 111 56-167 156-270 (343)
186 cd06354 PBP1_BmpA_PnrA_like Pe 94.6 0.36 7.8E-06 50.1 12.0 145 6-157 55-206 (265)
187 cd06286 PBP1_CcpB_like Ligand- 94.5 0.53 1.1E-05 48.4 12.8 151 6-167 53-208 (260)
188 cd06316 PBP1_ABC_sugar_binding 94.5 1.3 2.9E-05 46.5 16.1 159 7-170 55-220 (294)
189 cd06314 PBP1_tmGBP Periplasmic 94.4 0.82 1.8E-05 47.4 14.2 192 6-225 53-252 (271)
190 TIGR02637 RhaS rhamnose ABC tr 94.4 1.8 3.9E-05 45.7 17.0 145 7-159 55-210 (302)
191 PF13377 Peripla_BP_3: Peripla 94.3 0.14 3.1E-06 48.3 7.4 98 68-167 1-101 (160)
192 cd01538 PBP1_ABC_xylose_bindin 94.3 0.78 1.7E-05 48.1 13.8 155 7-169 54-224 (288)
193 PRK09701 D-allose transporter 94.2 0.8 1.7E-05 48.8 13.9 196 7-225 81-289 (311)
194 PRK09492 treR trehalose repres 94.2 0.52 1.1E-05 50.1 12.4 139 5-158 115-256 (315)
195 TIGR02417 fruct_sucro_rep D-fr 94.2 0.55 1.2E-05 50.3 12.6 151 6-167 114-270 (327)
196 PRK09526 lacI lac repressor; R 94.1 0.78 1.7E-05 49.4 13.6 150 6-167 118-273 (342)
197 cd01541 PBP1_AraR Ligand-bindi 94.0 0.53 1.2E-05 48.8 11.8 155 7-168 54-217 (273)
198 PRK10401 DNA-binding transcrip 93.9 0.88 1.9E-05 49.2 13.6 111 56-167 156-270 (346)
199 TIGR02990 ectoine_eutA ectoine 93.8 0.49 1.1E-05 48.0 10.5 134 21-158 60-207 (239)
200 TIGR02955 TMAO_TorT TMAO reduc 93.6 2.8 6.1E-05 44.1 16.5 189 6-224 55-255 (295)
201 COG1879 RbsB ABC-type sugar tr 93.6 2.3 5E-05 45.4 16.0 158 7-170 90-254 (322)
202 cd06302 PBP1_LsrB_Quorum_Sensi 93.6 2.5 5.4E-05 44.6 16.0 195 7-224 55-257 (298)
203 PRK15395 methyl-galactoside AB 93.4 1.6 3.5E-05 46.9 14.4 150 7-158 80-249 (330)
204 PRK14987 gluconate operon tran 93.4 0.86 1.9E-05 48.9 12.4 154 6-168 117-273 (331)
205 PRK09860 putative alcohol dehy 93.0 0.77 1.7E-05 50.4 11.2 89 64-152 19-109 (383)
206 PRK11041 DNA-binding transcrip 93.0 1.4 3E-05 46.7 13.1 112 56-168 132-247 (309)
207 cd06304 PBP1_BmpA_like Peripla 92.6 1.6 3.4E-05 45.0 12.5 145 6-157 54-202 (260)
208 TIGR02405 trehalos_R_Ecol treh 92.5 1.7 3.6E-05 46.2 12.9 118 29-158 133-253 (311)
209 PF07885 Ion_trans_2: Ion chan 92.4 0.46 1E-05 39.0 6.5 55 452-506 22-78 (79)
210 COG1454 EutG Alcohol dehydroge 92.3 1.1 2.4E-05 48.4 11.0 93 64-156 17-111 (377)
211 cd06280 PBP1_LacI_like_4 Ligan 92.2 1.6 3.4E-05 45.0 11.9 130 29-168 74-206 (263)
212 PRK15454 ethanol dehydrogenase 92.2 1.1 2.4E-05 49.4 11.1 90 64-153 37-128 (395)
213 PRK10339 DNA-binding transcrip 91.9 2.2 4.7E-05 45.7 13.0 152 7-169 113-270 (327)
214 cd08192 Fe-ADH7 Iron-containin 91.4 1.6 3.4E-05 47.8 11.2 91 64-154 12-104 (370)
215 cd08190 HOT Hydroxyacid-oxoaci 91.1 1.6 3.5E-05 48.4 11.1 89 64-152 11-101 (414)
216 PRK10624 L-1,2-propanediol oxi 91.0 1.8 3.9E-05 47.5 11.3 89 64-152 18-108 (382)
217 cd08189 Fe-ADH5 Iron-containin 91.0 1.8 3.8E-05 47.5 11.2 92 64-155 14-107 (374)
218 cd08193 HVD 5-hydroxyvalerate 90.7 1.9 4.2E-05 47.2 11.2 90 64-153 14-105 (376)
219 cd08551 Fe-ADH iron-containing 90.5 2 4.4E-05 47.0 11.2 91 64-154 11-103 (370)
220 TIGR02634 xylF D-xylose ABC tr 90.4 4.3 9.3E-05 42.9 13.2 146 7-159 53-209 (302)
221 TIGR02638 lactal_redase lactal 90.0 2.4 5.1E-05 46.6 11.1 90 64-153 17-108 (379)
222 cd08194 Fe-ADH6 Iron-containin 90.0 2.5 5.4E-05 46.3 11.2 89 64-152 11-101 (375)
223 PF03808 Glyco_tran_WecB: Glyc 89.7 5 0.00011 38.5 11.8 102 61-172 34-137 (172)
224 PF00465 Fe-ADH: Iron-containi 89.2 1.6 3.5E-05 47.7 9.0 89 65-155 12-102 (366)
225 PF04392 ABC_sub_bind: ABC tra 88.6 5 0.00011 42.3 12.0 130 6-144 57-195 (294)
226 cd08185 Fe-ADH1 Iron-containin 88.4 3.4 7.4E-05 45.4 10.9 89 64-153 14-105 (380)
227 cd08188 Fe-ADH4 Iron-containin 88.1 4.2 9.1E-05 44.6 11.4 89 64-152 16-106 (377)
228 cd08176 LPO Lactadehyde:propan 87.8 3.8 8.2E-05 45.0 10.7 89 64-152 16-106 (377)
229 PRK10355 xylF D-xylose transpo 87.7 7.1 0.00015 41.9 12.7 147 6-159 79-236 (330)
230 cd08191 HHD 6-hydroxyhexanoate 87.6 4.6 0.0001 44.4 11.4 89 65-154 12-102 (386)
231 cd08181 PPD-like 1,3-propanedi 87.6 4.6 0.0001 43.9 11.2 88 64-152 14-104 (357)
232 KOG3857 Alcohol dehydrogenase, 87.0 4.3 9.4E-05 42.3 9.6 97 48-144 38-138 (465)
233 cd08182 HEPD Hydroxyethylphosp 86.7 5 0.00011 43.8 11.0 87 64-153 11-99 (367)
234 cd08170 GlyDH Glycerol dehydro 86.1 3.2 6.9E-05 45.1 8.9 86 65-153 12-99 (351)
235 cd07766 DHQ_Fe-ADH Dehydroquin 85.8 5.5 0.00012 42.8 10.6 100 65-169 12-113 (332)
236 cd08186 Fe-ADH8 Iron-containin 85.0 6.5 0.00014 43.2 10.8 90 64-153 11-106 (383)
237 cd08187 BDH Butanol dehydrogen 84.9 5.2 0.00011 44.0 10.0 88 64-152 17-107 (382)
238 cd06315 PBP1_ABC_sugar_binding 84.0 16 0.00034 37.9 12.9 154 6-161 54-216 (280)
239 PF13407 Peripla_BP_4: Peripla 83.9 2.3 5E-05 43.5 6.4 78 79-158 1-81 (257)
240 cd08171 GlyDH-like2 Glycerol d 83.0 5.7 0.00012 43.0 9.1 88 64-153 11-100 (345)
241 cd06533 Glyco_transf_WecG_TagA 82.5 18 0.00038 34.7 11.3 101 60-170 31-133 (171)
242 PRK09423 gldA glycerol dehydro 81.8 6.8 0.00015 42.8 9.2 86 64-152 18-105 (366)
243 cd08183 Fe-ADH2 Iron-containin 81.7 10 0.00022 41.5 10.6 84 65-153 12-97 (374)
244 cd06276 PBP1_FucR_like Ligand- 80.1 23 0.0005 36.0 12.1 125 24-167 68-195 (247)
245 COG3473 Maleate cis-trans isom 79.8 47 0.001 32.4 12.6 134 21-158 56-205 (238)
246 TIGR00696 wecB_tagA_cpsF bacte 79.7 17 0.00037 35.0 10.1 99 61-170 34-134 (177)
247 PF13685 Fe-ADH_2: Iron-contai 79.5 9.5 0.00021 39.0 8.7 100 66-169 9-108 (250)
248 KOG1419 Voltage-gated K+ chann 79.1 2.6 5.7E-05 46.5 4.7 88 420-507 235-324 (654)
249 cd06267 PBP1_LacI_sugar_bindin 77.2 7.7 0.00017 39.4 7.6 76 79-158 2-79 (264)
250 cd08178 AAD_C C-terminal alcoh 77.1 12 0.00026 41.4 9.4 79 74-152 19-99 (398)
251 cd06305 PBP1_methylthioribose_ 76.4 10 0.00023 38.9 8.4 78 78-158 1-81 (273)
252 cd01537 PBP1_Repressors_Sugar_ 76.1 8.3 0.00018 39.1 7.5 78 78-158 1-80 (264)
253 cd08550 GlyDH-like Glycerol_de 75.6 13 0.00029 40.2 9.2 85 64-151 11-97 (349)
254 PRK03692 putative UDP-N-acetyl 75.0 20 0.00044 36.4 9.6 89 61-156 91-180 (243)
255 cd06353 PBP1_BmpA_Med_like Per 73.8 16 0.00035 37.6 8.8 85 78-170 1-89 (258)
256 cd08175 G1PDH Glycerol-1-phosp 73.7 15 0.00033 39.7 9.0 87 64-152 11-101 (348)
257 cd06301 PBP1_rhizopine_binding 73.3 11 0.00025 38.6 7.7 78 78-158 1-82 (272)
258 PRK05452 anaerobic nitric oxid 72.7 41 0.00088 38.2 12.3 138 12-172 198-349 (479)
259 PF04273 DUF442: Putative phos 72.6 37 0.0008 29.8 9.4 84 70-153 22-106 (110)
260 TIGR00035 asp_race aspartate r 72.6 8.2 0.00018 39.0 6.1 41 65-108 106-146 (229)
261 cd06312 PBP1_ABC_sugar_binding 72.5 12 0.00027 38.4 7.7 79 78-158 1-83 (271)
262 cd08179 NADPH_BDH NADPH-depend 72.3 17 0.00036 39.9 9.0 81 72-152 19-102 (375)
263 cd08197 DOIS 2-deoxy-scyllo-in 71.9 38 0.00081 36.8 11.4 101 65-169 12-119 (355)
264 cd06303 PBP1_LuxPQ_Quorum_Sens 71.5 12 0.00027 38.8 7.5 81 78-158 1-85 (280)
265 cd06277 PBP1_LacI_like_1 Ligan 71.1 20 0.00044 36.7 8.9 75 79-158 2-81 (268)
266 PRK00002 aroB 3-dehydroquinate 70.3 29 0.00063 37.7 10.2 93 64-157 19-118 (358)
267 PF07287 DUF1446: Protein of u 70.2 32 0.00069 37.2 10.1 136 2-161 17-188 (362)
268 PRK15408 autoinducer 2-binding 70.0 20 0.00044 38.6 8.8 82 75-158 22-106 (336)
269 cd08177 MAR Maleylacetate redu 69.9 17 0.00038 39.1 8.3 99 64-170 11-111 (337)
270 cd06306 PBP1_TorT-like TorT-li 69.8 15 0.00033 37.8 7.6 80 78-158 1-82 (268)
271 cd08184 Fe-ADH3 Iron-containin 69.5 40 0.00087 36.4 10.9 86 64-153 11-103 (347)
272 cd01391 Periplasmic_Binding_Pr 68.1 18 0.00039 36.3 7.7 78 78-158 1-83 (269)
273 KOG0780 Signal recognition par 67.9 1.7E+02 0.0037 31.7 14.4 105 62-170 116-223 (483)
274 cd06289 PBP1_MalI_like Ligand- 67.7 19 0.00042 36.7 8.0 77 79-158 2-80 (268)
275 cd01536 PBP1_ABC_sugar_binding 67.6 20 0.00042 36.5 8.0 78 78-158 1-81 (267)
276 cd08180 PDD 1,3-propanediol de 67.3 21 0.00045 38.4 8.2 81 71-152 17-99 (332)
277 cd06282 PBP1_GntR_like_2 Ligan 66.6 22 0.00048 36.2 8.1 77 79-158 2-80 (266)
278 PF12683 DUF3798: Protein of u 66.0 1E+02 0.0022 31.6 11.9 153 3-158 57-224 (275)
279 cd01538 PBP1_ABC_xylose_bindin 65.3 25 0.00054 36.6 8.3 77 79-158 2-81 (288)
280 cd06322 PBP1_ABC_sugar_binding 64.5 25 0.00055 35.9 8.1 77 79-158 2-81 (267)
281 COG3221 PhnD ABC-type phosphat 64.2 86 0.0019 33.0 11.7 73 536-612 181-260 (299)
282 cd06318 PBP1_ABC_sugar_binding 64.1 23 0.00049 36.6 7.7 78 78-158 1-81 (282)
283 COG0426 FpaA Uncharacterized f 64.0 1.1E+02 0.0024 33.3 12.6 141 12-173 195-343 (388)
284 PRK10014 DNA-binding transcrip 63.5 35 0.00076 36.5 9.2 79 77-158 65-145 (342)
285 cd08173 Gro1PDH Sn-glycerol-1- 63.3 36 0.00079 36.6 9.2 83 65-151 13-98 (339)
286 cd06353 PBP1_BmpA_Med_like Per 63.1 43 0.00094 34.4 9.3 141 6-158 55-201 (258)
287 cd06310 PBP1_ABC_sugar_binding 62.7 25 0.00053 36.1 7.6 80 78-158 1-83 (273)
288 cd06299 PBP1_LacI_like_13 Liga 62.3 34 0.00074 34.8 8.5 76 79-158 2-79 (265)
289 cd08549 G1PDH_related Glycerol 62.0 36 0.00079 36.5 8.8 85 65-151 12-100 (332)
290 cd08169 DHQ-like Dehydroquinat 61.7 70 0.0015 34.5 11.0 101 65-169 12-118 (344)
291 cd06281 PBP1_LacI_like_5 Ligan 61.4 34 0.00074 35.0 8.4 77 79-158 2-80 (269)
292 cd06315 PBP1_ABC_sugar_binding 61.3 39 0.00085 34.9 8.9 79 77-158 1-82 (280)
293 PLN03192 Voltage-dependent pot 60.8 14 0.00031 45.2 6.0 53 455-507 251-305 (823)
294 PRK11303 DNA-binding transcrip 60.4 44 0.00096 35.5 9.3 80 76-158 61-142 (328)
295 PF07302 AroM: AroM protein; 60.3 57 0.0012 32.5 8.9 75 76-154 125-201 (221)
296 PF02602 HEM4: Uroporphyrinoge 60.2 31 0.00068 34.5 7.6 93 57-156 97-190 (231)
297 cd06302 PBP1_LsrB_Quorum_Sensi 60.1 34 0.00075 35.8 8.2 78 79-158 2-82 (298)
298 cd01545 PBP1_SalR Ligand-bindi 60.1 33 0.00072 35.0 8.0 78 79-158 2-81 (270)
299 cd06295 PBP1_CelR Ligand bindi 59.7 41 0.00089 34.5 8.6 77 76-158 3-88 (275)
300 cd01540 PBP1_arabinose_binding 59.6 28 0.00062 36.0 7.5 77 78-158 1-80 (289)
301 PRK00843 egsA NAD(P)-dependent 59.5 46 0.00099 36.0 9.1 84 64-151 21-107 (350)
302 KOG0025 Zn2+-binding dehydroge 59.5 52 0.0011 34.0 8.6 98 50-158 161-258 (354)
303 cd06316 PBP1_ABC_sugar_binding 59.5 29 0.00064 36.2 7.6 79 78-158 1-82 (294)
304 PF02608 Bmp: Basic membrane p 59.1 69 0.0015 33.9 10.2 146 5-158 58-212 (306)
305 PF02608 Bmp: Basic membrane p 59.0 38 0.00082 35.9 8.3 87 77-170 2-93 (306)
306 PF14981 FAM165: FAM165 family 58.5 21 0.00045 25.3 3.9 33 644-676 3-35 (51)
307 cd06320 PBP1_allose_binding Pe 58.1 36 0.00079 34.9 7.9 80 78-158 1-83 (275)
308 cd06317 PBP1_ABC_sugar_binding 57.2 39 0.00084 34.6 7.9 77 79-158 2-82 (275)
309 cd06296 PBP1_CatR_like Ligand- 57.1 42 0.00091 34.2 8.2 76 79-158 2-79 (270)
310 COG1922 WecG Teichoic acid bio 56.4 40 0.00087 34.3 7.3 101 62-172 95-197 (253)
311 PRK15138 aldehyde reductase; P 56.3 65 0.0014 35.4 9.7 85 64-152 19-106 (387)
312 PRK10355 xylF D-xylose transpo 56.2 49 0.0011 35.4 8.7 80 76-158 25-107 (330)
313 cd06278 PBP1_LacI_like_2 Ligan 55.9 41 0.00089 34.2 7.8 75 79-158 2-78 (266)
314 PRK10200 putative racemase; Pr 55.7 24 0.00052 35.6 5.8 74 5-107 72-146 (230)
315 cd01575 PBP1_GntR Ligand-bindi 55.3 43 0.00093 34.1 7.9 76 79-158 2-79 (268)
316 cd06300 PBP1_ABC_sugar_binding 55.3 45 0.00097 34.2 8.0 80 78-158 1-86 (272)
317 PRK10936 TMAO reductase system 55.2 46 0.001 35.8 8.4 81 76-158 46-129 (343)
318 PF12273 RCR: Chitin synthesis 55.2 8.4 0.00018 35.0 2.1 17 662-678 12-28 (130)
319 PRK10653 D-ribose transporter 55.1 61 0.0013 33.8 9.1 80 76-158 26-108 (295)
320 cd06273 PBP1_GntR_like_1 This 55.1 49 0.0011 33.7 8.3 76 79-158 2-79 (268)
321 cd06307 PBP1_uncharacterized_s 54.8 41 0.00089 34.6 7.6 80 78-158 1-84 (275)
322 cd06323 PBP1_ribose_binding Pe 54.5 45 0.00097 33.9 7.9 77 79-158 2-81 (268)
323 cd06167 LabA_like LabA_like pr 54.3 1.8E+02 0.0038 26.7 11.4 92 66-158 28-124 (149)
324 cd06270 PBP1_GalS_like Ligand 54.0 59 0.0013 33.2 8.7 76 79-158 2-79 (268)
325 cd01539 PBP1_GGBP Periplasmic 54.0 49 0.0011 34.7 8.2 78 78-158 1-83 (303)
326 PRK09701 D-allose transporter 53.9 54 0.0012 34.6 8.5 84 74-158 22-108 (311)
327 cd06319 PBP1_ABC_sugar_binding 53.7 43 0.00094 34.3 7.6 77 79-158 2-81 (277)
328 cd06285 PBP1_LacI_like_7 Ligan 53.6 60 0.0013 33.0 8.6 76 79-158 2-79 (265)
329 PRK09189 uroporphyrinogen-III 53.4 72 0.0016 32.3 9.0 89 61-155 101-191 (240)
330 TIGR02417 fruct_sucro_rep D-fr 53.3 76 0.0017 33.6 9.7 80 76-158 60-141 (327)
331 COG0563 Adk Adenylate kinase a 52.9 18 0.00039 34.9 4.1 100 10-110 3-110 (178)
332 PRK13805 bifunctional acetalde 52.7 79 0.0017 38.9 10.6 78 75-152 479-560 (862)
333 PRK10481 hypothetical protein; 52.7 1.2E+02 0.0026 30.4 9.9 76 67-146 119-195 (224)
334 cd02071 MM_CoA_mut_B12_BD meth 52.5 1.1E+02 0.0024 27.2 9.0 62 91-158 14-79 (122)
335 cd08195 DHQS Dehydroquinate sy 52.1 1E+02 0.0022 33.2 10.4 99 66-169 13-120 (345)
336 cd01542 PBP1_TreR_like Ligand- 51.9 59 0.0013 32.9 8.2 75 79-157 2-78 (259)
337 PRK13010 purU formyltetrahydro 51.9 3.1E+02 0.0066 28.8 13.9 88 9-102 11-116 (289)
338 cd06324 PBP1_ABC_sugar_binding 51.7 51 0.0011 34.7 7.8 77 79-158 2-83 (305)
339 cd00886 MogA_MoaB MogA_MoaB fa 51.2 90 0.0019 29.1 8.5 64 78-143 2-71 (152)
340 cd06274 PBP1_FruR Ligand bindi 51.1 66 0.0014 32.7 8.4 76 79-158 2-79 (264)
341 cd06309 PBP1_YtfQ_like Peripla 51.0 37 0.00081 34.8 6.6 71 85-158 10-81 (273)
342 PF00625 Guanylate_kin: Guanyl 50.9 1E+02 0.0023 29.5 9.3 92 7-107 2-97 (183)
343 PRK11914 diacylglycerol kinase 50.8 1.1E+02 0.0024 32.2 10.3 79 74-157 6-88 (306)
344 TIGR02637 RhaS rhamnose ABC tr 50.6 39 0.00084 35.4 6.7 77 80-158 2-82 (302)
345 COG1879 RbsB ABC-type sugar tr 50.3 61 0.0013 34.4 8.2 81 77-158 34-117 (322)
346 PRK11921 metallo-beta-lactamas 49.1 1.2E+02 0.0027 33.3 10.6 97 68-172 239-345 (394)
347 cd06321 PBP1_ABC_sugar_binding 48.7 59 0.0013 33.2 7.7 77 79-158 2-83 (271)
348 TIGR02634 xylF D-xylose ABC tr 48.7 61 0.0013 34.1 7.9 72 84-158 8-80 (302)
349 PRK14987 gluconate operon tran 48.4 1E+02 0.0022 32.7 9.7 78 77-158 64-143 (331)
350 TIGR00249 sixA phosphohistidin 48.3 78 0.0017 29.5 7.6 98 57-155 24-121 (152)
351 cd08172 GlyDH-like1 Glycerol d 47.8 59 0.0013 35.1 7.7 84 65-153 13-98 (347)
352 PRK14723 flhF flagellar biosyn 47.8 1.7E+02 0.0037 35.1 11.7 25 7-31 185-209 (767)
353 COG1794 RacX Aspartate racemas 47.5 72 0.0016 31.7 7.2 83 64-157 105-188 (230)
354 TIGR02667 moaB_proteo molybden 47.4 1.3E+02 0.0029 28.4 9.0 66 76-143 4-73 (163)
355 PF00072 Response_reg: Respons 47.3 1.1E+02 0.0025 25.8 8.2 58 91-157 9-69 (112)
356 cd06292 PBP1_LacI_like_10 Liga 47.3 87 0.0019 32.0 8.7 77 79-158 2-84 (273)
357 cd00758 MoCF_BD MoCF_BD: molyb 46.4 99 0.0022 28.0 7.8 50 91-143 19-68 (133)
358 PRK07475 hypothetical protein; 46.1 75 0.0016 32.4 7.7 70 5-106 75-146 (245)
359 PLN02428 lipoic acid synthase 46.1 2E+02 0.0043 31.0 11.0 107 58-167 129-256 (349)
360 TIGR00177 molyb_syn molybdenum 46.0 1E+02 0.0022 28.4 7.9 50 91-143 27-76 (144)
361 cd03522 MoeA_like MoeA_like. T 45.5 1.1E+02 0.0025 32.4 9.0 90 53-144 126-230 (312)
362 TIGR02370 pyl_corrinoid methyl 45.2 1.2E+02 0.0027 29.6 8.8 89 77-171 85-177 (197)
363 cd06283 PBP1_RegR_EndR_KdgR_li 45.2 84 0.0018 31.8 8.1 76 79-158 2-79 (267)
364 cd06298 PBP1_CcpA_like Ligand- 45.0 82 0.0018 32.0 8.0 76 79-158 2-79 (268)
365 cd01569 PBEF_like pre-B-cell c 44.8 1.2E+02 0.0027 33.2 9.3 141 14-165 197-359 (407)
366 PF13380 CoA_binding_2: CoA bi 44.3 31 0.00068 30.6 4.0 88 77-171 1-90 (116)
367 cd06354 PBP1_BmpA_PnrA_like Pe 44.3 74 0.0016 32.6 7.5 62 78-143 1-67 (265)
368 cd06271 PBP1_AglR_RafR_like Li 43.9 78 0.0017 32.1 7.7 75 79-158 2-83 (268)
369 TIGR01357 aroB 3-dehydroquinat 43.7 1.6E+02 0.0034 31.8 10.2 98 66-169 12-116 (344)
370 cd06308 PBP1_sensor_kinase_lik 43.7 89 0.0019 31.9 8.0 77 79-158 2-82 (270)
371 TIGR03405 Phn_Fe-ADH phosphona 43.6 1.6E+02 0.0035 31.8 10.3 77 75-153 22-102 (355)
372 cd06297 PBP1_LacI_like_12 Liga 43.3 84 0.0018 32.1 7.8 75 79-158 2-79 (269)
373 cd01324 cbb3_Oxidase_CcoQ Cyto 43.3 21 0.00045 26.1 2.2 27 419-445 11-37 (48)
374 cd00885 cinA Competence-damage 43.1 1.2E+02 0.0025 29.1 8.0 46 93-141 21-66 (170)
375 PF02310 B12-binding: B12 bind 43.0 2.3E+02 0.0049 24.7 9.7 43 93-141 17-59 (121)
376 PRK14722 flhF flagellar biosyn 42.9 1E+02 0.0022 33.6 8.4 26 4-29 134-159 (374)
377 cd06313 PBP1_ABC_sugar_binding 42.8 73 0.0016 32.7 7.2 71 85-158 10-81 (272)
378 PF00532 Peripla_BP_1: Peripla 42.6 67 0.0015 33.4 6.9 77 77-158 2-80 (279)
379 cd06286 PBP1_CcpB_like Ligand- 42.5 99 0.0022 31.2 8.2 74 79-156 2-77 (260)
380 cd01574 PBP1_LacI Ligand-bindi 42.4 90 0.002 31.6 7.8 77 79-158 2-80 (264)
381 PRK05752 uroporphyrinogen-III 42.2 1.2E+02 0.0027 30.9 8.7 88 60-153 109-201 (255)
382 PRK14737 gmk guanylate kinase; 42.1 1.8E+02 0.0038 28.2 9.2 128 7-157 4-138 (186)
383 cd00757 ThiF_MoeB_HesA_family 42.0 3.7E+02 0.008 26.9 13.8 89 63-157 32-136 (228)
384 cd06294 PBP1_ycjW_transcriptio 41.8 97 0.0021 31.4 8.0 69 85-158 15-84 (270)
385 cd06268 PBP1_ABC_transporter_L 41.5 1.2E+02 0.0026 31.0 8.7 80 78-158 1-91 (298)
386 PF06506 PrpR_N: Propionate ca 41.4 1.4E+02 0.003 28.6 8.4 87 56-159 59-145 (176)
387 PF13155 Toprim_2: Toprim-like 41.4 44 0.00095 28.1 4.4 42 63-104 34-75 (96)
388 cd03364 TOPRIM_DnaG_primases T 41.4 39 0.00084 27.5 3.9 41 67-108 35-75 (79)
389 PRK03427 cell division protein 41.3 1.3E+02 0.0027 32.0 8.3 46 644-690 2-47 (333)
390 TIGR01481 ccpA catabolite cont 41.2 1.6E+02 0.0036 31.0 9.9 79 76-158 59-139 (329)
391 PF00448 SRP54: SRP54-type pro 40.9 58 0.0013 31.9 5.7 64 76-143 29-93 (196)
392 PF02571 CbiJ: Precorrin-6x re 40.5 4E+02 0.0086 27.2 11.8 143 2-158 60-220 (249)
393 cd06578 HemD Uroporphyrinogen- 40.3 2E+02 0.0043 28.6 9.9 116 31-156 77-195 (239)
394 PRK00865 glutamate racemase; P 40.0 83 0.0018 32.4 7.0 33 5-37 64-96 (261)
395 cd02809 alpha_hydroxyacid_oxid 39.9 3.6E+02 0.0077 28.4 11.9 153 10-174 66-239 (299)
396 KOG3713 Voltage-gated K+ chann 39.8 31 0.00067 38.1 3.8 64 429-496 356-421 (477)
397 PRK15395 methyl-galactoside AB 39.7 1.5E+02 0.0033 31.6 9.3 82 74-158 22-107 (330)
398 cd06280 PBP1_LacI_like_4 Ligan 38.9 1.3E+02 0.0027 30.6 8.3 62 79-143 2-65 (263)
399 PRK10537 voltage-gated potassi 38.7 41 0.00088 37.0 4.6 54 450-503 164-219 (393)
400 PLN02834 3-dehydroquinate synt 38.5 2.4E+02 0.0053 31.5 10.7 97 69-169 92-198 (433)
401 cd06304 PBP1_BmpA_like Peripla 38.5 93 0.002 31.7 7.2 60 78-141 1-64 (260)
402 cd06275 PBP1_PurR Ligand-bindi 38.4 1.3E+02 0.0028 30.5 8.3 62 79-143 2-65 (269)
403 cd02067 B12-binding B12 bindin 38.4 2.7E+02 0.0059 24.3 9.4 66 86-157 9-78 (119)
404 COG1419 FlhF Flagellar GTP-bin 38.3 1.5E+02 0.0032 32.5 8.5 86 50-144 203-292 (407)
405 COG0123 AcuC Deacetylases, inc 37.8 1.2E+02 0.0026 32.6 7.9 77 65-141 142-247 (340)
406 cd06314 PBP1_tmGBP Periplasmic 37.6 1.1E+02 0.0023 31.4 7.5 77 79-158 2-80 (271)
407 PRK12727 flagellar biosynthesi 37.5 2.8E+02 0.0061 31.8 10.8 27 3-29 346-372 (559)
408 PF09651 Cas_APE2256: CRISPR-a 37.5 99 0.0021 28.3 6.3 50 62-111 5-57 (136)
409 PRK09756 PTS system N-acetylga 37.3 2.1E+02 0.0046 26.9 8.6 81 62-151 16-97 (158)
410 PF01936 NYN: NYN domain; Int 37.0 1.8E+02 0.0039 26.4 8.2 93 64-158 22-120 (146)
411 PRK10703 DNA-binding transcrip 37.0 2.2E+02 0.0048 30.2 10.1 79 76-158 59-140 (341)
412 TIGR00640 acid_CoA_mut_C methy 36.9 1.9E+02 0.0041 26.3 8.0 67 86-158 12-82 (132)
413 PF01745 IPT: Isopentenyl tran 36.8 16 0.00036 36.0 1.1 31 8-38 2-32 (233)
414 cd08199 EEVS 2-epi-5-epi-valio 36.6 2.6E+02 0.0055 30.3 10.3 90 75-169 25-123 (354)
415 PRK10586 putative oxidoreducta 36.5 1.5E+02 0.0032 32.3 8.5 82 64-150 22-105 (362)
416 PRK01215 competence damage-ind 36.3 1.8E+02 0.0039 30.0 8.7 63 77-142 4-71 (264)
417 cd06284 PBP1_LacI_like_6 Ligan 36.0 1.4E+02 0.003 30.2 8.1 61 79-142 2-64 (267)
418 TIGR00854 pts-sorbose PTS syst 35.9 2E+02 0.0044 26.8 8.2 81 63-151 13-93 (151)
419 cd01541 PBP1_AraR Ligand-bindi 35.9 1.5E+02 0.0032 30.2 8.3 77 79-158 2-84 (273)
420 cd06311 PBP1_ABC_sugar_binding 35.8 1.3E+02 0.0029 30.6 7.9 77 79-158 2-86 (274)
421 PRK02261 methylaspartate mutas 35.8 3.5E+02 0.0075 24.8 9.6 75 78-158 5-83 (137)
422 PHA02594 nadV nicotinamide pho 35.3 2.6E+02 0.0057 31.4 10.2 143 12-165 201-367 (470)
423 PRK05569 flavodoxin; Provision 35.2 2.1E+02 0.0045 26.0 8.2 84 77-172 2-95 (141)
424 PRK13957 indole-3-glycerol-pho 35.1 3.6E+02 0.0079 27.5 10.3 87 65-159 64-153 (247)
425 PRK11041 DNA-binding transcrip 34.9 1.5E+02 0.0033 30.8 8.3 69 71-142 30-100 (309)
426 PF01177 Asp_Glu_race: Asp/Glu 34.9 1.4E+02 0.003 29.5 7.5 84 68-155 100-198 (216)
427 PF15179 Myc_target_1: Myc tar 34.7 55 0.0012 31.1 4.0 38 639-676 13-51 (197)
428 COG1587 HemD Uroporphyrinogen- 34.7 2.5E+02 0.0054 28.6 9.5 92 61-158 106-199 (248)
429 PF00448 SRP54: SRP54-type pro 34.7 1.6E+02 0.0035 28.8 7.8 110 8-135 2-115 (196)
430 cd06293 PBP1_LacI_like_11 Liga 34.7 1.4E+02 0.003 30.3 7.8 61 79-142 2-64 (269)
431 PF02310 B12-binding: B12 bind 34.1 1.9E+02 0.0041 25.3 7.6 71 64-141 17-87 (121)
432 PRK09273 hypothetical protein; 34.1 2.1E+02 0.0045 28.3 8.0 67 78-144 2-75 (211)
433 PRK03670 competence damage-ind 34.0 2.2E+02 0.0047 29.2 8.7 48 93-142 22-69 (252)
434 COG0299 PurN Folate-dependent 34.0 2.3E+02 0.0049 27.7 8.1 84 64-155 14-101 (200)
435 COG0194 Gmk Guanylate kinase [ 33.7 4.6E+02 0.0099 25.5 10.5 130 7-157 4-136 (191)
436 cd00001 PTS_IIB_man PTS_IIB, P 33.6 2.3E+02 0.0049 26.5 8.1 81 63-151 12-92 (151)
437 PF00682 HMGL-like: HMGL-like 33.6 3.6E+02 0.0077 27.1 10.4 25 15-39 10-34 (237)
438 COG1058 CinA Predicted nucleot 33.5 81 0.0017 32.2 5.4 48 91-141 21-68 (255)
439 cd06279 PBP1_LacI_like_3 Ligan 33.4 1.3E+02 0.0029 30.9 7.5 65 86-158 16-80 (283)
440 PRK11070 ssDNA exonuclease Rec 33.3 2.6E+02 0.0057 32.5 10.2 85 75-170 68-159 (575)
441 TIGR00288 conserved hypothetic 33.1 3.1E+02 0.0067 25.9 8.8 85 64-158 43-130 (160)
442 COG0552 FtsY Signal recognitio 33.1 4.1E+02 0.0088 28.4 10.5 119 49-172 137-269 (340)
443 PF00218 IGPS: Indole-3-glycer 33.1 2.8E+02 0.0061 28.4 9.3 88 64-159 70-160 (254)
444 PRK05928 hemD uroporphyrinogen 33.1 2E+02 0.0044 28.8 8.6 87 65-157 112-200 (249)
445 PF04392 ABC_sub_bind: ABC tra 33.0 72 0.0016 33.5 5.3 66 78-144 1-70 (294)
446 TIGR02356 adenyl_thiF thiazole 32.9 4.8E+02 0.01 25.5 10.9 89 63-157 32-136 (202)
447 PRK11425 PTS system N-acetylga 32.9 2.7E+02 0.0058 26.2 8.5 80 63-151 15-94 (157)
448 cd06291 PBP1_Qymf_like Ligand 32.7 1.3E+02 0.0028 30.5 7.2 73 79-158 2-76 (265)
449 PF03830 PTSIIB_sorb: PTS syst 32.4 86 0.0019 29.3 5.1 83 63-153 13-95 (151)
450 cd02070 corrinoid_protein_B12- 32.4 3.8E+02 0.0082 26.2 10.0 89 77-171 83-175 (201)
451 COG0134 TrpC Indole-3-glycerol 32.3 1.2E+02 0.0027 30.9 6.4 86 66-159 70-158 (254)
452 PRK08811 uroporphyrinogen-III 32.2 2.4E+02 0.0052 29.1 8.9 87 62-154 123-210 (266)
453 PF03180 Lipoprotein_9: NLPA l 32.2 1E+02 0.0022 31.2 6.0 92 520-617 17-123 (237)
454 PRK12723 flagellar biosynthesi 32.2 2.5E+02 0.0055 30.8 9.4 24 7-30 174-197 (388)
455 PRK06995 flhF flagellar biosyn 31.8 2E+02 0.0043 32.6 8.6 32 74-106 284-315 (484)
456 COG0371 GldA Glycerol dehydrog 31.7 2.4E+02 0.0051 30.6 8.8 89 67-158 21-109 (360)
457 PRK07239 bifunctional uroporph 31.6 3.2E+02 0.007 29.8 10.4 97 61-158 125-225 (381)
458 PF06716 DUF1201: Protein of u 31.5 1.1E+02 0.0025 21.7 4.1 30 647-676 4-34 (54)
459 PF12273 RCR: Chitin synthesis 31.2 52 0.0011 29.8 3.4 31 648-678 2-32 (130)
460 smart00072 GuKc Guanylate kina 31.1 4.8E+02 0.01 24.9 13.2 129 8-156 3-135 (184)
461 COG0521 MoaB Molybdopterin bio 31.0 2.6E+02 0.0057 26.6 8.0 64 78-143 9-77 (169)
462 TIGR00288 conserved hypothetic 30.7 4.7E+02 0.01 24.7 11.0 36 118-153 114-149 (160)
463 PRK05569 flavodoxin; Provision 30.3 4.1E+02 0.0089 24.0 11.7 75 49-123 48-130 (141)
464 PRK13054 lipid kinase; Reviewe 30.2 2.5E+02 0.0054 29.5 8.9 76 77-156 4-79 (300)
465 KOG0498 K+-channel ERG and rel 29.7 59 0.0013 38.5 4.2 53 455-507 295-349 (727)
466 PRK09271 flavodoxin; Provision 29.6 1.6E+02 0.0035 27.6 6.6 84 78-169 2-94 (160)
467 PLN02727 NAD kinase 29.6 4.1E+02 0.0089 32.5 10.9 90 51-144 261-351 (986)
468 PRK08762 molybdopterin biosynt 29.6 4.8E+02 0.01 28.5 11.2 88 64-157 147-250 (376)
469 TIGR00315 cdhB CO dehydrogenas 29.2 2.1E+02 0.0047 27.0 7.1 36 6-41 27-64 (162)
470 PLN02460 indole-3-glycerol-pho 29.1 1.9E+02 0.0042 30.9 7.5 88 64-159 141-232 (338)
471 PRK14021 bifunctional shikimat 29.1 4.7E+02 0.01 30.2 11.4 97 66-169 200-304 (542)
472 cd06272 PBP1_hexuronate_repres 29.0 1.8E+02 0.0038 29.4 7.4 72 79-158 2-75 (261)
473 cd03146 GAT1_Peptidase_E Type 29.0 2.3E+02 0.005 28.1 7.9 85 63-158 16-103 (212)
474 PF01102 Glycophorin_A: Glycop 29.0 83 0.0018 28.1 4.1 11 642-652 61-71 (122)
475 PRK06975 bifunctional uroporph 28.9 3.2E+02 0.007 32.4 10.2 90 60-155 119-214 (656)
476 cd02069 methionine_synthase_B1 28.9 3.1E+02 0.0067 27.2 8.7 88 77-172 89-180 (213)
477 PF08173 YbgT_YccB: Membrane b 28.9 1.3E+02 0.0027 19.3 3.6 23 652-674 4-26 (28)
478 PRK00278 trpC indole-3-glycero 28.8 5.4E+02 0.012 26.4 10.8 87 64-158 72-161 (260)
479 PF13207 AAA_17: AAA domain; P 28.8 34 0.00074 30.1 1.7 32 9-40 1-32 (121)
480 PRK10848 phosphohistidine phos 28.3 2.4E+02 0.0052 26.5 7.5 95 57-154 24-120 (159)
481 PTZ00413 lipoate synthase; Pro 28.2 7.7E+02 0.017 27.0 11.8 97 57-156 175-290 (398)
482 TIGR02106 cyd_oper_ybgT cyd op 28.2 1.4E+02 0.0031 19.4 3.8 24 652-675 4-27 (30)
483 PRK09492 treR trehalose repres 28.1 3.3E+02 0.0072 28.4 9.5 63 77-142 63-127 (315)
484 PRK00945 acetyl-CoA decarbonyl 28.1 1.3E+02 0.0028 28.7 5.5 85 6-97 34-130 (171)
485 PF13671 AAA_33: AAA domain; P 28.0 28 0.00061 31.7 1.1 31 9-39 1-31 (143)
486 PRK14749 hypothetical protein; 27.9 1.4E+02 0.0031 19.2 3.7 24 651-674 3-26 (30)
487 PRK10423 transcriptional repre 27.9 2.6E+02 0.0056 29.4 8.7 64 76-142 56-121 (327)
488 COG0608 RecJ Single-stranded D 27.7 4.5E+02 0.0098 29.9 11.0 89 74-171 34-122 (491)
489 TIGR00147 lipid kinase, YegS/R 27.5 2.8E+02 0.0061 28.9 8.7 74 77-155 2-79 (293)
490 PF13362 Toprim_3: Toprim doma 27.3 1.4E+02 0.003 25.1 5.2 52 74-128 39-92 (96)
491 TIGR00067 glut_race glutamate 27.1 1.8E+02 0.0039 29.8 6.9 121 6-142 59-181 (251)
492 PRK14974 cell division protein 27.0 5.9E+02 0.013 27.4 10.9 19 9-27 142-160 (336)
493 TIGR01359 UMP_CMP_kin_fam UMP- 26.9 45 0.00097 32.0 2.3 31 9-39 1-31 (183)
494 PRK13209 L-xylulose 5-phosphat 26.9 5E+02 0.011 26.7 10.5 78 65-142 24-121 (283)
495 cd07943 DRE_TIM_HOA 4-hydroxy- 26.8 5.6E+02 0.012 26.3 10.6 132 16-158 19-155 (263)
496 cd00338 Ser_Recombinase Serine 26.8 4.6E+02 0.0099 23.3 10.9 26 60-86 16-41 (137)
497 PF03162 Y_phosphatase2: Tyros 26.7 4.5E+02 0.0098 24.9 9.0 82 51-141 12-98 (164)
498 PRK15411 rcsA colanic acid cap 26.6 3.8E+02 0.0082 26.3 8.9 69 91-169 11-85 (207)
499 PRK13337 putative lipid kinase 26.5 3.6E+02 0.0079 28.3 9.3 75 77-156 2-80 (304)
500 PF13662 Toprim_4: Toprim doma 26.3 1.1E+02 0.0025 24.8 4.3 33 76-108 46-78 (81)
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=5e-77 Score=616.75 Aligned_cols=644 Identities=21% Similarity=0.341 Sum_probs=526.1
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
++|.||+|-+.-.....+-.+|...++|+|+++. -++..+++..++.|. .-.++++++.|++|.+++++| |.
T Consensus 89 ~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsf----p~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~ 160 (897)
T KOG1054|consen 89 RGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSF----PTDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DT 160 (897)
T ss_pred hhHhhheecccccchhhhhhhccceeeeeecccC----CcCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cc
Confidence 5899999999999999999999999999999875 123456788888885 467899999999999999999 77
Q ss_pred CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEEE
Q 036525 87 QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWI 166 (783)
Q Consensus 87 ~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i 166 (783)
+-|...++.+.+.+.+.+..|.....-. -.+...|..+++.+...+.+.+++.|..+....++.|+-+.|-...+|+||
T Consensus 161 ~rg~s~Lqai~~~a~~~nw~VtA~~v~~-~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYv 239 (897)
T KOG1054|consen 161 DRGLSILQAIMEAAAQNNWQVTAINVGN-INDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYV 239 (897)
T ss_pred cchHHHHHHHHHHHHhcCceEEEEEcCC-cccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEE
Confidence 7899999999999999999998766432 223345888999998888888999999998888888888888888999999
Q ss_pred EeCCcccccccCChhhhhcccceeEeeeC--------------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 167 MTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
..+.--...+. ..+.....++-++... .|+.....++..-++.+|||+.++++|++.+
T Consensus 240 laNl~f~d~dl--~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~ 317 (897)
T KOG1054|consen 240 LANLGFTDIDL--ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSL 317 (897)
T ss_pred EeeCCCchhhH--HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 98732221111 1122222333333322 3444444667788999999999999999988
Q ss_pred cccccCccccccCCCCcccc--cccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEEEECC
Q 036525 227 GITSFGFDKINVSSNATDLE--AFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVGFWTP 302 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~w~~ 302 (783)
.....+.. +++...||. +..+|..|.++-.+|+++.++|++|.++|| .|.+.+.+.+|+++. ++.+.+|.|..
T Consensus 318 ~~q~~~~~---rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e 394 (897)
T KOG1054|consen 318 RRQRIDIS---RRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNE 394 (897)
T ss_pred HHhhhchh---ccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecc
Confidence 76643322 233345654 466799999999999999999999999999 999999999999999 99999999999
Q ss_pred CCCCccc---------------ceEEEEecccCCccccEEEeeCC--CCCCCccEEEeeHHHHHHHhhhCCCC------C
Q 036525 303 EKGLTQK---------------LKLRIGVPVKKGFSDFVNVTIDP--KTQEQTSVTGYCIDVFKAVIPELPYA------P 359 (783)
Q Consensus 303 ~~~~~~~---------------~~L~V~v~~~~p~~~f~~~~~~~--~~~~~~~~~G~~idl~~~ia~~l~f~------~ 359 (783)
..+.... ++..|.+....||. +++++. ..++ .++.|||+||+.+||+..+++ .
T Consensus 395 ~~~fv~~~t~a~~~~d~~~~~n~tvvvttiL~spyv---m~kkn~~~~egn-~ryEGyCvdLa~~iAkhi~~~Y~l~iv~ 470 (897)
T KOG1054|consen 395 GEGFVPGSTVAQSRNDQASKENRTVVVTTILESPYV---MLKKNHEQLEGN-ERYEGYCVDLAAEIAKHIGIKYKLFIVG 470 (897)
T ss_pred cCceeeccccccccccccccccceEEEEEecCCchh---HHHhhHHHhcCC-cccceeHHHHHHHHHHhcCceEEEEEec
Confidence 8876532 66777776666764 444443 2455 889999999999999988876 2
Q ss_pred CC-----CCCCC-hHHHHHHHHcCeecEEEeceeeecccceeeeccccccccc-----------ccccceeeccCChhHH
Q 036525 360 DG-----SSSGS-YNDLIYQVFLGEFDAVVGDITIVFNRSNYVGFTLPYTESG-----------KRNAWVFLQPLTWDLW 422 (783)
Q Consensus 360 ~~-----~~~~~-~~gli~~l~~g~~Di~~~~~~~t~~R~~~vdFs~p~~~s~-----------~~~~~~~l~PF~~~vW 422 (783)
+| ...+. |+||+|.|..|++|++++++|||.+|++.+|||.|++..| +++.++|+.|+..++|
T Consensus 471 dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPqKsk~gVFSFldPLa~eIW 550 (897)
T KOG1054|consen 471 DGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIW 550 (897)
T ss_pred CCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcccCCCCeeeecchhHHHHH
Confidence 33 44556 9999999999999999999999999999999999999999 5688999999999999
Q ss_pred HHHHHHHHHHHHhhheeecccCCCCC------C-------CccCccchhHHHHHHHhhhcccc-cccccchhhhHHHHHH
Q 036525 423 VTSGCFFIFIGFVVWVFEHRINDDFR------G-------PAKHQVGTSFWFSFSTMVFSQRE-RVISNLARFVVIVWCF 488 (783)
Q Consensus 423 l~i~~~~~~~~~~~~~~~~~~~~~~~------~-------~~~~~~~~~~~~~~~~l~~~~~~-~~~s~~~R~l~~~w~l 488 (783)
+|++...+-++++++++.|.++.+++ + ++.+++.+++||+++++++||.+ .|++.++|++..+|||
T Consensus 551 m~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~DI~PRslSGRIvggvWWF 630 (897)
T KOG1054|consen 551 MCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWF 630 (897)
T ss_pred HHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCCCCCccccccceeccchhh
Confidence 99999999999999999988765432 2 12357889999999999999976 6899999999999999
Q ss_pred HHHHHHHHhhhhhhheeeccccCCcccC-----------------CchHHHHHHhcCCCcccceec--------------
Q 036525 489 VVLILTQSYTASLTSLLTVQQLQPTITD-----------------GSFVLGILKQLGFDERKLVVY-------------- 537 (783)
Q Consensus 489 ~~lil~s~Yta~L~s~Lt~~~~~~~i~s-----------------gs~~~~~l~~~~~~~~~~~~~-------------- 537 (783)
|+||++++|||||+++||++++.+||++ ||+ .++++. +++..|
T Consensus 631 FTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GST-keFFr~-----Skiavy~kMW~yM~SaepsV 704 (897)
T KOG1054|consen 631 FTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGST-KEFFRR-----SKIAVYEKMWTYMKSAEPSV 704 (897)
T ss_pred hhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCch-HHHHhh-----hhHHHHHHHHHHHhcCCcce
Confidence 9999999999999999999999999999 333 333332 222233
Q ss_pred --CChhHHHHHHhcCcccCceeEEecchhHHHHHHhhc-CCceEEecccccccceEEEecCCCCChHHHHHHHHhhhcCC
Q 036525 538 --NSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQH-CSKYTMIEPKFKTAGFGFVFPLHSPLVHDVSKAILNVTEGD 614 (783)
Q Consensus 538 --~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-c~~l~~v~~~~~~~~~~~~~~k~spl~~~in~~il~l~e~G 614 (783)
.+..+.++.+++. .|-+|++.+...-+|.-++. |+ -..||..+.+.+||++.||||.|+..+|.++++|.|.|
T Consensus 705 Fv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCD-TMKVGgNLds~GYGiATp~Gsslr~~vNLAvLkL~E~G 780 (897)
T KOG1054|consen 705 FVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCD-TMKVGGNLDSKGYGIATPKGSSLRNAVNLAVLKLNEQG 780 (897)
T ss_pred eeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCcc-ceecccccCCcceeecCCCCcccccchhhhhhhhcccc
Confidence 3444555555554 46799999988777766554 98 55689999999999999999999999999999999999
Q ss_pred hHHHHHHHhcCCCCCCCCCCC--CcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 036525 615 KMKEIEDAWFKKHSSCPDAST--VVSSRSLGLNSFWGLFLIAGIAAILALIIFLAVFVHQHRNVLR 678 (783)
Q Consensus 615 ~~~~~~~kw~~~~~~c~~~~~--~~~~~~L~l~~l~g~F~il~~g~~ls~~vfl~E~~~~~~~~~r 678 (783)
+++++++|||.++++|..... .++...|+|.+++|+||||..|++||.++.++|+||+.|...|
T Consensus 781 ~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eak 846 (897)
T KOG1054|consen 781 LLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAK 846 (897)
T ss_pred hHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHH
Confidence 999999999999999987653 3344789999999999999999999999999999999988765
No 2
>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=9.9e-67 Score=561.71 Aligned_cols=652 Identities=23% Similarity=0.385 Sum_probs=507.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHc----ccCCCCccEEeeccCC-CCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcC
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQ----PGNKSQVPILSFSATS-PSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFG 75 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~----~~~~~~vP~Is~~a~s-~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~g 75 (783)
+|+...+|.+|+=-..|. +.|+++ +.....||+|+..+.+ ..++++ ..-.|++..++-++|++++.++|+.++
T Consensus 94 ~lvs~~~V~glvf~d~s~-~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~yd 172 (1258)
T KOG1053|consen 94 DLVSGARVHGLVFEDDSD-TEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYD 172 (1258)
T ss_pred hhhhhcceeEEEeecCcc-chHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcC
Confidence 356677898887544454 233333 4577899999997654 444554 335799999999999999999999999
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
|.+++++...-+.-+.+...+++..+. .|.++.......++.+ ++......++++-++.||+++|..+++..+|..|
T Consensus 173 W~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~~-d~~a~~q~qLkki~a~VillyC~~eea~~IF~~A 251 (1258)
T KOG1053|consen 173 WYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPSTD-DLLAKLQAQLKKIQAPVILLYCSREEAERIFEEA 251 (1258)
T ss_pred cceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCCCC-chHHHHHHHHHhcCCcEEEEEecHHHHHHHHHHH
Confidence 999999998888888888888888775 4656655555444433 2344455677778899999999999999999999
Q ss_pred HHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCc
Q 036525 154 NEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGF 233 (783)
Q Consensus 154 ~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~ 233 (783)
.++||++++|+||++...... ++.-.+...|.+.+... ..-..+....-|++-++|.|+..+.......
T Consensus 252 ~q~Gl~g~~y~Wi~pqlv~g~----~~~pa~~P~GLisv~~~-------~w~~~l~~rVrdgvaiva~aa~s~~~~~~~l 320 (1258)
T KOG1053|consen 252 EQAGLTGPGYVWIVPQLVEGL----EPRPAEFPLGLISVSYD-------TWRYSLEARVRDGVAIVARAASSMLRIHGFL 320 (1258)
T ss_pred HhcCCcCCceEEEeehhccCC----CCCCccCccceeeeecc-------chhhhHHHHHhhhHHHHHHHHHHHHhhcccC
Confidence 999999999999997654432 11112455677766532 1123567889999999999999887664432
Q ss_pred cccccCCCCccccc--ccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec--CCcEEEEEECCCCCCcc
Q 036525 234 DKINVSSNATDLEA--FGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN--NGARGVGFWTPEKGLTQ 308 (783)
Q Consensus 234 ~~~~~~~~~~~~~~--~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~--~~~~~vg~w~~~~~~~~ 308 (783)
..+. .||-. ......++.|...|.|++|+| +.++|. +|-+.++...|+... .-|..||.|+.+.-...
T Consensus 321 p~~~-----~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~L~M~ 393 (1258)
T KOG1053|consen 321 PEPK-----MDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGTLVMK 393 (1258)
T ss_pred CCcc-----cccccccCccccchhhhhhhhheeeecc--cceeecCCceeeccceEEEecCCCcchheeceecCCeEEEe
Confidence 1111 12211 112235788999999999999 899997 897777888888776 45999999987653321
Q ss_pred c----------------ceEEEEecccCCccccEEE-eeCCCCCC--------------------------CccEEEeeH
Q 036525 309 K----------------LKLRIGVPVKKGFSDFVNV-TIDPKTQE--------------------------QTSVTGYCI 345 (783)
Q Consensus 309 ~----------------~~L~V~v~~~~p~~~f~~~-~~~~~~~~--------------------------~~~~~G~~i 345 (783)
. .||+|++-+++||. .+ +-||.++. +.++.||||
T Consensus 394 y~vWPr~~~~~q~~~d~~HL~VvTLeE~PFV---ive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCI 470 (1258)
T KOG1053|consen 394 YPVWPRYHKFLQPVPDKLHLTVVTLEERPFV---IVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCI 470 (1258)
T ss_pred ccccccccCccCCCCCcceeEEEEeccCCeE---EEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhH
Confidence 1 69999999999985 33 22332211 357899999
Q ss_pred HHHHHHhhhCCCC---------CCC-CCCCChHHHHHHHHcCeecEEEeceeeecccceeeeccccccccc---------
Q 036525 346 DVFKAVIPELPYA---------PDG-SSSGSYNDLIYQVFLGEFDAVVGDITIVFNRSNYVGFTLPYTESG--------- 406 (783)
Q Consensus 346 dl~~~ia~~l~f~---------~~~-~~~~~~~gli~~l~~g~~Di~~~~~~~t~~R~~~vdFs~p~~~s~--------- 406 (783)
||++.||+.+||+ ++| ..||.|+|||+.|..+++||+++.++|+.||++.||||.||.++|
T Consensus 471 DiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsn 550 (1258)
T KOG1053|consen 471 DILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSN 550 (1258)
T ss_pred HHHHHHHhhcCcceEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecC
Confidence 9999999999999 344 789999999999999999999999999999999999999999999
Q ss_pred -ccccceeeccCChhHHHHHHHHHHHH-HHhhheeecccCCCCC---------CCccCccchhHHHHHHHhhhcc--ccc
Q 036525 407 -KRNAWVFLQPLTWDLWVTSGCFFIFI-GFVVWVFEHRINDDFR---------GPAKHQVGTSFWFSFSTMVFSQ--RER 473 (783)
Q Consensus 407 -~~~~~~~l~PF~~~vWl~i~~~~~~~-~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~--~~~ 473 (783)
..+..+||.||++.+|+.+++.++++ ++.++++|+.++-.+. +.+.+.++.++|..++.++... .+.
T Consensus 551 gtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~n 630 (1258)
T KOG1053|consen 551 GTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVEN 630 (1258)
T ss_pred CccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCC
Confidence 34667999999999999999887765 4555678887654432 2346789999999998877665 447
Q ss_pred ccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccC-----------------------CchHHHHHHhcCCC
Q 036525 474 VISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITD-----------------------GSFVLGILKQLGFD 530 (783)
Q Consensus 474 ~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~s-----------------------gs~~~~~l~~~~~~ 530 (783)
|+.+.+|+++.+|-||++|+.++|||||++++..+++-..+.. ||+.++...++...
T Consensus 631 PKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~M 710 (1258)
T KOG1053|consen 631 PKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEM 710 (1258)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHH
Confidence 8999999999999999999999999999999976555443333 44443332222111
Q ss_pred cccceec--CChhHHHHHHhcCcccCceeEEecchhHHHHHHhhc--CCceEEec--ccccccceEEEecCCCCChHHHH
Q 036525 531 ERKLVVY--NSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQH--CSKYTMIE--PKFKTAGFGFVFPLHSPLVHDVS 604 (783)
Q Consensus 531 ~~~~~~~--~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~--c~~l~~v~--~~~~~~~~~~~~~k~spl~~~in 604 (783)
...++.| ...+++++.|++|+ .|||++|...++|...++ |+ |..|| ..+...+||+++|||||++..||
T Consensus 711 HeYM~kyNq~~v~dal~sLK~gK----LDAFIyDaAVLnY~agkDegCK-LvTIGsgKvFAttGYGIal~k~Spwkr~Id 785 (1258)
T KOG1053|consen 711 HEYMVKYNQPGVEDALESLKNGK----LDAFIYDAAVLNYMAGKDEGCK-LVTIGSGKVFATTGYGIALPKNSPWKRQID 785 (1258)
T ss_pred HHHHHHhccCchHHHHHHHhccc----chhHHHHHHHHHHhhccCCCce-EEEecCCceeeecceeeecCCCCcchhhHH
Confidence 2233334 46789999999999 999999999999999887 97 77776 88999999999999999999999
Q ss_pred HHHHhhhcCChHHHHHHHhcCCCCCCCCCCCCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHH--hhccccCCCc
Q 036525 605 KAILNVTEGDKMKEIEDAWFKKHSSCPDASTVVSSRSLGLNSFWGLFLIAGIAAILALIIFLAVFVHQ--HRNVLRNSES 682 (783)
Q Consensus 605 ~~il~l~e~G~~~~~~~kw~~~~~~c~~~~~~~~~~~L~l~~l~g~F~il~~g~~ls~~vfl~E~~~~--~~~~~r~~~~ 682 (783)
.+|+++..+|.|+++++.|+ ...|.+...+..+.+|++++|.|+||+|++|++||+++|++|.+++ -|++..+.+.
T Consensus 786 lallQy~gdGeme~Le~~Wl--tgic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~Lr~~~~~s~k 863 (1258)
T KOG1053|consen 786 LALLQYLGDGEMEMLETLWL--TGICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWKLRHCLKNSSK 863 (1258)
T ss_pred HHHHHHhccchHHHHHHHHh--hcccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCcc
Confidence 99999999999999999999 6889977777788999999999999999999999999999996654 3555554443
Q ss_pred c
Q 036525 683 S 683 (783)
Q Consensus 683 ~ 683 (783)
+
T Consensus 864 ~ 864 (1258)
T KOG1053|consen 864 L 864 (1258)
T ss_pred c
Confidence 3
No 3
>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=8.4e-69 Score=557.90 Aligned_cols=646 Identities=20% Similarity=0.349 Sum_probs=518.5
Q ss_pred cccccCCeEEEE-cc-CCchh---HHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcC
Q 036525 2 DLLNNAQVRVML-GP-EDSMP---TNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFG 75 (783)
Q Consensus 2 ~Li~~~~V~aiI-Gp-~~S~~---~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~g 75 (783)
+||+. +|.+++ .| .+|.. -.++...+..++||++..+.-+..++++ -++.|.|+.|+...|+......|..+.
T Consensus 90 ~li~~-~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~ 168 (993)
T KOG4440|consen 90 DLISS-QVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYS 168 (993)
T ss_pred HHHhh-heeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhh
Confidence 35655 566665 33 33322 2344456688999999999888899974 689999999999999999999999999
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
|++|.++.+||.-|+.....++..+++...++.....+. ++..++++.|..+|...+||+++....+|+..+++.|-+
T Consensus 169 y~~vi~l~s~d~~gra~~~r~qt~~e~~~~~~e~v~~f~--p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~ 246 (993)
T KOG4440|consen 169 YNHVILLVSDDHEGRAAQKRLQTLLEERESKAEKVLQFD--PGTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGM 246 (993)
T ss_pred cceEEEEEcccccchhHHhHHHHHHHHHhhhhhhheecC--cccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhh
Confidence 999999999999999998888888887666654444444 445699999999999999999999999999999999999
Q ss_pred cCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccc
Q 036525 156 IGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDK 235 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~ 235 (783)
++|.+.||+||.+..-.. ..+..+|++|+.-.. -..-.+..-|++.++|.|+++..+.......
T Consensus 247 lnmTG~G~VWiV~E~a~~--------~nn~PdG~LGlqL~~--------~~~~~~hirDsv~vlasAv~e~~~~e~I~~~ 310 (993)
T KOG4440|consen 247 LNMTGSGYVWIVGERAIS--------GNNLPDGILGLQLIN--------GKNESAHIRDSVGVLASAVHELLEKENITDP 310 (993)
T ss_pred hcccCceEEEEEeccccc--------cCCCCCceeeeEeec--------CccccceehhhHHHHHHHHHHHHhhccCCCC
Confidence 999999999999885332 224568999886521 0122456779999999999998866433222
Q ss_pred cccCCCCcccccccCCCChHHHHHHHHcCc-cccceeeEEEe-cCccccceEEEEEec--CCcEEEE-------------
Q 036525 236 INVSSNATDLEAFGISQNGPKLLQALSSTR-FKGLTGDYIFV-DGQLQSSAFEIINVN--NGARGVG------------- 298 (783)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~-f~g~~G~i~fd-~G~~~~~~~~I~~~~--~~~~~vg------------- 298 (783)
+. ..+++..+|..|..|...|...+ -+|.+|.+.|+ +||+....|+|+|+. ...+.+|
T Consensus 311 P~-----~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r~~~nd~~ 385 (993)
T KOG4440|consen 311 PR-----GCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTRVIPNDRK 385 (993)
T ss_pred CC-----cccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccccceeeccCCce
Confidence 21 22345567889998888887655 58999999996 999999999999994 2222222
Q ss_pred -EECCC-----CCCcccceEEEEecccCCccccEEEe-------------eC--------------CCCC---CCccEEE
Q 036525 299 -FWTPE-----KGLTQKLKLRIGVPVKKGFSDFVNVT-------------ID--------------PKTQ---EQTSVTG 342 (783)
Q Consensus 299 -~w~~~-----~~~~~~~~L~V~v~~~~p~~~f~~~~-------------~~--------------~~~~---~~~~~~G 342 (783)
.|..+ .+..+.++|||.+.+++||. |+... .| |.+. ..-++.|
T Consensus 386 IiWpGg~~~KP~gi~~pthLrivTi~~~PFV-Yv~p~~sd~~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G 464 (993)
T KOG4440|consen 386 IIWPGGETEKPRGIQMPTHLRIVTIHQEPFV-YVKPTLSDGTCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYG 464 (993)
T ss_pred eecCCCCcCCCccccccceeEEEEeccCCeE-EEecCCCCcchhhhccccCCcccceeecCCCCCCCCCcccCcchhhhH
Confidence 24433 22334499999999999985 33200 01 0001 0246799
Q ss_pred eeHHHHHHHhhhCCCC------CCC-------------CCCCChHHHHHHHHcCeecEEEeceeeecccceeeecccccc
Q 036525 343 YCIDVFKAVIPELPYA------PDG-------------SSSGSYNDLIYQVFLGEFDAVVGDITIVFNRSNYVGFTLPYT 403 (783)
Q Consensus 343 ~~idl~~~ia~~l~f~------~~~-------------~~~~~~~gli~~l~~g~~Di~~~~~~~t~~R~~~vdFs~p~~ 403 (783)
||||++-.+++.+||+ ++| ....+|+||+|.|.+|++||+++++||++||.++++||.||.
T Consensus 465 ~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfk 544 (993)
T KOG4440|consen 465 FCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFK 544 (993)
T ss_pred HHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhhhhhhCCccceEeeceeeChhhhhheeccCccc
Confidence 9999999999999999 222 123479999999999999999999999999999999999999
Q ss_pred ccc----------ccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCC-CCC-------CccCccchhHHHHHHH
Q 036525 404 ESG----------KRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDD-FRG-------PAKHQVGTSFWFSFST 465 (783)
Q Consensus 404 ~s~----------~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~-~~~-------~~~~~~~~~~~~~~~~ 465 (783)
..| .+.+-+||+||+.++|+++++++.+++++++++.|+++-+ |.. .....++..+||+|+.
T Consensus 545 YqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGV 624 (993)
T KOG4440|consen 545 YQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGV 624 (993)
T ss_pred ccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHh
Confidence 999 3456689999999999999999999999999998876432 221 2245799999999999
Q ss_pred hhhcc--cccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccC-------------------CchHHHHH
Q 036525 466 MVFSQ--RERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITD-------------------GSFVLGIL 524 (783)
Q Consensus 466 l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~s-------------------gs~~~~~l 524 (783)
|+..| ...|+|.+.|++..+|+-|++|++++|||||+++|.+++.+..+.. +|....|+
T Consensus 625 LLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YF 704 (993)
T KOG4440|consen 625 LLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYF 704 (993)
T ss_pred hhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCCCCccccCcccceeEEEecCccHHHHH
Confidence 99877 3478999999999999999999999999999999999887765444 67777776
Q ss_pred Hhc-----CCCcccceecCChhHHHHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecCCCCC
Q 036525 525 KQL-----GFDERKLVVYNSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLHSPL 599 (783)
Q Consensus 525 ~~~-----~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~spl 599 (783)
+.. -+....-..|.+.+++++++++|+ .+||+-|..-++|..+++|. +...|+.|...+||++++||||+
T Consensus 705 rRqVELS~MyR~ME~hNy~~A~eAiq~v~~gk----L~AFIWDS~rLEfEAs~~Ce-LvT~GeLFgRSgyGIGlqK~SPW 779 (993)
T KOG4440|consen 705 RRQVELSTMYRHMEKHNYESAAEAIQAVRDGK----LHAFIWDSARLEFEASQKCE-LVTTGELFGRSGYGIGLQKDSPW 779 (993)
T ss_pred HHHhHHHHHHHhhhhcchhhHHHHHHHHHcCc----eeEEEeecceeeehhhcccc-eEeccccccccccccccccCCCC
Confidence 542 123334456788899999999999 99999999999999999997 88899999999999999999999
Q ss_pred hHHHHHHHHhhhcCChHHHHHHHhcCCC-CCCCCCCCCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 036525 600 VHDVSKAILNVTEGDKMKEIEDAWFKKH-SSCPDASTVVSSRSLGLNSFWGLFLIAGIAAILALIIFLAVFVHQHRNVLR 678 (783)
Q Consensus 600 ~~~in~~il~l~e~G~~~~~~~kw~~~~-~~c~~~~~~~~~~~L~l~~l~g~F~il~~g~~ls~~vfl~E~~~~~~~~~r 678 (783)
.+.+..+|++++|+|+|+++.++|.... +.|.+. .+.++..|+++++.|+|++.+.|+++.+.+.++|..|+|++..+
T Consensus 780 t~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~-~~k~PatLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 780 TQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDS-RSKAPATLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred cchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhh-hccCcccccccccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 9999999999999999999999999753 333332 23378899999999999999999999999999999999887643
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=1.3e-55 Score=517.26 Aligned_cols=534 Identities=33% Similarity=0.568 Sum_probs=431.9
Q ss_pred HHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEEEEeCCcccccccCC-hhhhhcccceeEeeeCC-------
Q 036525 125 ELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIMTDGMTNLLRTLE-PSVIDSMQGVIDVRPYE------- 196 (783)
Q Consensus 125 ~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~------- 196 (783)
.+.+++....+++++++.+..+..++.++.++||+..+|+|+.+.......+... ....+.++|.++...+.
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s~~~~ 84 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRSELLQ 84 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCccHHHH
Confidence 4556667889999999998899999999999999999999999997665544433 34456677777776651
Q ss_pred -CCCCc---ccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccc---cc
Q 036525 197 -NPSLF---DAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFK---GL 269 (783)
Q Consensus 197 -~~~~~---~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~---g~ 269 (783)
+..+. ....+.++.++||+++++|.|++++..... -...|.....|.++..+.+.+.+.... |.
T Consensus 85 ~~~~~~~~~~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (656)
T KOG1052|consen 85 NFVTRWQTSNVELLVYALWAYDAIQALARAVESLLNIGN---------LSLSCGRNNSWLDALGVFNFGKKLLVVNLSGV 155 (656)
T ss_pred HHHHHHhhccccccchhhHHHHHHHHHHHHHHHhhcCCC---------CceecCCCCcccchhHHHHHHHhhhhhccccc
Confidence 11111 224678999999999999999999874110 012233345667788888888876544 45
Q ss_pred eeeEEEe-cCccccceEEEEEec-CCcEEEEEECCCCCCc------------------ccceEEEEecccCCccccEEEe
Q 036525 270 TGDYIFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT------------------QKLKLRIGVPVKKGFSDFVNVT 329 (783)
Q Consensus 270 ~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~w~~~~~~~------------------~~~~L~V~v~~~~p~~~f~~~~ 329 (783)
+|.+.++ ++.+....++|+++. .+.+.+|.|.+..+.. ..++|+|+++..+||..++...
T Consensus 156 ~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~~~i~~~~~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~ 235 (656)
T KOG1052|consen 156 TGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGGENISWPGKDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDL 235 (656)
T ss_pred eeEEEecCCCccccceEEEEEecCcCceeEEEecCCCCceeeccCCcccCcCCccccCCCceEEEEEeccCCceeeeecc
Confidence 6777776 778888999999999 8888899999987511 0289999999999986554322
Q ss_pred eCCCCCCCccEEEeeHHHHHHHhhhCCCC------CC--C--CCCCChHHHHHHHHcCeecEEEeceeeecccceeeecc
Q 036525 330 IDPKTQEQTSVTGYCIDVFKAVIPELPYA------PD--G--SSSGSYNDLIYQVFLGEFDAVVGDITIVFNRSNYVGFT 399 (783)
Q Consensus 330 ~~~~~~~~~~~~G~~idl~~~ia~~l~f~------~~--~--~~~~~~~gli~~l~~g~~Di~~~~~~~t~~R~~~vdFs 399 (783)
....++ ..+.|+|+|++++++++|||+ ++ | .++|+|+|++++|.+|++|++ ++++++++|++++|||
T Consensus 236 -~~~~~~-~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT 312 (656)
T KOG1052|consen 236 -AILNGN-DRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGLVGQLVDGEADVG-ADITITPERSKYVDFT 312 (656)
T ss_pred -cccCCC-CccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHHHHHHhcCccccc-cceEEeecccccEEec
Confidence 122344 789999999999999999999 22 2 344799999999999999999 9999999999999999
Q ss_pred ccccccc----------ccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCC----ccCccchhHHHHHHH
Q 036525 400 LPYTESG----------KRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGP----AKHQVGTSFWFSFST 465 (783)
Q Consensus 400 ~p~~~s~----------~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~ 465 (783)
.||+..+ ....|.|++||++++|++++++++++++++|+++|+.+.+++.+ ..+...+++|+++++
T Consensus 313 ~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 392 (656)
T KOG1052|consen 313 IPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILERLSPYELPPRQIVTSLFSLLNCLWLTVGS 392 (656)
T ss_pred cceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccccccCCccccceeEeecccchhhhhHH
Confidence 9999999 12279999999999999999999999999999999887776111 123455688999999
Q ss_pred hhhccc-ccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccC----------------CchHHHHHHhc-
Q 036525 466 MVFSQR-ERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITD----------------GSFVLGILKQL- 527 (783)
Q Consensus 466 l~~~~~-~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~s----------------gs~~~~~l~~~- 527 (783)
++.++. ..|++.++|++.++||++++||+++|||+|+|+||++++.++|++ ++....++++.
T Consensus 393 ~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~ 472 (656)
T KOG1052|consen 393 LLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESE 472 (656)
T ss_pred HhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHH
Confidence 998874 578999999999999999999999999999999999999999976 66666666554
Q ss_pred ---CCCcc-cceecCChhHHHHHHhcCcccCceeEEecchhHHHHHHhhc--CCceEEecccccccceEEEecCCCCChH
Q 036525 528 ---GFDER-KLVVYNSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQH--CSKYTMIEPKFKTAGFGFVFPLHSPLVH 601 (783)
Q Consensus 528 ---~~~~~-~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~--c~~l~~v~~~~~~~~~~~~~~k~spl~~ 601 (783)
.+... +...+.+.+++.+++++|.. ++ .+++.+...+.+...++ |+ ++++++.+...+++ ++||||||++
T Consensus 473 ~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~~-~~~~~~~~~~~~~~~~~~~c~-~~~v~~~~~~~~~~-~~~~~Spl~~ 548 (656)
T KOG1052|consen 473 DMWAFKVSQRSVPLASPEEGVERVRKGPS-GG-YAFASDELYLAYLFLRDEICD-LTEVGEPFLYKGYG-AFPKGSPLRS 548 (656)
T ss_pred HHHhhhccCCCccCCCHHHHHHHHHcCCC-Cc-eEEEeccHHHHHHHhhcCCCc-eEEeCCcccCCCcc-eecCCCccHH
Confidence 13333 66788999999999999975 33 55555555555555544 75 99999999999999 9999999999
Q ss_pred HHHHHHHhhhcCChHHHHHHHhcCCC---CCCCCCCCCcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 036525 602 DVSKAILNVTEGDKMKEIEDAWFKKH---SSCPDASTVVSSRSLGLNSFWGLFLIAGIAAILALIIFLAVFVHQHRNVL 677 (783)
Q Consensus 602 ~in~~il~l~e~G~~~~~~~kw~~~~---~~c~~~~~~~~~~~L~l~~l~g~F~il~~g~~ls~~vfl~E~~~~~~~~~ 677 (783)
.+|.+|+++.|.|.+++|.+||+..+ ..|.... ....|++++++|+|+++++|+++|+++|++|++|++++.+
T Consensus 549 ~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l~~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 549 LISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKALDLESFWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 99999999999999999999999865 4444433 5778999999999999999999999999999999999886
No 5
>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=4.7e-36 Score=330.29 Aligned_cols=282 Identities=20% Similarity=0.263 Sum_probs=234.1
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+++++++++++||++|++|++|
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~ 181 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITD 181 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEec
Confidence 58999999999999999999999999999999999999997 57899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCCh-----hHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATD-----DQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~-----~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++||++.++.|++++++.|+||+..+.++.+.++ .++...+..+++++|||||+.+...++..++++|+++|+
T Consensus 182 d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~-- 259 (403)
T cd06361 182 DDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI-- 259 (403)
T ss_pred CchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC--
Confidence 9999999999999999999999999988764332 456666667899999999999999999999999999997
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeCCCC-CCccc-ccchHHHHHHHHHHHHHHHHHHhcccccCcccccc
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENP-SLFDA-ELNIIGLLAYDATRALAEAVEKAGITSFGFDKINV 238 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~-~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~ 238 (783)
+++||++++|................|++++.+..-+ ..+.+ --+.+...+||||+++|+||++++...
T Consensus 260 -~~~wigs~~w~~~~~~~~~~~~~~~~g~ig~~~~~~~~~~F~~~~~~~~~~~v~~AVyaiA~Al~~~~~~~-------- 330 (403)
T cd06361 260 -NKVWIASDNWSTAKKILTDPNVKKIGKVVGFTFKSGNISSFHQFLKNLLIHSIQLAVFALAHAIRDLCQER-------- 330 (403)
T ss_pred -CeEEEEECcccCccccccCCcccccceEEEEEecCCccchHHHHHHHhhHHHHHHHHHHHHHHHHHhccCC--------
Confidence 6889999999864433332233567889998875111 00000 012246679999999999999986431
Q ss_pred CCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec--CC---cEEEEEECCCCCC
Q 036525 239 SSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN--NG---ARGVGFWTPEKGL 306 (783)
Q Consensus 239 ~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~--~~---~~~vg~w~~~~~~ 306 (783)
.|... ...++++|+++|++++|+|++|++.|| +|+. ...|+|++++ ++ +..||.|.+.+..
T Consensus 331 -----~c~~~-~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~~ 397 (403)
T cd06361 331 -----QCQNP-NAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQNDV 397 (403)
T ss_pred -----CCCCC-CCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCCE
Confidence 12111 123789999999999999998899998 8987 5799999999 33 7999999988654
No 6
>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=1.4e-35 Score=320.94 Aligned_cols=288 Identities=19% Similarity=0.270 Sum_probs=236.1
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
|+++ ||.|||||.++..+..++.+|+..+||+|+++. |.. ...+|+.++.|+ +++|+++++++|||++|++|
T Consensus 52 ~~~~-gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iI 123 (364)
T cd06390 52 QFSK-GVYAIFGFYDRKTVNMLTSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYI 123 (364)
T ss_pred Hhhc-CceEEEccCChhHHHHHHHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEE
Confidence 5554 899999999999999999999999999999854 332 235678999987 89999999999999999999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
|++ +||...++.|.+++++.|++|......+ .++.++..+|.+|+++++++||+++....+..+++++.+.+++..+
T Consensus 124 Yd~-d~g~~~lq~l~~~~~~~~~~I~~~~~~~--~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~g 200 (364)
T cd06390 124 YDA-DRGLSVLQKVLDTAAEKNWQVTAVNILT--TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIG 200 (364)
T ss_pred EeC-CccHHHHHHHHHhhhccCceeeEEEeec--CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCc
Confidence 954 4999999999999999999998877665 3456999999999999999999999999999999999999999999
Q ss_pred eEEEEeCCcccccccCChhhhhcccceeEeeeC--------------------CCCCCcccccchHHHHHHHHHHHHHHH
Q 036525 163 CVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------------ENPSLFDAELNIIGLLAYDATRALAEA 222 (783)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------------~~~~~~~~~~~~~~~~aYDAv~~la~A 222 (783)
|+||+|+......+ .......+.|+.|+..+ .||.....+++.+++++||||+++|+|
T Consensus 201 y~wI~t~l~~~~~~--~~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A 278 (364)
T cd06390 201 YHYILANLGFMDID--LTKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEA 278 (364)
T ss_pred eEEEecCCCccccc--HHHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHH
Confidence 99999993222211 12345678899998877 111122235678999999999999999
Q ss_pred HHHhcccccCccccccCCCCccccc--ccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEE
Q 036525 223 VEKAGITSFGFDKINVSSNATDLEA--FGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVG 298 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~~--~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg 298 (783)
++++........+. ....+|.. ...|..|..|+++|++++|+|+||+++|+ +|++....|+|+|+. .|++.||
T Consensus 279 ~~~l~~~~~~~~~~---~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG 355 (364)
T cd06390 279 FQNLRKQRIDISRR---GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIG 355 (364)
T ss_pred HHHHHHcCCCcccC---CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEE
Confidence 99875432221111 11123432 33689999999999999999999999997 899999999999999 8999999
Q ss_pred EECCCCCC
Q 036525 299 FWTPEKGL 306 (783)
Q Consensus 299 ~w~~~~~~ 306 (783)
+|++..|+
T Consensus 356 ~W~~~~g~ 363 (364)
T cd06390 356 YWNEDEKL 363 (364)
T ss_pred EECCCCCc
Confidence 99998876
No 7
>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=1.3e-35 Score=324.79 Aligned_cols=283 Identities=18% Similarity=0.224 Sum_probs=241.3
Q ss_pred cccccCCeEEEEccCCchh---HHHHHcccCCCCccEEeeccCCCCC-CC-CCCCeEEEeecCchhhHHHHHHHHHHcCC
Q 036525 2 DLLNNAQVRVMLGPEDSMP---TNFIIQPGNKSQVPILSFSATSPSL-TS-IRSPYFFRGALNDSSQVGAITAIIKAFGW 76 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~---~~av~~~~~~~~vP~Is~~a~s~~l-s~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw 76 (783)
+++.+++|.+|+||.+|+. +.+++++++.++||+|+++++++.+ ++ ..+|||||+.|++..|+.+++++++++||
T Consensus 57 ~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w 136 (362)
T cd06367 57 DLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDW 136 (362)
T ss_pred HHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCC
Confidence 3455669999999999998 9999999999999999999999988 76 57999999999999999999999999999
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCce--EeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTR--VPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~--v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
++|++||++++||++.++.+++.+++.|++ ++....++.... .++...+.++++.++|+|++.++..++..++++|+
T Consensus 137 ~~vaii~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~~~~~~~~-~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 215 (362)
T cd06367 137 HQFSVVTSRDPGYRDFLDRVETTLEESFVGWEFQLVLTLDLSDD-DGDARLLRQLKKLESRVILLYCSKEEAERIFEAAA 215 (362)
T ss_pred eEEEEEEEcCcccHHHHHHHHHHHHhcccceeeeeeEEeccCCC-cchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHH
Confidence 999999999999999999999999999999 766666654322 27889999999999999999999999999999999
Q ss_pred HcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCcc
Q 036525 155 EIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFD 234 (783)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~ 234 (783)
++||+.++|+||+++++..... ...+...|++++.+.. +..+.+++|||++++|+|++++......
T Consensus 216 ~~g~~~~~~~wI~~~~~~~~~~----~~~~~~~G~~g~~~~~--------~~~~~~~~~Dav~~~a~Al~~~~~~~~~-- 281 (362)
T cd06367 216 SLGLTGPGYVWIVGELALGSGL----APEGLPVGLLGVGLDT--------WYSLEARVRDAVAIVARAAESLLRDKGA-- 281 (362)
T ss_pred HcCCCCCCcEEEECcccccccC----CccCCCCeeEEEEecc--------cccHHHHHHHHHHHHHHHHHHHHHhcCC--
Confidence 9999999999999999874211 1235678999998742 2467899999999999999998653211
Q ss_pred ccccCCCCccccccc--CCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec--CCcEEEEEECC
Q 036525 235 KINVSSNATDLEAFG--ISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN--NGARGVGFWTP 302 (783)
Q Consensus 235 ~~~~~~~~~~~~~~~--~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~--~~~~~vg~w~~ 302 (783)
.+....+|.... .|.+|..|.++|++++|.|++|+++|| +|++....|+|+|++ .+++.||.|++
T Consensus 282 ---~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 282 ---LPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred ---CCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 111123454432 278999999999999999999999997 899887899999998 57999999975
No 8
>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-35 Score=321.53 Aligned_cols=277 Identities=18% Similarity=0.282 Sum_probs=234.0
Q ss_pred cccccCCeEEEEc-cC-Cch---hHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcC
Q 036525 2 DLLNNAQVRVMLG-PE-DSM---PTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFG 75 (783)
Q Consensus 2 ~Li~~~~V~aiIG-p~-~S~---~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~g 75 (783)
+|++ ++|.|||| +. +|. .+.+++.+++.++||+|+++++++.++++ .+||+||+.|++..|+.+++++++++|
T Consensus 75 ~Li~-~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~ 153 (377)
T cd06379 75 QLIS-NQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFK 153 (377)
T ss_pred HHhh-cceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcC
Confidence 3666 59999974 33 333 47778889999999999999999988864 589999999999999999999999999
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCc----eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDT----RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFE 151 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~----~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~ 151 (783)
|++|++||++++||++.++.|++.+++.|+ +|+..+.++. ++.|+.+++.+|++.++|+|+++++..++..+++
T Consensus 154 w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~--~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~ 231 (377)
T cd06379 154 WNKVILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEP--GEKNVTSLLQEAKELTSRVILLSASEDDAAVIYR 231 (377)
T ss_pred CeEEEEEEEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCC--chhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHH
Confidence 999999999999999999999999999999 8887777654 4569999999999999999999999999999999
Q ss_pred HHHHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhccccc
Q 036525 152 KANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSF 231 (783)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~ 231 (783)
||+++||++++|+||+++.+... .+...|++++.+.. +..+++++||||+++|+|++++.....
T Consensus 232 qa~~~g~~~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~--------~~~~~~~~yDAV~~~A~Al~~~~~~~~ 295 (377)
T cd06379 232 NAGMLNMTGEGYVWIVSEQAGAA--------RNAPDGVLGLQLIN--------GKNESSHIRDAVAVLASAIQELFEKEN 295 (377)
T ss_pred HHHHcCCCCCCEEEEEecccccc--------ccCCCceEEEEECC--------CCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 99999999999999999987432 24467999988741 234678999999999999999864211
Q ss_pred CccccccCCCCcccccc-cCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEEEECCC
Q 036525 232 GFDKINVSSNATDLEAF-GISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVGFWTPE 303 (783)
Q Consensus 232 ~~~~~~~~~~~~~~~~~-~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~w~~~ 303 (783)
. +....+|... ..|.+|..|+++|++++|+|++|+++|| +|++....|+|++++ .+++.||.|++.
T Consensus 296 ~------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~~~ 364 (377)
T cd06379 296 I------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYNGD 364 (377)
T ss_pred C------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEcCc
Confidence 1 1111234332 2588999999999999999999999998 999987899999999 889999999863
No 9
>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=2.4e-34 Score=313.61 Aligned_cols=293 Identities=18% Similarity=0.231 Sum_probs=229.7
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
|+++ ||.||+||.+|..+.+++++|+.++||+|+++++. +..++|.+++.|+ ...+++++++++||++|++|
T Consensus 53 ~~~~-GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vail 124 (370)
T cd06389 53 QFSR-GVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYL 124 (370)
T ss_pred Hhhc-CcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEE
Confidence 5554 99999999999999999999999999999986652 3357777788876 58899999999999999999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceEeEEEe--cCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRVPYRSV--ISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~--i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
|+ ++||...++.|.+.+++.|++|+.... +.+...+.||+++|.+|+++++|+||+.++..++..+++||+++||+.
T Consensus 125 Yd-sd~gl~~lq~l~~~~~~~g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~ 203 (370)
T cd06389 125 YD-SDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHV 203 (370)
T ss_pred ec-CchHHHHHHHHHHhhccCCceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccc
Confidence 96 669999999999999999988875442 233344569999999999999999999999999999999999999999
Q ss_pred cceEEEEeCCcccccccCChh-hhhcccceeEeeeC---------CCC----CCc----ccccchHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPS-VIDSMQGVIDVRPY---------ENP----SLF----DAELNIIGLLAYDATRALAEA 222 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~-~~~~~~g~~~~~~~---------~~~----~~~----~~~~~~~~~~aYDAv~~la~A 222 (783)
++|+||+++.-....+..... ......|...+.+. +|. +.+ ...|+..++++|||++++|+|
T Consensus 204 ~~y~~il~~~~~~~~~l~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A 283 (370)
T cd06389 204 KGYHYIIANLGFTDGDLSKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEA 283 (370)
T ss_pred cceEEEEccCCccccchhhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHH
Confidence 999999987422222211100 11223333322221 222 133 246788999999999999999
Q ss_pred HHHhcccccCccccccCCCCcccc--cccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEE
Q 036525 223 VEKAGITSFGFDKINVSSNATDLE--AFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVG 298 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg 298 (783)
+++++.......+. .+..+|. ...+|.+|.+|+++|++++|+|+||+++|| +|++....++|++++ +|++.||
T Consensus 284 ~~~l~~~~~~~~~~---~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG 360 (370)
T cd06389 284 FRNLRKQRIEISRR---GNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIG 360 (370)
T ss_pred HHHHHHcCCCcccC---CCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEE
Confidence 99986543222111 1112443 245799999999999999999999999997 999987899999999 9999999
Q ss_pred EECCCCCCc
Q 036525 299 FWTPEKGLT 307 (783)
Q Consensus 299 ~w~~~~~~~ 307 (783)
.|++..|++
T Consensus 361 ~W~~~~~~~ 369 (370)
T cd06389 361 YWSEVDKMV 369 (370)
T ss_pred EEcCCCCcc
Confidence 999998875
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=2e-34 Score=317.29 Aligned_cols=283 Identities=21% Similarity=0.305 Sum_probs=231.0
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
++|.|||||.+|..+.++++++++++||+|+++++++.+++. .+|++|+.|++..++.+++++++++||++|++||+++
T Consensus 71 ~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~ 149 (384)
T cd06393 71 LGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDS 149 (384)
T ss_pred cCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCc
Confidence 589999999999999999999999999999999999988854 4677888888888999999999999999999999765
Q ss_pred CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEEE
Q 036525 87 QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWI 166 (783)
Q Consensus 87 ~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i 166 (783)
. |...++.|.+.+++.|++|+... ++ .++.||+++|.+|++.++++||++++..++..+++||+++||+.+.|+|+
T Consensus 150 ~-g~~~l~~~~~~~~~~g~~v~~~~-~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 150 T-GLIRLQELIMAPSRYNIRLKIRQ-LP--TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred h-hHHHHHHHHHhhhccCceEEEEE-CC--CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEE
Confidence 4 66656688888899999998643 44 34569999999999999999999999999999999999999999999999
Q ss_pred EeCCcccccccCChhhhhcccce--eEeeeC------------CCCCC-ccccc-----------chHHHHHHHHHHHHH
Q 036525 167 MTDGMTNLLRTLEPSVIDSMQGV--IDVRPY------------ENPSL-FDAEL-----------NIIGLLAYDATRALA 220 (783)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~g~--~~~~~~------------~~~~~-~~~~~-----------~~~~~~aYDAv~~la 220 (783)
.++......+. + .. ...|+ .++... +|.++ ++..| ..+++++|||++++|
T Consensus 226 ~~~~~~~~~~~-~-~~--~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a 301 (384)
T cd06393 226 FTTLDLYALDL-E-PY--RYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVS 301 (384)
T ss_pred EccCccccccc-h-hh--hcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHH
Confidence 88753322221 1 10 12333 233222 23222 33333 568999999999999
Q ss_pred HHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe--cCccccceEEEEEec-CCcEEE
Q 036525 221 EAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV--DGQLQSSAFEIINVN-NGARGV 297 (783)
Q Consensus 221 ~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd--~G~~~~~~~~I~~~~-~~~~~v 297 (783)
+|+++++... ....+|++..+|..|.+|+++|++++|+|++|+++|| .|+|.+..++|+|+. +|++.+
T Consensus 302 ~A~~~~~~~~---------~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~v 372 (384)
T cd06393 302 VCYQRAPQMT---------VNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKV 372 (384)
T ss_pred HHHhhhhhcC---------CCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceee
Confidence 9999876431 1124567777999999999999999999999999997 578889999999999 999999
Q ss_pred EEECCCCCCc
Q 036525 298 GFWTPEKGLT 307 (783)
Q Consensus 298 g~w~~~~~~~ 307 (783)
|+|+|..|++
T Consensus 373 g~W~~~~g~~ 382 (384)
T cd06393 373 GVWNPNTGLN 382 (384)
T ss_pred EEEcCCCCcC
Confidence 9999999876
No 11
>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=3.3e-34 Score=311.75 Aligned_cols=291 Identities=18% Similarity=0.224 Sum_probs=225.0
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
|++ +||.|||||.+|..+.+++++|++.+||+|+++.+ +. .++.||+...+. +..+++++++++||++|++|
T Consensus 59 ~~~-~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~----~~--~~~~f~i~~~p~-~~~a~~~~i~~~~wk~vaii 130 (371)
T cd06388 59 QYS-RGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFP----TE--GESQFVLQLRPS-LRGALLSLLDHYEWNRFVFL 130 (371)
T ss_pred HHh-CCceEEEecCCHHHHHHHHHHhhCCCCCeeecCcc----cc--CCCceEEEeChh-hhhHHHHHHHhcCceEEEEE
Confidence 455 48999999999999999999999999999998653 22 245566666555 46788888999999999999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
|+ +++|...++.|.+.+++.|++|+.....+.+ +.||+++|.+|+++++|+||+.++++.+..+++||+++||+.++
T Consensus 131 Yd-~~~~~~~lq~l~~~~~~~g~~v~~~~~~~~~--~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~ 207 (371)
T cd06388 131 YD-TDRGYSILQAIMEKAGQNGWQVSAICVENFN--DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKG 207 (371)
T ss_pred ec-CCccHHHHHHHHHhhHhcCCeeeeEEeccCC--cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccc
Confidence 94 4456677999999999999999886655433 55999999999999999999999999999999999999999999
Q ss_pred eEEEEeCCcccccccCCh-hhhhcccceeEeeeC-------------CCCCCc-c--cccchHHHHHHHHHHHHHHHHHH
Q 036525 163 CVWIMTDGMTNLLRTLEP-SVIDSMQGVIDVRPY-------------ENPSLF-D--AELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~-------------~~~~~~-~--~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
|+||+++.-....+..+. .......|+..+.+. .++..+ + ..|...++++||||+++|+|+++
T Consensus 208 y~~il~~~~~~~~~l~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~ 287 (371)
T cd06388 208 YHYIIANLGFKDISLERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRN 287 (371)
T ss_pred eEEEEccCccccccHHHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHH
Confidence 999998742221111100 011123333333221 233333 2 35788999999999999999999
Q ss_pred hcccccCccccccCCCCccc--ccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEEEEC
Q 036525 226 AGITSFGFDKINVSSNATDL--EAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVGFWT 301 (783)
Q Consensus 226 a~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~w~ 301 (783)
++.......+. +.+.+| +...+|..|.+|+++|++++|+|+||+++|+ +|++....++|+++. +|+++||+|+
T Consensus 288 l~~~~~~~~~~---~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~ 364 (371)
T cd06388 288 LRRQKIDISRR---GNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWN 364 (371)
T ss_pred HHhcCCCcccC---CCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEc
Confidence 86432211111 112244 3355799999999999999999999999997 899988899999999 9999999999
Q ss_pred CCCCCc
Q 036525 302 PEKGLT 307 (783)
Q Consensus 302 ~~~~~~ 307 (783)
+..|++
T Consensus 365 ~~~g~~ 370 (371)
T cd06388 365 DMDKLV 370 (371)
T ss_pred CCCCcc
Confidence 998875
No 12
>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=4.7e-34 Score=314.82 Aligned_cols=296 Identities=20% Similarity=0.285 Sum_probs=228.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+++ +|.|||||.+|..+.+++++++.++||+|+++++++.++ ..++|+||+.|+. ..+++++++++||++|++
T Consensus 57 ~ll~~-~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vai 131 (382)
T cd06380 57 SQLSR-GVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVY 131 (382)
T ss_pred HHHhc-CcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEE
Confidence 46755 899999999999999999999999999999999988885 4689999998853 458899999999999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCC--ceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAID--TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g--~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
||++++ |...++.+.+.+++.| ++|.... +....++.||+++|.+|++.++|+||+.++..++..+++||+++||.
T Consensus 132 i~~~~~-~~~~~~~~~~~~~~~g~~i~v~~~~-~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~ 209 (382)
T cd06380 132 LYDSDR-GLLRLQQLLDYLREKDNKWQVTARR-VDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKN 209 (382)
T ss_pred EECCCc-chHHHHHHHHHHhccCCceEEEEEE-ecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhc
Confidence 997665 6677778888999888 6665433 32222346999999999999999999999999999999999999999
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC------------CCCCCcc--------cccchHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY------------ENPSLFD--------AELNIIGLLAYDATRAL 219 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------------~~~~~~~--------~~~~~~~~~aYDAv~~l 219 (783)
.++|+||+++......+.. .......++.++... +|.+.++ ..|+.+++++|||++++
T Consensus 210 ~~~y~~i~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~ 287 (382)
T cd06380 210 RKGYHYILANLGFDDIDLS--KFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVM 287 (382)
T ss_pred ccceEEEEccCCcccccHH--HhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHH
Confidence 9999999987433222210 011111223333221 2222222 24778999999999999
Q ss_pred HHHHHHhcccccCc---cccccCCCCcccc--cccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-C
Q 036525 220 AEAVEKAGITSFGF---DKINVSSNATDLE--AFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-N 292 (783)
Q Consensus 220 a~Al~~a~~~~~~~---~~~~~~~~~~~~~--~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~ 292 (783)
|+|+++++...... ........+.+|. ....|.+|.+|+++|++++|+|++|+++|| +|++....++|++++ +
T Consensus 288 a~Al~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~ 367 (382)
T cd06380 288 AEAFRSLRRQRGSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTR 367 (382)
T ss_pred HHHHHHHHHhccccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCC
Confidence 99999997543100 0000111122332 455788999999999999999999999997 899988899999999 8
Q ss_pred CcEEEEEECCCCCC
Q 036525 293 GARGVGFWTPEKGL 306 (783)
Q Consensus 293 ~~~~vg~w~~~~~~ 306 (783)
+.+.||.|++..|+
T Consensus 368 ~~~~vg~w~~~~g~ 381 (382)
T cd06380 368 GLRKVGYWNEDDGL 381 (382)
T ss_pred CceEEEEECCCcCc
Confidence 89999999998875
No 13
>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=1.1e-33 Score=318.64 Aligned_cols=290 Identities=23% Similarity=0.309 Sum_probs=240.3
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|.|||||.+|+.+.+++++++.++||+|+++++++.+++ .++|||||+.|++..++.++++++++++|++|++|++|
T Consensus 102 ~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~ 181 (452)
T cd06362 102 KPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASE 181 (452)
T ss_pred CCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeC
Confidence 68999999999999999999999999999999999999986 47899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcChhhHHHHHHHHHHcCccccceE
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCV 164 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~ 164 (783)
++||+...+.|.+.+++.|+||+..+.++...+..|+.+++.+|++ .++|+||+.+...++..++++|++.|+. ..++
T Consensus 182 ~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~-~~~~ 260 (452)
T cd06362 182 GNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAE-GHFQ 260 (452)
T ss_pred CHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCc-CceE
Confidence 9999999999999999999999998888765567899999999987 5899999999999999999999999986 5689
Q ss_pred EEEeCCcccccccCChhhhhcccceeEeeeC-----------------CCCCC----------cc-------c-------
Q 036525 165 WIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENPSL----------FD-------A------- 203 (783)
Q Consensus 165 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~~~----------~~-------~------- 203 (783)
||++++|....... ....+..+|++++.++ .++.+ +. .
T Consensus 261 ~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c 339 (452)
T cd06362 261 WIASDGWGARNSVV-EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWFREFWEQKFNCKLTGNGSTKDNTCC 339 (452)
T ss_pred EEEeccccccchhh-cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHHHHHHHHhcCCCcCCCCccccCCCC
Confidence 99999887542221 2334667888877666 01100 00 0
Q ss_pred ----------ccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCcccccee-e
Q 036525 204 ----------ELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTG-D 272 (783)
Q Consensus 204 ----------~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G-~ 272 (783)
..+.+++++||||+++|+||+++....+... ...|... .+.+|.+|.++|++++|+|++| .
T Consensus 340 ~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------~~~c~~~-~~~~~~~l~~~l~~v~f~g~tg~~ 411 (452)
T cd06362 340 TERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------TGLCDAM-KPIDGRKLLFYLRNVSFSGLAGGP 411 (452)
T ss_pred ccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------CCCCcCc-cCCCHHHHHHHHHhCCcCCCCCce
Confidence 1234788999999999999999865432211 1123322 2568999999999999999998 8
Q ss_pred EEEe-cCccccceEEEEEec-C----CcEEEEEECCCCCCc
Q 036525 273 YIFV-DGQLQSSAFEIINVN-N----GARGVGFWTPEKGLT 307 (783)
Q Consensus 273 i~fd-~G~~~~~~~~I~~~~-~----~~~~vg~w~~~~~~~ 307 (783)
++|| +|++. ..|+|++++ + +.+.||.|.+..+++
T Consensus 412 v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~~ 451 (452)
T cd06362 412 VRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSLN 451 (452)
T ss_pred EEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEecccccC
Confidence 9998 99985 699999998 2 389999998887764
No 14
>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=1.9e-33 Score=303.58 Aligned_cols=289 Identities=17% Similarity=0.233 Sum_probs=232.8
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
|+++ ||.||+||.++..+..+..+|+..+||+|.+.-. .+...+|..++.|+ ...|+++++++|||++|++|
T Consensus 59 l~~~-GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~i 130 (372)
T cd06387 59 QFSR-GVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYL 130 (372)
T ss_pred Hhhc-ccEEEEecCCHhHHHHHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEE
Confidence 5554 9999999999999999999999999999997432 12345788899997 79999999999999999999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
| |+++|...++.+.+.++..+..|......+.. ...++...+.+|++++.++||++|.++.+..++++|.+.||+.++
T Consensus 131 Y-d~d~gl~~Lq~L~~~~~~~~~~V~~~~v~~~~-~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~ 208 (372)
T cd06387 131 Y-DTERGFSILQAIMEAAVQNNWQVTARSVGNIK-DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRG 208 (372)
T ss_pred e-cCchhHHHHHHHHHhhccCCceEEEEEeccCC-chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccc
Confidence 9 88999999999999999999998877655433 345899999999999999999999999999999999999999999
Q ss_pred eEEEEeCCcccccccCChhhhhcccceeEeeeC--------------------CCCCCcccccchHHHHHHHHHHHHHHH
Q 036525 163 CVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------------ENPSLFDAELNIIGLLAYDATRALAEA 222 (783)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------------~~~~~~~~~~~~~~~~aYDAv~~la~A 222 (783)
|+||+++......+.. +......++.|+..+ .||.....+++.+++++||||+++|+|
T Consensus 209 y~~ilt~ld~~~~dl~--~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A 286 (372)
T cd06387 209 YHYMLANLGFTDISLE--RVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEA 286 (372)
T ss_pred eEEEEecCCcccccHH--HhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHH
Confidence 9999998433222211 112222337887766 122222234568999999999999999
Q ss_pred HHHhcccccCccccccCCCCcccc--cccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEE
Q 036525 223 VEKAGITSFGFDKINVSSNATDLE--AFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVG 298 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg 298 (783)
++++........+.. ...+|. ....|..|..|+++|++++|+|+||+++|+ +|++....|+|+|+. +|++.+|
T Consensus 287 ~~~l~~~~~~~~~~~---~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG 363 (372)
T cd06387 287 FRYLRRQRVDVSRRG---SAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAG 363 (372)
T ss_pred HHHHHhcCCCcccCC---CCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEE
Confidence 999854432222111 122443 244789999999999999999999999997 799999999999999 9999999
Q ss_pred EECCCCCC
Q 036525 299 FWTPEKGL 306 (783)
Q Consensus 299 ~w~~~~~~ 306 (783)
+|++..|+
T Consensus 364 ~W~~~~g~ 371 (372)
T cd06387 364 YWNEYERF 371 (372)
T ss_pred EECCCCCc
Confidence 99999886
No 15
>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=1.6e-33 Score=318.09 Aligned_cols=286 Identities=20% Similarity=0.251 Sum_probs=231.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+++|.|||||.+|..+.+++++++.++||+|+++++++.++++ ++|||||+.|++..++.+++++++++||++|++||+
T Consensus 115 ~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~ 194 (472)
T cd06374 115 KKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHT 194 (472)
T ss_pred CCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 4589999999999999999999999999999999999999974 799999999999999999999999999999999999
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCc--eEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQT--RVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~--dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
|++||+..++.|.+.+++.|+||+..+.++...+..|+.++|.+|+++++ +||++++...++..++++|+++|+. .+
T Consensus 195 ~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~ 273 (472)
T cd06374 195 EGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GE 273 (472)
T ss_pred cchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCC-Cc
Confidence 99999999999999999999999998887655566799999999997655 4666667777899999999999984 55
Q ss_pred eEEEEeCCcccccccCChhhhhcccceeEeeeC-----------------CCCCC------------------ccc----
Q 036525 163 CVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENPSL------------------FDA---- 203 (783)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~~~------------------~~~---- 203 (783)
++||++++|........ ...+..+|++++.++ .++.. ...
T Consensus 274 ~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~~~~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~ 352 (472)
T cd06374 274 FQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPEVPSFDDYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNY 352 (472)
T ss_pred eEEEEecccccchHhhh-cchhhhheeEEEEecCCCCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCcc
Confidence 89999999875322222 345677899888655 00000 000
Q ss_pred --------------ccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccc
Q 036525 204 --------------ELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGL 269 (783)
Q Consensus 204 --------------~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~ 269 (783)
....++.++|||||++|+||+++....+.. ....|... ...+|.+|+++|++++|+|+
T Consensus 353 ~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~-------~~~~c~~~-~~~~~~~l~~~l~~v~F~g~ 424 (472)
T cd06374 353 IKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG-------HVGLCDAM-KPIDGRKLLEYLLKTSFSGV 424 (472)
T ss_pred CCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-------CCCCCcCC-CCCCHHHHHHHHHhCcccCC
Confidence 001345689999999999999986443211 01123322 23578999999999999999
Q ss_pred ee-eEEEe-cCccccceEEEEEec-C-----CcEEEEEECC
Q 036525 270 TG-DYIFV-DGQLQSSAFEIINVN-N-----GARGVGFWTP 302 (783)
Q Consensus 270 ~G-~i~fd-~G~~~~~~~~I~~~~-~-----~~~~vg~w~~ 302 (783)
+| ++.|| +|++. ..|+|+|++ . +++.||.|.+
T Consensus 425 tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 425 SGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 99 79998 99986 689999998 2 2799999974
No 16
>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=2.8e-33 Score=313.45 Aligned_cols=284 Identities=20% Similarity=0.287 Sum_probs=234.7
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
.++|.|||||.+|..+.+++++++.++||+|+++++++.+++ .++|||||+.|+|..|+.+++++++++||++|++||+
T Consensus 103 ~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~ 182 (458)
T cd06375 103 PLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVAS 182 (458)
T ss_pred CCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEe
Confidence 458999999999999999999999999999999999999997 4799999999999999999999999999999999999
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
|++||+..++.|.+++++.|+||+..+.++...++.|+.+++.+|++ .++||||+.+...++..++++|+++|+. +
T Consensus 183 ~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~---~ 259 (458)
T cd06375 183 EGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNAS---F 259 (458)
T ss_pred CchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCc---E
Confidence 99999999999999999999999998888776667799999999875 6999999999999999999999999984 7
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeC-----------------CCCCC----------cc--------------
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENPSL----------FD-------------- 202 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~~~----------~~-------------- 202 (783)
.||++++|........ ...+.++|++++.+. .++.+ ++
T Consensus 260 ~wigs~~~~~~~~~~~-~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~ 338 (458)
T cd06375 260 TWVASDGWGAQESIVK-GSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQNRDCANTTTN 338 (458)
T ss_pred EEEEeccccccchhhh-ccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCCCCCccCCCCC
Confidence 8999999974322221 234678999999887 11100 00
Q ss_pred ----------cccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHH-HHHHcCccc----
Q 036525 203 ----------AELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLL-QALSSTRFK---- 267 (783)
Q Consensus 203 ----------~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~-~aL~~~~f~---- 267 (783)
........+.||||+++|+||+++....+... ...|..+. ..++.+|+ +.|++++|.
T Consensus 339 ~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~-------~~~c~~~~-~~~~~~l~~~~L~~v~F~~~~~ 410 (458)
T cd06375 339 DKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT-------TKLCDAMK-PLDGKKLYKEYLLNVSFTAPFR 410 (458)
T ss_pred chhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC-------CCCCCCCC-CCCHHHHHHHHHHhcccccccc
Confidence 01134688899999999999999875433211 12233321 23688999 599999999
Q ss_pred -ccee-eEEEe-cCccccceEEEEEec---CC----cEEEEEECC
Q 036525 268 -GLTG-DYIFV-DGQLQSSAFEIINVN---NG----ARGVGFWTP 302 (783)
Q Consensus 268 -g~~G-~i~fd-~G~~~~~~~~I~~~~---~~----~~~vg~w~~ 302 (783)
|.+| ++.|| +|+.. ..|+|+|++ ++ .+.||.|..
T Consensus 411 ~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 411 PDLADSEVKFDSQGDGL-GRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCeeEECCCCCCC-cceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 8988 79998 99974 799999998 22 578999953
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=2.7e-33 Score=315.68 Aligned_cols=285 Identities=22% Similarity=0.330 Sum_probs=233.3
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..+|||||+.|++..|+.+++++++++||++|++||.|
T Consensus 102 ~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~ 181 (463)
T cd06376 102 EKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLASE 181 (463)
T ss_pred CCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEEeC
Confidence 58999999999999999999999999999999999999986 46899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 86 NQYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
++||+..++.|.+++++.| ++|+....++...++.||.++|.+|++ .++|+||+.+...++..++++|+++|+.+ .|
T Consensus 182 ~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g-~~ 260 (463)
T cd06376 182 GNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVG-HF 260 (463)
T ss_pred ChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcC-ce
Confidence 9999999999999999974 688776667666677899999999986 79999999999999999999999999854 59
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeC-----------------CCCC----------Cc-------cc------
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENPS----------LF-------DA------ 203 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~~----------~~-------~~------ 203 (783)
+||++++|........ ...+.+.|++++.+. .++. .+ ..
T Consensus 261 ~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~ 339 (463)
T cd06376 261 LWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVWFAEFWEENFNCKLTISGSKKEDTD 339 (463)
T ss_pred EEEEeccccccccccc-cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcHHHHHHHHhCCCcccCCCCcccccc
Confidence 9999999875432221 123567899888665 1110 00 00
Q ss_pred ---------------ccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCcccc
Q 036525 204 ---------------ELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKG 268 (783)
Q Consensus 204 ---------------~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g 268 (783)
.....++++||||+++|+||+++....+. . ....|... .+.+|.+|+++|++++|+|
T Consensus 340 ~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~-~------~~~~C~~~-~~~~~~~l~~~L~~v~F~g 411 (463)
T cd06376 340 RKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCP-G------YTGVCPEM-EPADGKKLLKYIRAVNFNG 411 (463)
T ss_pred CcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCC-C------CCCCCccC-CCCCHHHHHHHHHhCCccC
Confidence 00126789999999999999998644321 0 01233332 2567999999999999999
Q ss_pred cee-eEEEe-cCccccceEEEEEec-C-----CcEEEEEECC
Q 036525 269 LTG-DYIFV-DGQLQSSAFEIINVN-N-----GARGVGFWTP 302 (783)
Q Consensus 269 ~~G-~i~fd-~G~~~~~~~~I~~~~-~-----~~~~vg~w~~ 302 (783)
++| .++|| +|++. ..|+|++++ . +.+.||.|.+
T Consensus 412 ~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 412 SAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred CCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 999 79998 99975 579999998 2 2799999975
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=3.5e-33 Score=313.92 Aligned_cols=286 Identities=16% Similarity=0.197 Sum_probs=230.9
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|+|+|||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+.|+++++++|||++|++|+.|
T Consensus 102 ~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d 181 (469)
T cd06365 102 RKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVISD 181 (469)
T ss_pred CceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEEec
Confidence 58999999999999999999999999999999999999997 47899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCCh--hHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATD--DQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~--~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
++||+..++.|.+++++.|+||+..+.++....+ .++...+.+|+++++|+||+++...++..++.++.+.+ ..++
T Consensus 182 ~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~--~~~~ 259 (469)
T cd06365 182 DDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYL--LIGK 259 (469)
T ss_pred ChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhc--cCce
Confidence 9999999999999999999999999988766543 38899999999999999999999888866654444444 2568
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeC-----------------CCCC------------------C------cc
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENPS------------------L------FD 202 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~~------------------~------~~ 202 (783)
+||++++|....... ....+.++|++++.++ .++. . ..
T Consensus 260 ~wi~s~~w~~~~~~~-~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~~efwe~~f~c~~~~~~~~~~~~c 338 (469)
T cd06365 260 VWITTSQWDVTTSPK-DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFLEKLWWIYFNCSLSKSSCKTLKNC 338 (469)
T ss_pred EEEeecccccccccc-ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHHHhhHhHhcCcccCcCCccccCCC
Confidence 999999987543222 2345789999999987 1110 0 00
Q ss_pred -------c------c--cchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccc
Q 036525 203 -------A------E--LNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFK 267 (783)
Q Consensus 203 -------~------~--~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~ 267 (783)
. + ....+.+.||||+++|+||+++........+ ..+|.. ...++.+|++.|++++|.
T Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~------~~~~~~--~~~~~~~l~~~l~~v~F~ 410 (469)
T cd06365 339 LSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQS------ENNGKR--LIFLPWQLHSFLKNIQFK 410 (469)
T ss_pred CCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCC------cCCCCC--CCccHHHHHHHHHhcccc
Confidence 0 0 1235688999999999999998865332110 012211 234688999999999999
Q ss_pred ccee-eEEEe-cCccccceEEEEEec-C--C---cEEEEEECCCC
Q 036525 268 GLTG-DYIFV-DGQLQSSAFEIINVN-N--G---ARGVGFWTPEK 304 (783)
Q Consensus 268 g~~G-~i~fd-~G~~~~~~~~I~~~~-~--~---~~~vg~w~~~~ 304 (783)
|.+| ++.|| +||.. ..|+|+|++ . + .+.||.|.+..
T Consensus 411 ~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~VG~~~~~~ 454 (469)
T cd06365 411 NPAGDEVNLNQKRKLD-TEYDILNYWNFPQGLGLKVKVGEFSPQA 454 (469)
T ss_pred CCCCCEEEecCCCCcC-ceeeEEEEEECCCCCEEEEEEEEEeCCC
Confidence 9998 59998 99974 799999997 2 2 68999997643
No 19
>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=3.3e-33 Score=302.59 Aligned_cols=288 Identities=18% Similarity=0.280 Sum_probs=220.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeecc-----------CCCCCCCCCCCeEEEeecCchhhHHHHHHH
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSA-----------TSPSLTSIRSPYFFRGALNDSSQVGAITAI 70 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a-----------~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~ 70 (783)
+|+ +.+|.|||||.++..+..++.+|+..+||+|++++ +.|.++..+|+++.| |+ ..+.+|++++
T Consensus 57 ~l~-~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lr--p~-~~~~~Ai~dl 132 (400)
T cd06392 57 DLM-TQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAAR--PP-VRLNDVMLKL 132 (400)
T ss_pred HHH-hcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEec--Cc-hHHHHHHHHH
Confidence 467 45999999999999999999999999999999866 334444444555544 54 4678899999
Q ss_pred HHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHH--------HHHhccCceEEEEEcC
Q 036525 71 IKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKEL--------YKLFTMQTRVFIVHKL 142 (783)
Q Consensus 71 l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l--------~~l~~~~~dvii~~~~ 142 (783)
+++|+|++|++|| |++||...++.+.+++.+.+.+|.+... ..+ .+.++.+.+ .+++... ++||++++
T Consensus 133 V~~~~W~~v~~iY-D~d~gl~~lq~L~~~~~~~~~~I~~~~v-~~~-~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s 208 (400)
T cd06392 133 VTELRWQKFIVFY-DSEYDIRGLQSFLDQASRLGLDVSLQKV-DRN-ISRVFTNLFTTMKTEELNRYRDTL-RRAILLLS 208 (400)
T ss_pred HHhCCCcEEEEEE-ECcccHHHHHHHHHHHhhcCceEEEEEc-ccC-cchhhhhHHHHHHHhhhhhccccc-eEEEEEcC
Confidence 9999999999999 8999999999999999999999986652 211 111344444 4444334 89999999
Q ss_pred hhhHHHHHHHHHHcCccccceEEEEeCCcccccccCChhhhhcccceeE----eeeC----C-CC-------CC------
Q 036525 143 PSLGSRIFEKANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVID----VRPY----E-NP-------SL------ 200 (783)
Q Consensus 143 ~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~----~~~~----~-~~-------~~------ 200 (783)
++.+..+++||+++||+..+|+||+++......+ ..+...|.++ +..+ . .. .+
T Consensus 209 ~~~~~~il~qA~~lgM~~~~y~wI~t~~~~~~~d-----l~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~ 283 (400)
T cd06392 209 PRGAQTFINEAVETNLASKDSHWVFVNEEISDTE-----ILELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLC 283 (400)
T ss_pred cHHHHHHHHHHHHhCcccCCeEEEEecCCccccc-----HHHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhc
Confidence 9999999999999999999999999997665332 2344555554 5443 0 00 00
Q ss_pred -----cccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCccc--ccccCCCChHHHHHHHHcCccccceeeE
Q 036525 201 -----FDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDL--EAFGISQNGPKLLQALSSTRFKGLTGDY 273 (783)
Q Consensus 201 -----~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~aL~~~~f~g~~G~i 273 (783)
....++.+++++|||||++|+|+++....... ......+| +...+|..|..|+++|++++|+|+||++
T Consensus 284 ~~~~~~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~-----~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I 358 (400)
T cd06392 284 DPQEGYLQMLQVSNLYLYDSVLMLANAFHRKLEDRKW-----HSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVM 358 (400)
T ss_pred ccccccccccchhHHHHHHHHHHHHHHHHHHhhcccc-----CCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccce
Confidence 00136789999999999999999975321111 11112455 4577899999999999999999999999
Q ss_pred EEe-cCccccceEEEEEec-C---C--cEEEEEECCCCCCc
Q 036525 274 IFV-DGQLQSSAFEIINVN-N---G--ARGVGFWTPEKGLT 307 (783)
Q Consensus 274 ~fd-~G~~~~~~~~I~~~~-~---~--~~~vg~w~~~~~~~ 307 (783)
+|+ +|++....|+|+|++ + | .+++|+|++.+|++
T Consensus 359 ~F~~~G~r~~~~ldIi~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 359 EFKEDGANPHVQFEILGTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred eECCCCCCcCCceEEEeccccccCCCCceEeEEecCCCCCC
Confidence 997 899999999999965 3 4 99999999998875
No 20
>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=3.5e-33 Score=307.30 Aligned_cols=277 Identities=16% Similarity=0.202 Sum_probs=229.9
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC--CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS--IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+++|.|||||.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||
T Consensus 65 ~~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy 144 (387)
T cd06386 65 ARKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVY 144 (387)
T ss_pred hhCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEE
Confidence 359999999999999999999999999999999999999976 368889999999999999999999999999999999
Q ss_pred EeCCcCCcc---hHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 84 VDNQYGEAM---IPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~d~~~G~~~---~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++++||++. ++.|.+.+++.|++|+.....+ .++.|+..+|.++++.+ |+||+++...++..++++|+++||+.
T Consensus 145 ~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~ 221 (387)
T cd06386 145 EDDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTS 221 (387)
T ss_pred EcCCCCccceehHHHHHHHHHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCC
Confidence 999999886 9999999999999998766543 33458999999999888 99999999999999999999999999
Q ss_pred cceEEEEeCCcc-ccc--------ccCC---hhhhhcccceeEeeeC---------CCC---CCc-----ccccchHHHH
Q 036525 161 KGCVWIMTDGMT-NLL--------RTLE---PSVIDSMQGVIDVRPY---------ENP---SLF-----DAELNIIGLL 211 (783)
Q Consensus 161 ~~~~~i~~~~~~-~~~--------~~~~---~~~~~~~~g~~~~~~~---------~~~---~~~-----~~~~~~~~~~ 211 (783)
.+|+||..+... ... +..+ ....+.++|+.++.++ ++. +++ ...++.++++
T Consensus 222 ~~yv~i~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~ 301 (387)
T cd06386 222 GDYIFFNIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEG 301 (387)
T ss_pred CCEEEEEEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHH
Confidence 999999997543 000 1122 2344567777766665 111 111 1234588999
Q ss_pred HHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEe
Q 036525 212 AYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINV 290 (783)
Q Consensus 212 aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~ 290 (783)
+|||++++|+|++++..... .+.+|.+|+++|++++|+|++|.+.|| +|++. ..|.|+.+
T Consensus 302 ~yDav~l~A~Al~~~~~~g~------------------~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~ 362 (387)
T cd06386 302 FHDAILLYALALHEVLKNGY------------------SKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAM 362 (387)
T ss_pred HHHHHHHHHHHHHHHhhCCC------------------CCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEc
Confidence 99999999999999853310 134799999999999999999999998 89985 69999999
Q ss_pred c----CCcEEEEEECCCC
Q 036525 291 N----NGARGVGFWTPEK 304 (783)
Q Consensus 291 ~----~~~~~vg~w~~~~ 304 (783)
+ .+++.||.|...+
T Consensus 363 ~~~~~~~~~~~~~~~~~~ 380 (387)
T cd06386 363 TDVEAGTYEVVGNYFGKN 380 (387)
T ss_pred cCCCCccEEEEeEEcccc
Confidence 6 3489999997543
No 21
>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=4.7e-32 Score=306.78 Aligned_cols=289 Identities=19% Similarity=0.265 Sum_probs=235.3
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
.+|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+++++++++++||++|++|+.|
T Consensus 117 ~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~d 196 (510)
T cd06364 117 PSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAAD 196 (510)
T ss_pred CceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEec
Confidence 35789999999999999999999999999999999999987 57999999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEE
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVW 165 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~ 165 (783)
++||+..++.|++++++.|+||+..+.++...+..|+.+++.+|+++++||||+.+...++..++++|+++|+. +++|
T Consensus 197 d~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g~~--~~iw 274 (510)
T cd06364 197 DDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRNIT--GKIW 274 (510)
T ss_pred CcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhCCC--CcEE
Confidence 99999999999999999999999988877544667999999999999999999999999999999999999974 5799
Q ss_pred EEeCCcccccccCChhhhhcccceeEeeeC-----------------CCC------------------C---C-------
Q 036525 166 IMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------------ENP------------------S---L------- 200 (783)
Q Consensus 166 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------~~~------------------~---~------- 200 (783)
|++++|............+.+.|++++.+. +++ . .
T Consensus 275 I~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~ 354 (510)
T cd06364 275 LASEAWASSSLIAMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTF 354 (510)
T ss_pred EEEchhhcccccccCCccceeeEEEEEEECCCcCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCCCCCcccccccccc
Confidence 999988754433333445678888888776 111 0 0
Q ss_pred ----------------cc---------c-c--------cchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccc
Q 036525 201 ----------------FD---------A-E--------LNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLE 246 (783)
Q Consensus 201 ----------------~~---------~-~--------~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~ 246 (783)
.. . . ...++.+.||||+++|+||+++.....+.... .. ..|.
T Consensus 355 ~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~AVyAvAhaLh~~~~c~~~~~~~-~~---~~c~ 430 (510)
T cd06364 355 LGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYLAVYSIAHALQDIYTCTPGKGLF-TN---GSCA 430 (510)
T ss_pred cccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCc-cC---CCCC
Confidence 00 0 0 12346789999999999999987543211100 00 1233
Q ss_pred cccCCCChHHHHHHHHcCcccccee-eEEEe-cCccccceEEEEEec--C-C----cEEEEEECCC
Q 036525 247 AFGISQNGPKLLQALSSTRFKGLTG-DYIFV-DGQLQSSAFEIINVN--N-G----ARGVGFWTPE 303 (783)
Q Consensus 247 ~~~~~~~g~~l~~aL~~~~f~g~~G-~i~fd-~G~~~~~~~~I~~~~--~-~----~~~vg~w~~~ 303 (783)
... ..++.+|++.|++++|.|.+| .+.|| +|+.. ..|+|+|++ . + .+.||.|.+.
T Consensus 431 ~~~-~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~-~~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 431 DIK-KVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLV-GNYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred CCC-CCCHHHHHHHHHhcEEecCCCCEEEEecCCCCc-cceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 211 236889999999999999987 79998 99974 799999998 2 2 6799999764
No 22
>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=7.8e-32 Score=294.93 Aligned_cols=294 Identities=18% Similarity=0.249 Sum_probs=227.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEee----ccCC-----CCCCC--CCCCeEEEeecCchhhHHHHHHH
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSF----SATS-----PSLTS--IRSPYFFRGALNDSSQVGAITAI 70 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~----~a~s-----~~ls~--~~~~~~fr~~p~~~~~~~ai~~~ 70 (783)
+|+ +.+|.|||||.++..+..++.+|+.++||+|++ ++++ +.+++ .+||+++| |+ ..++.+++++
T Consensus 57 ~l~-~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~l 132 (400)
T cd06391 57 ELM-NQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRV 132 (400)
T ss_pred HHH-hCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHH
Confidence 466 458999999988888899999999999999985 4433 33443 45777777 43 6789999999
Q ss_pred HHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCCh---hHHHH-HHHHHhc--cCceEEEEEcChh
Q 036525 71 IKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATD---DQIEK-ELYKLFT--MQTRVFIVHKLPS 144 (783)
Q Consensus 71 l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~---~d~~~-~l~~l~~--~~~dvii~~~~~~ 144 (783)
+++|+|++|+++ .|++||...++.+.+.+++.|+||..... .....+ ..+.. .+.+|++ .+.++||+++...
T Consensus 133 i~~f~W~~v~i~-~d~~~~~~~l~~l~~~~~~~~i~I~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~ 210 (400)
T cd06391 133 VTEYAWQKFIIF-YDTDYDIRGIQEFLDKVSQQGMDVALQKV-ENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPA 210 (400)
T ss_pred HHHcCCcEEEEE-EeCCccHHHHHHHHHHHHHcCCeEEEEec-CcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcH
Confidence 999999999875 57888999999999999999999987543 211110 12322 4456665 6779999999999
Q ss_pred hHHHHHHHHHHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeC----------------CCCCCc-------
Q 036525 145 LGSRIFEKANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY----------------ENPSLF------- 201 (783)
Q Consensus 145 ~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~----------------~~~~~~------- 201 (783)
.+..++++|+++||++++|+||++++.....+.. ....+.+.|+.++.++ .++...
T Consensus 211 ~~~~ll~~a~~~gm~~~~y~wi~t~~~~~~~dl~-~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 289 (400)
T cd06391 211 TAKSFITEVVETNLVAFDCHWIIINEEISDMDVQ-ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPF 289 (400)
T ss_pred HHHHHHHHHHHcCCCCCCeEEEEeCccccccccc-hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccc
Confidence 9999999999999999999999999887766653 3334566788888865 111111
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccc--cccCCCChHHHHHHHHcCccccceeeEEEe-cC
Q 036525 202 DAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLE--AFGISQNGPKLLQALSSTRFKGLTGDYIFV-DG 278 (783)
Q Consensus 202 ~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G 278 (783)
...++.+++++|||||++|+|++++........ ....+|. ...+|..|..|+++|++++|+|+||+++|+ +|
T Consensus 290 ~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~-----~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g 364 (400)
T cd06391 290 AQMMEISNLYIYDTVLLLANAFHKKLEDRKWHS-----MASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENG 364 (400)
T ss_pred cccccchhhHHHHHHHHHHHHHHHHHhhccccC-----CCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCC
Confidence 013568999999999999999998753211111 1112332 345899999999999999999999999997 79
Q ss_pred ccccceEEEEEe-----c-CCcEEEEEECCCCCCc
Q 036525 279 QLQSSAFEIINV-----N-NGARGVGFWTPEKGLT 307 (783)
Q Consensus 279 ~~~~~~~~I~~~-----~-~~~~~vg~w~~~~~~~ 307 (783)
++....|+|+|+ . +|.++||+|++..|++
T Consensus 365 ~r~~~~~dIin~~~~~~~~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 365 GNPNVHFEILGTNYGEDLGRGVRKLGCWNPITGLN 399 (400)
T ss_pred CccCCceEEEEeeccccCCCcceEEEEEcCCcCCC
Confidence 999999999999 3 6799999999998875
No 23
>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=6e-32 Score=300.24 Aligned_cols=283 Identities=18% Similarity=0.248 Sum_probs=227.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+++|.|||||.+|..+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|++
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~ 184 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGS 184 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 479999999999999999999999999999999999999986 4789999999999999999999999999999999999
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCC-CChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~-~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
|++||++..+.+.+.+++.|++++..+.++.. .++.|+.++|.+|++++||+|++.+.+.++..+++||+++|+. +.
T Consensus 185 ~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~--~~ 262 (410)
T cd06363 185 DDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLT--GK 262 (410)
T ss_pred CChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCC--CC
Confidence 99999999999999999999999998887653 2457999999999999999999999999999999999999984 34
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeCCCCCC-cccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCC
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSL-FDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNA 242 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~ 242 (783)
+||++++|............+...+++++.....+.. +..-...+++.+||||+++|+|++++.....
T Consensus 263 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~YDaV~~~a~Al~~a~~~~~----------- 331 (410)
T cd06363 263 VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVTIPGFSDFIYSFAFSVYAAVYAVAHALHNVLQCGS----------- 331 (410)
T ss_pred EEEEeCcccccccccCCccceeeccEEEEEeCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-----------
Confidence 7999887753221111111234455666644311111 1111112667899999999999999854311
Q ss_pred cccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-C----CcEEEEEECCC
Q 036525 243 TDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-N----GARGVGFWTPE 303 (783)
Q Consensus 243 ~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~----~~~~vg~w~~~ 303 (783)
..|+. ..+.++++|+++|++++|+|++|+++|| +|++. ..+.|++++ + +.+.||.|.+.
T Consensus 332 ~~~~~-~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~-~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 332 GGCPK-RVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPN-FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCCC-CCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCc-cceEEEEEEEcCCceeEEEEEEEECC
Confidence 11111 0123678999999999999999999998 89964 689999996 3 38999999874
No 24
>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=1e-31 Score=294.97 Aligned_cols=270 Identities=17% Similarity=0.202 Sum_probs=220.7
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+++|.+||||.||..+.++++++++++||+|+++++++.+++ ..||+|+|+.|++ +.+++.++++++|++|++|++
T Consensus 64 ~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~ 140 (382)
T cd06371 64 EGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSS 140 (382)
T ss_pred cCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEe
Confidence 468999999999999999999999999999999999999996 5789999999876 566888999999999999999
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC-ceEEEEEcCh-----hhHHHHHHHHHHcCc
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFIVHKLP-----SLGSRIFEKANEIGL 158 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~-~dvii~~~~~-----~~~~~~~~~a~~~g~ 158 (783)
+++||++..+.+.+.+++.|++|+....++. ++.|++++|.+||+.+ +|+||++++. .+...+++||+++||
T Consensus 141 ~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~--~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm 218 (382)
T cd06371 141 PQDIWVETAQKLASALRAHGLPVGLVTSMGP--DEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGM 218 (382)
T ss_pred cccchHHHHHHHHHHHHHCCCcEEEEEEecC--CHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCC
Confidence 9999999999999999999999998777764 4569999999999988 6999998876 678899999999999
Q ss_pred cccceEEEEeCCccccc-------cc--CChhhhhcccceeEeeeC--------CCCCCc-------ccc---cchHHHH
Q 036525 159 MNKGCVWIMTDGMTNLL-------RT--LEPSVIDSMQGVIDVRPY--------ENPSLF-------DAE---LNIIGLL 211 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~-------~~--~~~~~~~~~~g~~~~~~~--------~~~~~~-------~~~---~~~~~~~ 211 (783)
+..+|+||++++..... .. .+....++.++++.+.++ .|.+.+ +.+ ++.++++
T Consensus 219 ~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 298 (382)
T cd06371 219 TDGRYVFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGT 298 (382)
T ss_pred cCCcEEEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHH
Confidence 99999999998543111 00 122333567887777654 111111 112 2356678
Q ss_pred HHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEe
Q 036525 212 AYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINV 290 (783)
Q Consensus 212 aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~ 290 (783)
+|||++++|+|+++++.... ..++.+|+++|++++|+|++|+++|| +|++ .+.|.|+++
T Consensus 299 ~YDav~~~a~Al~~a~~~g~-------------------~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~ 358 (382)
T cd06371 299 IYNSIYLLAHAVENARAAGG-------------------GVSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDT 358 (382)
T ss_pred HHHHHHHHHHHHHHHHHhCC-------------------CccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEec
Confidence 99999999999999975411 12689999999999999999999998 8886 599999999
Q ss_pred c-CCcEEEEEE
Q 036525 291 N-NGARGVGFW 300 (783)
Q Consensus 291 ~-~~~~~vg~w 300 (783)
. +|+|.+-.+
T Consensus 359 ~~~~~~~~~~~ 369 (382)
T cd06371 359 DGKGDQLYPTY 369 (382)
T ss_pred CCCCCeeeeeE
Confidence 9 776655443
No 25
>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=7.2e-32 Score=294.00 Aligned_cols=262 Identities=45% Similarity=0.757 Sum_probs=223.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++++++++++||+|+++++++.+++ .++||+||+.|++..++.+++++++++||++|+
T Consensus 60 ~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ 139 (350)
T cd06366 60 DLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVA 139 (350)
T ss_pred HHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEE
Confidence 5788889999999999999999999999999999999999999854 578999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+|+.|++||+...+.+.+.+++.|++|+....++.+.+..|+.+++.+|++++||+|++++...++..+++|++++|+..
T Consensus 140 ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~ 219 (350)
T cd06366 140 TIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMG 219 (350)
T ss_pred EEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcC
Confidence 99999999999999999999999999999988876543579999999999999999999999999999999999999988
Q ss_pred cceEEEEeCCccccc----ccCChhhhhcccceeEeeeCCC-------------CCCccc------ccchHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLL----RTLEPSVIDSMQGVIDVRPYEN-------------PSLFDA------ELNIIGLLAYDATR 217 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~----~~~~~~~~~~~~g~~~~~~~~~-------------~~~~~~------~~~~~~~~aYDAv~ 217 (783)
++|+||+++.+.... ........+..+|++++.++.. .++++. .|+.+++.+|||++
T Consensus 220 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~ 299 (350)
T cd06366 220 KGYVWILTDWLSSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVW 299 (350)
T ss_pred CCEEEEECcchhhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhhee
Confidence 889999998765432 2233345577899999887511 111222 24455555555555
Q ss_pred HHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcE
Q 036525 218 ALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGAR 295 (783)
Q Consensus 218 ~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~ 295 (783)
+ +++|+|++|+++|| +|++....|+++++. ++++
T Consensus 300 ~--------------------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~ 335 (350)
T cd06366 300 A--------------------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYR 335 (350)
T ss_pred e--------------------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceE
Confidence 5 45799999999998 888878999999999 8899
Q ss_pred EEEEECCCCCCc
Q 036525 296 GVGFWTPEKGLT 307 (783)
Q Consensus 296 ~vg~w~~~~~~~ 307 (783)
.||.|++.+++.
T Consensus 336 ~vg~~~~~~~~~ 347 (350)
T cd06366 336 KIGFWSSESGLS 347 (350)
T ss_pred EEEEEeCCCCcc
Confidence 999999987764
No 26
>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=99.98 E-value=3.7e-31 Score=293.87 Aligned_cols=277 Identities=18% Similarity=0.199 Sum_probs=222.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE-EEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV-PIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va-ii~ 83 (783)
+++|.+||||.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.+++++++++||++++ ++|
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~ 151 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIY 151 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEE
Confidence 468999999999999999999999999999999999999987 579999999999999999999999999999998 456
Q ss_pred EeCC-cCCc---chHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQ-YGEA---MIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~-~G~~---~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.++. +|+. .++.+.+.+++.|++|+..+..+ .+..|+.++|.+|++.. |+||++++..++..++++|+++||.
T Consensus 152 ~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~ 228 (405)
T cd06385 152 SDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEE--DDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLP 228 (405)
T ss_pred ecCcccccchHHHHHHHHHHHHhCCeEEEEeeccC--CchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCC
Confidence 5444 3344 46889999999999998876432 23569999999998755 9999999999999999999999999
Q ss_pred ccceEEEEeCCcccccc------------cCChhhhhcccceeEeeeC------------CCCC----Cccc-----ccc
Q 036525 160 NKGCVWIMTDGMTNLLR------------TLEPSVIDSMQGVIDVRPY------------ENPS----LFDA-----ELN 206 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~------------~~~~~~~~~~~g~~~~~~~------------~~~~----~~~~-----~~~ 206 (783)
.+.|+||+++.+..... ..+....+++++++....+ +|.+ .++. .|+
T Consensus 229 ~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 308 (405)
T cd06385 229 SEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMN 308 (405)
T ss_pred CCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHH
Confidence 99999999876432211 1112334567888766443 1111 1322 166
Q ss_pred hHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceE
Q 036525 207 IIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAF 285 (783)
Q Consensus 207 ~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~ 285 (783)
.+++++|||++++|+|++++.... +.+.+|++|+++|++++|+|++|.++|| +|++. ..|
T Consensus 309 ~~aa~~YDav~l~a~Al~~~~~~~------------------~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~ 369 (405)
T cd06385 309 IIAGGFYDGVMLYAHALNETMAKG------------------GTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDF 369 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC------------------CCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-cee
Confidence 899999999999999999984321 0123689999999999999999999998 89985 789
Q ss_pred EEEEec----CCcEEEEEECCCC
Q 036525 286 EIINVN----NGARGVGFWTPEK 304 (783)
Q Consensus 286 ~I~~~~----~~~~~vg~w~~~~ 304 (783)
.|++++ +.+..+|.|...+
T Consensus 370 ~~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 370 ALWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEEccCCCCCcEEEEEEEcccC
Confidence 888774 4589999998644
No 27
>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=99.98 E-value=9.1e-31 Score=283.00 Aligned_cols=284 Identities=15% Similarity=0.175 Sum_probs=224.1
Q ss_pred cccccCCeEEEE-ccCCch--hHHHHHcccCCCCccEEeeccCCC-CCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCC
Q 036525 2 DLLNNAQVRVML-GPEDSM--PTNFIIQPGNKSQVPILSFSATSP-SLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGW 76 (783)
Q Consensus 2 ~Li~~~~V~aiI-Gp~~S~--~~~av~~~~~~~~vP~Is~~a~s~-~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw 76 (783)
+|+.+.+|.|+| ||.++. .+..+..++++++||+|++++.++ .+++ ..+|||+|+.|++..|+.|+++++++|+|
T Consensus 56 ~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W 135 (362)
T cd06378 56 DLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDW 135 (362)
T ss_pred HHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCC
Confidence 467777899866 999987 456777788889999999987665 5555 57999999999999999999999999999
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCCh-hHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATD-DQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~-~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
++|++||++++.+..+...+++.+++.++|+.....++...+. .++...+.++++.++++||++++..++..++++|++
T Consensus 136 ~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s~~~a~~if~~A~~ 215 (362)
T cd06378 136 HAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCSKEEAEYIFRAARS 215 (362)
T ss_pred eEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECCHHHHHHHHHHHHH
Confidence 9999999999888888888888887777766554444433332 247788999999999999999999999999999999
Q ss_pred cCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccc
Q 036525 156 IGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDK 235 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~ 235 (783)
+||++++|+||+++........ ...+...|++++....+. ..+.+..||||+++|+|++........
T Consensus 216 ~gm~g~~yvWI~t~~~~~~~~~---~~~~~~~G~i~v~~~~w~-------~~~~a~~~DaV~vva~Al~~l~~~~~~--- 282 (362)
T cd06378 216 AGLTGPGYVWIVPSLVLGNTDL---GPSEFPVGLISVSYDGWR-------YSLRARVRDGVAIIATGASAMLRQHGF--- 282 (362)
T ss_pred cCCcCCCeEEEecccccCCCcc---ccccCCcceEeecccccc-------ccHHHHHHHHHHHHHHHHHHHHhccCC---
Confidence 9999999999999976654211 112455788877642221 124778899999999999977532111
Q ss_pred cccCCCCccccc-cc-CCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-C-CcEEEEEECC
Q 036525 236 INVSSNATDLEA-FG-ISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-N-GARGVGFWTP 302 (783)
Q Consensus 236 ~~~~~~~~~~~~-~~-~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~-~~~~vg~w~~ 302 (783)
.+....+|.. .. .|..|..|+++|++++|+|+ +++|+ +|++.++.|+|+++. + ||++||.|+.
T Consensus 283 --~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~ 350 (362)
T cd06378 283 --IPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEEVGKWEN 350 (362)
T ss_pred --CCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceEEEEEcC
Confidence 1112234432 22 48899999999999999996 99997 899999999999999 4 8999999983
No 28
>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=99.98 E-value=5.5e-31 Score=291.21 Aligned_cols=282 Identities=13% Similarity=0.205 Sum_probs=221.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+++.+++|.|||||.||..+.+++++++.++||+|+++++++.+++ ..+|+++|+.|++..++.+++++++++||++|+
T Consensus 62 ~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~va 141 (391)
T cd06372 62 DQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIG 141 (391)
T ss_pred HHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEE
Confidence 4566779999999999999999999999999999999999999986 468999999999999999999999999999999
Q ss_pred EEEEeC---CcCC--cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 81 PIYVDN---QYGE--AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 81 ii~~d~---~~G~--~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
+||.++ .||+ ...+.+.+.++ .+++++..+.++.+ +.|+...+.+.++.++|+||++++..++..+++||++
T Consensus 142 ii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~--~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~ 218 (391)
T cd06372 142 LFGGSSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSS--NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEK 218 (391)
T ss_pred EEEeccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCC--ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHH
Confidence 998543 3442 23445555554 67888887776543 4588777777778999999999999999999999999
Q ss_pred cCccccceEEEEeC-----Cccccccc-CChhhhhcccceeEeeeCCC-------------CCCcccc-----------c
Q 036525 156 IGLMNKGCVWIMTD-----GMTNLLRT-LEPSVIDSMQGVIDVRPYEN-------------PSLFDAE-----------L 205 (783)
Q Consensus 156 ~g~~~~~~~~i~~~-----~~~~~~~~-~~~~~~~~~~g~~~~~~~~~-------------~~~~~~~-----------~ 205 (783)
+||..++|+||.++ .|...... ......+..+|++++.+..+ .+++... +
T Consensus 219 ~g~~~~~y~~i~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~ 298 (391)
T cd06372 219 LGLMKGKFVFFLLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQV 298 (391)
T ss_pred cCCCCCCEEEEEehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccc
Confidence 99988889999964 23221110 11223356778887766511 1111112 2
Q ss_pred chHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHH---cCccccceeeEEEe-cCccc
Q 036525 206 NIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALS---STRFKGLTGDYIFV-DGQLQ 281 (783)
Q Consensus 206 ~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~---~~~f~g~~G~i~fd-~G~~~ 281 (783)
+.+++++|||++++|+|++++.... ..+.+|..|.++|+ +++|+|++|+++|| +|++
T Consensus 299 ~~~a~~~yDav~~~A~Al~~~~~~g------------------~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r- 359 (391)
T cd06372 299 SPYSAYLHDAVLLYALAVKEMLKAG------------------KDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR- 359 (391)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhcC------------------CCCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-
Confidence 5789999999999999999976431 12447899999999 68999999999998 8998
Q ss_pred cceEEEEEec--CC---cEEEEEECCCCC
Q 036525 282 SSAFEIINVN--NG---ARGVGFWTPEKG 305 (783)
Q Consensus 282 ~~~~~I~~~~--~~---~~~vg~w~~~~~ 305 (783)
.+.|.|++++ +. ...||.|...+.
T Consensus 360 ~~~y~i~~~~~~~~~~~~~~vg~~~~~~~ 388 (391)
T cd06372 360 QMDYSVYALQKSGNSSLFLPFLHYDSHQK 388 (391)
T ss_pred ceeEEEEeccccCCccceeeEEEecchhh
Confidence 4899999998 22 789999987543
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=99.97 E-value=7.4e-31 Score=290.68 Aligned_cols=282 Identities=17% Similarity=0.212 Sum_probs=225.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+++.+++|.|||||.||..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++|+
T Consensus 67 ~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~va 146 (396)
T cd06373 67 DLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAA 146 (396)
T ss_pred HHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEE
Confidence 3555679999999999999999999999999999999999999987 578999999999999999999999999999999
Q ss_pred EEEEeCCcC----CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 81 PIYVDNQYG----EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 81 ii~~d~~~G----~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+||++++++ ....+.+.+++++.|++|+... +..+....|+.++|.+|++.. |+||++++..++..+++||+++
T Consensus 147 ii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~ 224 (396)
T cd06373 147 LLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDFP-FDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRL 224 (396)
T ss_pred EEEECCCCCcchHHHHHHHHHHHHhhcCceeeEEe-ecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHc
Confidence 999988874 5578899999999999987544 433221359999999999865 9999999999999999999999
Q ss_pred CccccceEEEEeCCcccc-----------cccCChhhhhcccceeEeeeC------------CCCC----Ccc-----cc
Q 036525 157 GLMNKGCVWIMTDGMTNL-----------LRTLEPSVIDSMQGVIDVRPY------------ENPS----LFD-----AE 204 (783)
Q Consensus 157 g~~~~~~~~i~~~~~~~~-----------~~~~~~~~~~~~~g~~~~~~~------------~~~~----~~~-----~~ 204 (783)
||...+|+||..+.+... .........+..+|++++..+ +|.+ .++ ..
T Consensus 225 g~~~~~yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~ 304 (396)
T cd06373 225 GLTSGEYVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSL 304 (396)
T ss_pred CCCCCcEEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhH
Confidence 999999999987643211 001112334456677776544 1111 122 13
Q ss_pred cchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccc
Q 036525 205 LNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSS 283 (783)
Q Consensus 205 ~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~ 283 (783)
|+.+++.+|||++++++|++++..... .+.+|++|+++|++++|+|++|+++|| +|++. .
T Consensus 305 ~~~~a~~~YDav~~~a~Al~~~~~~~~------------------~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~ 365 (396)
T cd06373 305 VNFFAGAFYDAVLLYALALNETLAEGG------------------DPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-S 365 (396)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC------------------CCCChHHHHHHhcCCceecccCceEeecCCccc-c
Confidence 567999999999999999999853210 013689999999999999999999998 89974 7
Q ss_pred eEEEEEec----CCcEEEEEECCCC
Q 036525 284 AFEIINVN----NGARGVGFWTPEK 304 (783)
Q Consensus 284 ~~~I~~~~----~~~~~vg~w~~~~ 304 (783)
.|.|+++. +.++.++.+.+.+
T Consensus 366 ~~~v~~~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 366 DFSLWDMTDTETGTFEVVANYNGSN 390 (396)
T ss_pred eeeeeeccCCCCceEEEEeeccccc
Confidence 88887763 3488888888754
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=99.97 E-value=1.8e-30 Score=287.41 Aligned_cols=277 Identities=16% Similarity=0.193 Sum_probs=221.7
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC--CCCCeEEEeecCchhhHHHHHHHHHHcCCe-EEEEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS--IRSPYFFRGALNDSSQVGAITAIIKAFGWR-EAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~-~vaii~ 83 (783)
++|.+||||.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++..++++++|+ ++++||
T Consensus 72 ~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy 151 (399)
T cd06384 72 SDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLY 151 (399)
T ss_pred cCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEE
Confidence 57889999999999999999999999999999999999886 378999999999999999988888999999 688999
Q ss_pred EeCCcCC----cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQYGE----AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~~G~----~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.++.++. ...+.+.+.+++.|++|+.+..+. .++.|+.++|.++++ ++|+|+++++..++..+++||+++||.
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~ 228 (399)
T cd06384 152 LDLKTDDRPHYFISEGVFLALQEENANVSAHPYHI--EKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLT 228 (399)
T ss_pred ecCCccCCcceEehHHHHHHHHhcCceEEEEEEec--cchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCC
Confidence 7543321 146778888999999998866544 335699999999997 999999999999999999999999999
Q ss_pred ccceEEEEeCCcccccc-------------cCChhhhhcccceeEeeeC------------CCCC----Cccc--cc---
Q 036525 160 NKGCVWIMTDGMTNLLR-------------TLEPSVIDSMQGVIDVRPY------------ENPS----LFDA--EL--- 205 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~-------------~~~~~~~~~~~g~~~~~~~------------~~~~----~~~~--~~--- 205 (783)
.+.|+||+.+.+..... .......+++++++.+.++ +|.+ .++. .|
T Consensus 229 ~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~ 308 (399)
T cd06384 229 PGDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLM 308 (399)
T ss_pred CCcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchH
Confidence 99999998875442111 0113444578888887655 1111 1332 24
Q ss_pred chHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccce
Q 036525 206 NIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSA 284 (783)
Q Consensus 206 ~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~ 284 (783)
+.+++.+|||++++|.|++++.... +.|.+|.+|+++|++++|+|++|.+.|| +|++. ..
T Consensus 309 ~~~aa~~YDav~l~a~Al~~~~~~~------------------~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~ 369 (399)
T cd06384 309 NFIAGCFYDGVMLYAMALNETLAEG------------------GSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-ID 369 (399)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHhcC------------------CCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cc
Confidence 6679999999999999999985331 1234788999999999999999999998 89985 56
Q ss_pred EEEE---Eec-CCcEEEEEECCCCC
Q 036525 285 FEII---NVN-NGARGVGFWTPEKG 305 (783)
Q Consensus 285 ~~I~---~~~-~~~~~vg~w~~~~~ 305 (783)
|.++ +++ +++..+|.|...+.
T Consensus 370 ~~~~~~~~~~~g~~~~v~~~~~~~~ 394 (399)
T cd06384 370 FDLWAMTDHETGKYEVVAHYNGITK 394 (399)
T ss_pred eEEEEeecCCCCeEEEEEEEcCCCc
Confidence 7774 445 56999999987543
No 31
>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=99.97 E-value=8.1e-31 Score=290.03 Aligned_cols=285 Identities=17% Similarity=0.243 Sum_probs=239.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++++
T Consensus 62 ~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ 141 (389)
T cd06352 62 DLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAV 141 (389)
T ss_pred HHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEE
Confidence 5677889999999999999999999999999999999999998886 478999999999999999999999999999999
Q ss_pred EEEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 81 PIYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 81 ii~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
++++++. ||....+.+.+++++.|++|+....++.+....|+..++.++++.+ |+|++++.+.++..+++|++++|+.
T Consensus 142 ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~ 220 (389)
T cd06352 142 VVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLT 220 (389)
T ss_pred EEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCC
Confidence 9998888 9999999999999999999999888875422458999999999887 9999999999999999999999998
Q ss_pred ccceEEEEeCCcccccc-----------cCChhhhhcccceeEeeeC------------CCCCCccc----------ccc
Q 036525 160 NKGCVWIMTDGMTNLLR-----------TLEPSVIDSMQGVIDVRPY------------ENPSLFDA----------ELN 206 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~------------~~~~~~~~----------~~~ 206 (783)
..+++||+++.+..... .......+.++|++++.++ +|.++++. .|+
T Consensus 221 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 300 (389)
T cd06352 221 SGDYVFILIDLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVS 300 (389)
T ss_pred CCcEEEEEEehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccc
Confidence 78899999876654321 1122345667888887655 22222222 357
Q ss_pred hHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceE
Q 036525 207 IIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAF 285 (783)
Q Consensus 207 ~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~ 285 (783)
.++..+|||++++++|+++++..... +.++.++.++|++++|.|++|++.|| +|++. ..|
T Consensus 301 ~~a~~~YDav~~~a~Al~~~~~~~~~------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~ 361 (389)
T cd06352 301 PYAGYLYDAVLLYAHALNETLAEGGD------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDY 361 (389)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhCCC------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeE
Confidence 79999999999999999999765211 23678899999999999999999998 89985 789
Q ss_pred EEEEec-C--CcEEEEEECCCCCC
Q 036525 286 EIINVN-N--GARGVGFWTPEKGL 306 (783)
Q Consensus 286 ~I~~~~-~--~~~~vg~w~~~~~~ 306 (783)
.|++++ + ....++...+.++.
T Consensus 362 ~v~~~~~~~~~~~~~~~~~~~~~~ 385 (389)
T cd06352 362 SLLDLDSTGGQLEVVYLYDTSSGG 385 (389)
T ss_pred EEEEecCCCceEEEEEecccccee
Confidence 999998 3 37888888776654
No 32
>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=99.97 E-value=4e-30 Score=285.04 Aligned_cols=267 Identities=15% Similarity=0.265 Sum_probs=215.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+++ +|.+||||.+|.. +++.++++++||+|+++++++.+++ ..||+|||+.|++..++.+++.+++++||++|+
T Consensus 64 ~li~~-~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~va 140 (404)
T cd06370 64 DWWKR-GVVAFIGPECTCT--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFS 140 (404)
T ss_pred HHHhc-CceEEECCCchhH--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEE
Confidence 46644 8999999999854 4557999999999999999999986 478999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCC-----ChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLA-----TDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~-----~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
+|+++++||++..+.|++.+++.|++|+..+.++.+. ...++.+.+.++++. ++++|+++...++..+++||++
T Consensus 141 ii~~~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~ 219 (404)
T cd06370 141 VVYENDSKYSSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLD 219 (404)
T ss_pred EEEecCcccHHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHH
Confidence 9999999999999999999999999999988887542 246888888888764 6777777788899999999999
Q ss_pred cCcc-ccceEEEEeCCccc------c------------cccCChhhhhcccceeEeeeC-----------CCCC------
Q 036525 156 IGLM-NKGCVWIMTDGMTN------L------------LRTLEPSVIDSMQGVIDVRPY-----------ENPS------ 199 (783)
Q Consensus 156 ~g~~-~~~~~~i~~~~~~~------~------------~~~~~~~~~~~~~g~~~~~~~-----------~~~~------ 199 (783)
+||+ ..+|+||+.+.... . .........++++|++.+.+. .+.+
T Consensus 220 ~g~~~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 299 (404)
T cd06370 220 EGLLESGDYMVLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPVSPDYDSFSIFVRKYNLEPP 299 (404)
T ss_pred cCCCCCCcEEEEEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCCCchHHHHHHHHHHhccCCC
Confidence 9998 57899998763110 0 001112444578888877543 1111
Q ss_pred --------CcccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCcccccee
Q 036525 200 --------LFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTG 271 (783)
Q Consensus 200 --------~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G 271 (783)
.+...|+.+++++|||++++|+|++++...... ..+|++|+++|++++|+|++|
T Consensus 300 ~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~------------------~~~g~~i~~~l~~~~f~GvtG 361 (404)
T cd06370 300 FNGDLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGGD------------------IYNGTAIVSHILNRTYRSITG 361 (404)
T ss_pred CcccccccccccccceeeehhHHHHHHHHHHHHHHHHhcCC------------------CCCHHHHHHHHhCcccccccC
Confidence 133457789999999999999999998533110 126899999999999999999
Q ss_pred -eEEEe-cCccccceEEEEEec
Q 036525 272 -DYIFV-DGQLQSSAFEIINVN 291 (783)
Q Consensus 272 -~i~fd-~G~~~~~~~~I~~~~ 291 (783)
+++|| +|++. ..|.|++++
T Consensus 362 ~~v~fd~~G~~~-~~y~v~~~~ 382 (404)
T cd06370 362 FDMYIDENGDAE-GNYSVLALQ 382 (404)
T ss_pred ceEEEcCCCCcc-cceEEEEec
Confidence 99998 99984 899999997
No 33
>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-29 Score=276.56 Aligned_cols=274 Identities=31% Similarity=0.431 Sum_probs=224.6
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC--CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS--IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
.+++|.+||||.|+..+.+++.+++.++||+|+++++++.+++ ..+|+++|+.|++..+++++++++++++|++|++|
T Consensus 48 ~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv 127 (348)
T PF01094_consen 48 NKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVV 127 (348)
T ss_dssp HHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEE
T ss_pred cCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeee
Confidence 3468999999999999999999999999999999999999987 38999999999999999999999999999999999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceEeEE-EecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRVPYR-SVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v~~~-~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
|+++++|.+....+.+.+++.++.+... ...... ..++...+.++++ .++++|++++...++..++++|.+.||.
T Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~ 205 (348)
T PF01094_consen 128 YSDDDYGNSLADSFQDLLRERGGICVAFISVVISS--DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMT 205 (348)
T ss_dssp EESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEETT--TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTS
T ss_pred ccccccccccchhhhhhhcccccceeccccccccc--ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhcc
Confidence 9999999999999999999965544433 333322 2355555555555 9999999999999999999999999999
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeCCC--------------------CCCcccccchHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYEN--------------------PSLFDAELNIIGLLAYDATRAL 219 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--------------------~~~~~~~~~~~~~~aYDAv~~l 219 (783)
..+|+||+++.+................|++++.+... .......+..+++++|||++++
T Consensus 206 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~ 285 (348)
T PF01094_consen 206 SGDYVWILTDLDNSSFWQNNEDFREAFQGVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLL 285 (348)
T ss_dssp STTSEEEEETTTTTTHTSTHCHHHCCHTTEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHH
T ss_pred ccceeEEeecccccccccccccccccccceeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHH
Confidence 99999999998765432223456678899999987511 1123356788999999999999
Q ss_pred HHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe--cCccccceEEEEEec
Q 036525 220 AEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV--DGQLQSSAFEIINVN 291 (783)
Q Consensus 220 a~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd--~G~~~~~~~~I~~~~ 291 (783)
++|++++....+.... ....|.+|..|.++|++++|+|++|++.|+ +|++....|.|+|++
T Consensus 286 a~al~~~~~~~~~~~~-----------~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 286 AHALNRALQDGGPVTN-----------GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHHHHSTTTS-----------SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHHHhccCCCC-----------CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 9999999865322110 014677899999999999999999999997 588888999999875
No 34
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.96 E-value=1.4e-28 Score=268.90 Aligned_cols=261 Identities=20% Similarity=0.241 Sum_probs=222.4
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH-HHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII-KAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~va 80 (783)
+|++ ++|.+|||+.+|..+.++++++++.+||+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|++|+
T Consensus 87 ~Li~-~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va 165 (369)
T PRK15404 87 KVVN-DGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIA 165 (369)
T ss_pred HHHh-CCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEE
Confidence 4675 69999999999999999999999999999999999999987778999999999999999999987 456999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+|++|+.||++..+.+++.+++.|++++....++.+ ..||.+++.++++.+||+|++.+...+...++++++++|+..
T Consensus 166 ~i~~d~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~g--~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~ 243 (369)
T PRK15404 166 VLHDKQQYGEGLARSVKDGLKKAGANVVFFEGITAG--DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT 243 (369)
T ss_pred EEeCCCchhHHHHHHHHHHHHHcCCEEEEEEeeCCC--CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC
Confidence 999999999999999999999999999988888755 459999999999999999999888889999999999999865
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC-------------CCCCCcccccchHHHHHHHHHHHHHHHHHHhc
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------ENPSLFDAELNIIGLLAYDATRALAEAVEKAG 227 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~ 227 (783)
+ |++++++... . +.....+..+|+++..++ .|.+.++.+|+.++..+||+++++++|+++++
T Consensus 244 ~---~i~~~~~~~~-~-~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~Y~~~~~l~~Al~~aG 318 (369)
T PRK15404 244 Q---FMGPEGVGNK-S-LSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQDPSGPFVWTTYAAVQSLAAGINRAG 318 (369)
T ss_pred e---EEecCcCCCH-H-HHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcCCCCccchHHHHHHHHHHHHHHHhhC
Confidence 4 7776544321 1 111234567888876553 33333445566788999999999999999998
Q ss_pred ccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CC
Q 036525 228 ITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NG 293 (783)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~ 293 (783)
+. ++++|+++|++.+|+|+.|++.|+ +|+.....|.|+++. +|
T Consensus 319 ~~-----------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 319 SD-----------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred CC-----------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 64 578999999999999999999997 888878899999988 44
No 35
>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=99.96 E-value=1.4e-28 Score=265.43 Aligned_cols=244 Identities=20% Similarity=0.292 Sum_probs=193.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+++ +|.+||||.+|..+.++++++++++||+|+++++++.++ .++|+||+.|++..++.+++++++++||++|++
T Consensus 58 ~li~~-~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vav 134 (327)
T cd06382 58 DLLQQ-GVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTI 134 (327)
T ss_pred hhhhc-CcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEE
Confidence 46765 999999999999999999999999999999988888776 568999999999999999999999999999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCc---eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDT---RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~---~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+|++++++.. +.+.+++.|. .|.. ..++. +. |++++|.+|++++||+|++++...++..+++||+++||
T Consensus 135 l~~~~~~~~~----l~~~~~~~~~~g~~v~~-~~~~~--~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~ 206 (327)
T cd06382 135 IYESAEGLLR----LQELLQAFGISGITITV-RQLDD--DL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGM 206 (327)
T ss_pred EecChHHHHH----HHHHHHhhccCCCeEEE-EEccC--Cc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCc
Confidence 9999886654 4455555554 4444 44443 34 99999999999999999999999999999999999999
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC------------CCCCCcccc--------cchHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY------------ENPSLFDAE--------LNIIGLLAYDATRA 218 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------------~~~~~~~~~--------~~~~~~~aYDAv~~ 218 (783)
..+.|+|+.++......+.. .......++.++..+ .|.++++.+ |+.+++.+|||+++
T Consensus 207 ~~~~~~~i~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~ 284 (327)
T cd06382 207 MSEYYHYIITNLDLHTLDLE--DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYL 284 (327)
T ss_pred cccceEEEEecCCccccchh--hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEE
Confidence 99999999977644332221 111222344444433 222333322 55556666666555
Q ss_pred HHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEE
Q 036525 219 LAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARG 296 (783)
Q Consensus 219 la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~ 296 (783)
+ |+||.++|| +|+|.+..++|+|+. ++++.
T Consensus 285 ~------------------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~ 316 (327)
T cd06382 285 F------------------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRK 316 (327)
T ss_pred e------------------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceE
Confidence 4 999999998 899999999999999 89999
Q ss_pred EEEECCCCCC
Q 036525 297 VGFWTPEKGL 306 (783)
Q Consensus 297 vg~w~~~~~~ 306 (783)
||.|++..++
T Consensus 317 vg~w~~~~~~ 326 (327)
T cd06382 317 VGTWNSSEGL 326 (327)
T ss_pred EEEECCCCCc
Confidence 9999998775
No 36
>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=3.5e-28 Score=263.29 Aligned_cols=258 Identities=22% Similarity=0.262 Sum_probs=220.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH-HHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII-KAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~va 80 (783)
+|+++ +|.+|+||.+|..+.+++++++..+||+|+++++++.+++..+|++||+.|++..++.++++++ ++++|++|+
T Consensus 61 ~li~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 139 (334)
T cd06342 61 KLVDD-GVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVA 139 (334)
T ss_pred HHHhC-CceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEE
Confidence 46777 9999999999999999999999999999999988777776678999999999999999999987 468899999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++++|++||+...+.+++.+++.|++|+....++.+ ..|+.+.+.++++.++|+|++.+...++..+++++++.|+..
T Consensus 140 ~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~ 217 (334)
T cd06342 140 IIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDG--ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA 217 (334)
T ss_pred EEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCC--CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC
Confidence 999999999999999999999999999998887754 459999999999999999999999999999999999999854
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
. |++++.+... . +.....+..+|++.+.++ .|.++++..|+.++..+||+++++++|++++
T Consensus 218 ~---~~~~~~~~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~ 292 (334)
T cd06342 218 P---FMGGDGLCDP-E-FIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFGDPPGAYAPYAYDAANVLAEAIKKA 292 (334)
T ss_pred c---EEecCccCCH-H-HHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHHHHh
Confidence 3 7777654421 1 111223567888877665 2223345567889999999999999999998
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEe
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINV 290 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~ 290 (783)
++. +++.|+++|++.+|+|++|+++|+ +|++....++|+|+
T Consensus 293 ~~~-----------------------~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 293 GST-----------------------DPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred CCC-----------------------CHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 643 578899999999999999999997 99998999999885
No 37
>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=99.96 E-value=4.3e-28 Score=263.83 Aligned_cols=258 Identities=20% Similarity=0.248 Sum_probs=214.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcC--CeEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFG--WREA 79 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~g--w~~v 79 (783)
+|+++++|.+||||.+|..+.++++++++.+||+|+++++++.++...+||+||+.|++..++.++++++++++ |+++
T Consensus 65 ~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v 144 (345)
T cd06338 65 RLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKV 144 (345)
T ss_pred HHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceE
Confidence 57777899999999999999999999999999999999988888756789999999999999999999999887 9999
Q ss_pred EEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 80 VPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 80 aii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
++++.|++||+...+.+.+.+++.|++|+....++.+ ..||++++.+|++.++|+|++.+...+...+++++++.|+.
T Consensus 145 ~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~ 222 (345)
T cd06338 145 AILYADDPFSQDVAEGAREKAEAAGLEVVYDETYPPG--TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYN 222 (345)
T ss_pred EEEecCCcccHHHHHHHHHHHHHcCCEEEEEeccCCC--ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCC
Confidence 9999999999999999999999999999988777654 35999999999999999999999999999999999999986
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC-------------------CCCCCcccccchHHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------------ENPSLFDAELNIIGLLAYDATRALA 220 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------------~~~~~~~~~~~~~~~~aYDAv~~la 220 (783)
.+ .++ .+.++... . +.....+..+|+++..++ .|.++++..|+.++..+||++++++
T Consensus 223 ~~-~~~-~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~a~~~~~ 298 (345)
T cd06338 223 PK-ALY-MTVGPAFP-A-FVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGKAPDYHAAGAYAAGQVLQ 298 (345)
T ss_pred CC-EEE-EecCCCcH-H-HHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCCCCCcccHHHHHHHHHHH
Confidence 54 222 22222211 0 111233445777765543 2233445568888999999999999
Q ss_pred HHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEE
Q 036525 221 EAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIIN 289 (783)
Q Consensus 221 ~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~ 289 (783)
+|++++++. +++++.++|++++|+|++|+++|+ +|++. ..+.+++
T Consensus 299 ~a~~~ag~~-----------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~ 344 (345)
T cd06338 299 EAVERAGSL-----------------------DPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQ 344 (345)
T ss_pred HHHHHhCCC-----------------------CHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeee
Confidence 999999854 468899999999999999999998 78875 3555554
No 38
>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=99.96 E-value=6.6e-28 Score=262.10 Aligned_cols=252 Identities=22% Similarity=0.257 Sum_probs=210.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC----CCCCeEEEeecCchhhHHHHHHHHHH----
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS----IRSPYFFRGALNDSSQVGAITAIIKA---- 73 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~----~~~~~~fr~~p~~~~~~~ai~~~l~~---- 73 (783)
+|+++++|.+||||.+|..+.++++++++++||+|+++++++.++. .+++|+||+.|++..++.++++++.+
T Consensus 61 ~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~ 140 (344)
T cd06345 61 RLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVD 140 (344)
T ss_pred HHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcc
Confidence 5787789999999999999999999999999999999998888873 47899999999999999999999876
Q ss_pred -cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHH
Q 036525 74 -FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEK 152 (783)
Q Consensus 74 -~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~ 152 (783)
+||++|++++.+++||+...+.+++.+++.|++|+....++.+ ..|+.+++.+|+++++|+|++.+.+.++..++++
T Consensus 141 ~~~~~~va~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~ 218 (344)
T cd06345 141 KHGFKTAAIVAEDAAWGKGIDAGIKALLPEAGLEVVSVERFSPD--TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQ 218 (344)
T ss_pred cCCCceEEEEecCchhhhHHHHHHHHHHHHcCCeEEEEEecCCC--CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHH
Confidence 8999999999999999999999999999999999988877754 4599999999999999999999999999999999
Q ss_pred HHHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeC----------------CCCCCcccccchHHHHHHHHH
Q 036525 153 ANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY----------------ENPSLFDAELNIIGLLAYDAT 216 (783)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~----------------~~~~~~~~~~~~~~~~aYDAv 216 (783)
+++.|+..+ +++...+....... ....+..+|++....+ +|.++++..|+.+++.+||++
T Consensus 219 ~~~~g~~~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~p~~~~~~~yda~ 294 (344)
T cd06345 219 WAEQKVPIP---TIGISVEGNSPAFW-KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFGGPPNYMGASTYDSI 294 (344)
T ss_pred HHHcCCCCc---eEEecCCcCCHHHH-HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhCCCCcccchHHHHHH
Confidence 999998544 44433222111111 1223445665544322 344456677899999999999
Q ss_pred HHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCcccc
Q 036525 217 RALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQS 282 (783)
Q Consensus 217 ~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~ 282 (783)
+++++|+++++.. ++++|+++|++.+|+|++|+++|| +||+..
T Consensus 295 ~~l~~A~~~ag~~-----------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 295 YILAEAIERAGST-----------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred HHHHHHHHHhcCC-----------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 9999999999854 578899999999999999999998 999764
No 39
>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=99.95 E-value=2.2e-27 Score=267.54 Aligned_cols=290 Identities=23% Similarity=0.351 Sum_probs=242.6
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..|.++|||..|+.+.+++.+..-.+||+|+++++++.+++ .+|+||.|+.|+|..|++||++++++|+|.+|..++++
T Consensus 124 p~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~ 203 (878)
T KOG1056|consen 124 PPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASE 203 (878)
T ss_pred CceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcC
Confidence 35899999999999999999999999999999999999998 58999999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcChhhHHHHHHHHHHcCccccceE
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCV 164 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~ 164 (783)
++||+..++.|++..++.|+||+..+.++....+..|...++++.. .+++++|+++.+.+++.++++|+++++.+ .++
T Consensus 204 ~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g-~~~ 282 (878)
T KOG1056|consen 204 GDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAARRANLTG-EFL 282 (878)
T ss_pred ccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHHHHhCCCc-ceE
Confidence 9999999999999999999999999887766667789999999887 89999999999999999999999999744 599
Q ss_pred EEEeCCcccccccCChhhhhcccceeEeeeC-------------CCCCC--------------cc---------------
Q 036525 165 WIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------ENPSL--------------FD--------------- 202 (783)
Q Consensus 165 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------~~~~~--------------~~--------------- 202 (783)
||++++|....+... ......+|++++... ..|++ +.
T Consensus 283 wiaSd~W~~~~~~~~-~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e~w~~~f~C~l~~~~~~~~~~~~ 361 (878)
T KOG1056|consen 283 WIASDGWASQNSPTE-APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAEFWEDKFNCSLPNSAFKNENLIR 361 (878)
T ss_pred EEecchhhccCChhh-hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccchhhhhcccCCCCcccccchhhhh
Confidence 999999996544332 223467888888766 01100 00
Q ss_pred ----c----cc-----chHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccc
Q 036525 203 ----A----EL-----NIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGL 269 (783)
Q Consensus 203 ----~----~~-----~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~ 269 (783)
. .. ..-....+|||+++|+||+.+....+.. ....|..+.. .+|.+|.+.++++.|.+.
T Consensus 362 ~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~-------~~~~C~~m~~-~dg~~L~~~l~~vnF~~~ 433 (878)
T KOG1056|consen 362 LCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPG-------TSGLCSAMKA-IDGSLLLKYLLNVNFTGP 433 (878)
T ss_pred hcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCC-------ccccCcCccc-cCHHHHHhhhheeEEecC
Confidence 0 00 1135679999999999999987653321 1234555433 589999999999999999
Q ss_pred eeeEEEe-cCccccceEEEEEec--C---CcEEEEEECCCCCCc
Q 036525 270 TGDYIFV-DGQLQSSAFEIINVN--N---GARGVGFWTPEKGLT 307 (783)
Q Consensus 270 ~G~i~fd-~G~~~~~~~~I~~~~--~---~~~~vg~w~~~~~~~ 307 (783)
.|++.|| +||. ...|+|++++ + ....+|.|.....++
T Consensus 434 ~~~v~Fd~~gD~-~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~ 476 (878)
T KOG1056|consen 434 AGSVRFDENGDG-PGRYDILNYQLTNGSYTYKEVGYWSEGLSLN 476 (878)
T ss_pred CCceeecCCCCC-ccceeEEEeeccCCCccceeeeeeccccccc
Confidence 9999998 9997 4899999999 4 389999999877654
No 40
>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=99.95 E-value=1.8e-26 Score=249.93 Aligned_cols=262 Identities=16% Similarity=0.200 Sum_probs=197.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCC---CC-----CC-CCCCCeEEEeecCchhhHHHHHHHHH
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATS---PS-----LT-SIRSPYFFRGALNDSSQVGAITAIIK 72 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s---~~-----ls-~~~~~~~fr~~p~~~~~~~ai~~~l~ 72 (783)
+|+++ +|.|||||.+|..+.+++++++..+||+|++.+.. |. +. ....+|.|+..|++ .+..+++++++
T Consensus 57 ~Li~~-gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~ 134 (363)
T cd06381 57 DLMNQ-GILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVT 134 (363)
T ss_pred HHHhc-CcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHH
Confidence 47777 99999999999999999999999999999976422 11 11 12345767777764 68899999999
Q ss_pred HcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHh-------ccCceEEEEEcChhh
Q 036525 73 AFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLF-------TMQTRVFIVHKLPSL 145 (783)
Q Consensus 73 ~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~-------~~~~dvii~~~~~~~ 145 (783)
++||++|+++|++++++ ...+.+.+++++.|+.+.... ...+ ....+...+..++ +.+.++||+.|.+..
T Consensus 135 ~~~wkkvavly~~d~g~-~~l~~~~~~~~~~g~~v~~~~-~~~~-~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~ 211 (363)
T cd06381 135 EWRWQKFVYFYDNDYDI-RGLQEFLDQLSRQGIDVLLQK-VDLN-ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNG 211 (363)
T ss_pred hCCCeEEEEEEECCchH-HHHHHHHHHHHhcCceEEEEe-cccc-cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHH
Confidence 99999999999888755 555777788999998766433 2211 1112333333222 345558899999999
Q ss_pred HHHHHHHHHHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCC----CC----------------CCcc--c
Q 036525 146 GSRIFEKANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYE----NP----------------SLFD--A 203 (783)
Q Consensus 146 ~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~----~~----------------~~~~--~ 203 (783)
+..++++|+++||+..+|+|++++.|......+ ........|+.++.... .. ...+ .
T Consensus 212 ~~~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 (363)
T cd06381 212 AYTFIDASVETNLAIKDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQ 290 (363)
T ss_pred HHHHHHHHHHcCCCcCceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCC
Confidence 999999999999999999999998887632222 24456677888877651 00 0000 1
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCcccc
Q 036525 204 ELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQS 282 (783)
Q Consensus 204 ~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~ 282 (783)
.+...++++||||+++ .++|++++|+|+||+++|+ +|++..
T Consensus 291 ~~~~~~al~yDaV~~~--------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~ 332 (363)
T cd06381 291 MLEISNLYIYDSVLLL--------------------------------------LETIKKGPITGLTGKLEFNEGGDNSN 332 (363)
T ss_pred ChhHHHHHHHHHHHHH--------------------------------------HHHHHhcCccCcceeEEeCCCCCccc
Confidence 3456799999999999 4568888999999999997 899999
Q ss_pred ceEEEEEec-CC-----cEEEEEECCCCCCc
Q 036525 283 SAFEIINVN-NG-----ARGVGFWTPEKGLT 307 (783)
Q Consensus 283 ~~~~I~~~~-~~-----~~~vg~w~~~~~~~ 307 (783)
..++|+++. ++ .+.+|.|+|.+|++
T Consensus 333 ~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~~ 363 (363)
T cd06381 333 VQFEILGTGYSETLGKDGRWLATWNPSKGLN 363 (363)
T ss_pred cEEEEEEeccCCccccceEEeeeccCCCCCC
Confidence 999999999 65 89999999988763
No 41
>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=99.95 E-value=1.9e-27 Score=254.68 Aligned_cols=236 Identities=25% Similarity=0.319 Sum_probs=203.3
Q ss_pred cccccCCeEEEEccCCchhHHHH-HcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFI-IQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREA 79 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av-~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~v 79 (783)
+|+++++|.+||||.+|..+.++ ++++++.++|+|+++++++.+++ .+++|+||+.|++..++.+++++++++||+++
T Consensus 61 ~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~v 140 (312)
T cd06346 61 KLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSV 140 (312)
T ss_pred HHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeE
Confidence 57888899999999999999999 99999999999999999999986 46899999999999999999999999999999
Q ss_pred EEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 80 VPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 80 aii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
++|+.|++||++..+.+++.+++.|++|+....++++ +.||++++.+|++++||+|++.+.+.++..+++|++++|+.
T Consensus 141 ail~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 218 (312)
T cd06346 141 ATTYINNDYGVGLADAFTKAFEALGGTVTNVVAHEEG--KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLF 218 (312)
T ss_pred EEEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeCCC--CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCC
Confidence 9999999999999999999999999999998888765 45999999999999999999999999999999999999985
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC-----------CCCCCcccccchHHHHHHHHHHHHHHHHHHhcc
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----------ENPSLFDAELNIIGLLAYDATRALAEAVEKAGI 228 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~ 228 (783)
.+ |++++++... ..+.....+.++|+++..++ +|.++|+..|+.+++.+||+++++++|
T Consensus 219 ~~---~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~Yd~~~~l~~A------ 288 (312)
T cd06346 219 DK---FLLTDGMKSD-SFLPADGGYILAGSYGTSPGAGGPGLEAFTSAYKAAYGESPSAFADQSYDAAALLALA------ 288 (312)
T ss_pred Cc---eEeeccccCh-HHHHhhhHHHhCCcEEccCCCCchhHHHHHHHHHHHhCCCCCccchhhHHHHHHHHHH------
Confidence 55 7777654431 11121223567888877655 455667778999999999999999987
Q ss_pred cccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEE
Q 036525 229 TSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEI 287 (783)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I 287 (783)
|.|++|+++|+ +|++. ..|+-
T Consensus 289 -------------------------------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 -------------------------------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred -------------------------------------hCCCccceeeCCCCCcc-cceee
Confidence 88999999997 88875 35554
No 42
>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=99.95 E-value=7.6e-27 Score=253.80 Aligned_cols=265 Identities=18% Similarity=0.287 Sum_probs=210.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHH-HHHHHc-CCeEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAIT-AIIKAF-GWREA 79 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~-~~l~~~-gw~~v 79 (783)
+|+++++|.+|+||.+|..+.++.+++++.+||+|+++++++.+. ..++|+||+.+++..+...++ .+++++ ||+++
T Consensus 61 ~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v 139 (344)
T cd06348 61 TLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRV 139 (344)
T ss_pred HHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEE
Confidence 578888999999999999999999999999999999988777664 357899999887766554444 556777 99999
Q ss_pred EEEEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 80 VPIYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 80 aii~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
++||.+++ ||+...+.+++.+++.|++++....++.+ +.||.+++.+|+++++|+|++.+.+.++..+++++++.|+
T Consensus 140 ~~l~~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~ 217 (344)
T cd06348 140 AVFYAQDDAFSVSETEIFQKALRDQGLNLVTVQTFQTG--DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGY 217 (344)
T ss_pred EEEEeCCchHHHHHHHHHHHHHHHcCCEEEEEEeeCCC--CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCC
Confidence 99997655 99999999999999999999998888754 4599999999999999999999999999999999999998
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
..+ +++++++... . +.....+..+|++...++ .|.++++..|+.++..+||+++++++|++
T Consensus 218 ~~~---~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~yda~~~~~~A~~ 292 (344)
T cd06348 218 NGL---IVGGNGFNTP-N-VFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYGKAPPQFSAQAFDAVQVVAEALK 292 (344)
T ss_pred CCc---eeccccccCH-H-HHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHCCCccHHHHHHHHHHHHHHHHHH
Confidence 654 6665544321 1 112334677888877665 34445566788899999999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEE
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEI 287 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I 287 (783)
+++..... .++. ....+++|.++|++++|+|++|++.|+ +|++....|.|
T Consensus 293 ~a~~~~~~----------~~~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 293 RLNQKQKL----------AELP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred HhcCCCcc----------ccch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 99864210 0000 011357899999999999999999998 88877555543
No 43
>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=99.95 E-value=6.3e-27 Score=252.28 Aligned_cols=245 Identities=24% Similarity=0.312 Sum_probs=191.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|++ ++|.+||||.+|..+.++++++++++||+|+++++++.++ . ++.|++.|++..++.+++++++++||++|++
T Consensus 57 ~li~-~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~-~--~~~~~~~~~~~~~~~a~~~~~~~~~w~~vai 132 (324)
T cd06368 57 DLLS-QGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKP-R--QFTINLYPSMRDLSDALLDLIKYFGWRKFVY 132 (324)
T ss_pred HHHh-cCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCC-C--cceEEecCCHHHHHHHHHHHHHhcCCCEEEE
Confidence 4676 7999999999999999999999999999999999988876 2 3444555777799999999999999999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
||++++++.. .+.+.+.+++.|++|+.....+ .+ +|++++|.+|++.++|+||+.+++.++..+++||+++||..+
T Consensus 133 i~~~~~~~~~-l~~~~~~~~~~g~~v~~~~~~~--~~-~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~ 208 (324)
T cd06368 133 IYDSDEGLLR-LQELLDALSPKGIQVTVRRLDD--DT-DMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSE 208 (324)
T ss_pred EECCcHhHHH-HHHHHHhhccCCceEEEEEecC--Cc-hHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccC
Confidence 9987765544 5667777888899998765432 23 389999999999999999999999999999999999999989
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeC------------CCCCCccc--------ccchHHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY------------ENPSLFDA--------ELNIIGLLAYDATRALAE 221 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------------~~~~~~~~--------~~~~~~~~aYDAv~~la~ 221 (783)
+|+||+++......+. ........++.+.... +|.+.++. .|+.+++.+|||++++
T Consensus 209 ~~~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~-- 284 (324)
T cd06368 209 YYHYILTNLDFHTLDL--ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF-- 284 (324)
T ss_pred CcEEEEccCCccccch--hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe--
Confidence 9999998753322111 1111122223333221 23333332 5666777777776655
Q ss_pred HHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CCcEEEEE
Q 036525 222 AVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVGF 299 (783)
Q Consensus 222 Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~ 299 (783)
+|+++|| +|++.+..++|+++. ++++.+|.
T Consensus 285 ------------------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~ 316 (324)
T cd06368 285 ------------------------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGT 316 (324)
T ss_pred ------------------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEE
Confidence 9999998 899999999999999 99999999
Q ss_pred ECCCCCC
Q 036525 300 WTPEKGL 306 (783)
Q Consensus 300 w~~~~~~ 306 (783)
|++..++
T Consensus 317 W~~~~~~ 323 (324)
T cd06368 317 WNPEDGL 323 (324)
T ss_pred ECCCCCC
Confidence 9997765
No 44
>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=7.9e-27 Score=253.73 Aligned_cols=253 Identities=18% Similarity=0.204 Sum_probs=210.4
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc------C
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF------G 75 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------g 75 (783)
+|+++++|.+|+||.+|..+.++++++++.+||+|+++++++.+++.++||+||+.|++..++.++++++..+ +
T Consensus 64 ~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~ 143 (347)
T cd06340 64 RLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKP 143 (347)
T ss_pred HHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCC
Confidence 5788889999999999999999999999999999999988888887778999999999999999999999765 5
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
|+++++++.|++||+...+.+++.+++.|++|+..+.++.+ +.||++++.+|+++++|+|++.+...++..+++++++
T Consensus 144 ~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~ 221 (347)
T cd06340 144 LKTVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPAN--ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKE 221 (347)
T ss_pred CceEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCC--CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHH
Confidence 69999999999999999999999999999999988888755 4599999999999999999999999999999999999
Q ss_pred cCccccceEEEEeCCcccccccCChhhhhcccceeEeeeC-------------CCCCCcccccchHHHHHHHHHHHHHHH
Q 036525 156 IGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------ENPSLFDAELNIIGLLAYDATRALAEA 222 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------~~~~~~~~~~~~~~~~aYDAv~~la~A 222 (783)
.|+..+ .++...++.... . +.....+..+|++...++ .|.+.++..|+.++..+||+++++++|
T Consensus 222 ~G~~~~-~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~~~~~~~~~~Y~a~~~l~~A 298 (347)
T cd06340 222 QRVEPK-AVYSVGGGAEDP-S-FVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFGVDLSGNSARAYTAVLVIADA 298 (347)
T ss_pred cCCCCc-EEEecCCCcCcH-H-HHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHH
Confidence 998544 222222222211 1 112334567888887765 334445566889999999999999999
Q ss_pred HHHhcccccCccccccCCCCcccccccCCCChHHHHH--HHHcCccc---cceeeEEEe-cCcccc
Q 036525 223 VEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQ--ALSSTRFK---GLTGDYIFV-DGQLQS 282 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~--aL~~~~f~---g~~G~i~fd-~G~~~~ 282 (783)
++++++. +++++.+ +|+.+.+. ++.|++.|+ +|+..+
T Consensus 299 ~~~ag~~-----------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~ 341 (347)
T cd06340 299 LERAGSA-----------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTN 341 (347)
T ss_pred HHHhcCC-----------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCccc
Confidence 9999865 4678884 88777765 578999998 998764
No 45
>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=99.94 E-value=1.2e-26 Score=251.22 Aligned_cols=252 Identities=15% Similarity=0.150 Sum_probs=211.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+++++|.+||||.+|..+.++++++++.+||+|+++++++.++.. ..||+||+.+++..++.++++++...++++++
T Consensus 60 ~l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 139 (334)
T cd06327 60 EWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWF 139 (334)
T ss_pred HHHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEE
Confidence 57778899999999999999999999999999999999988888864 58999999999999999999999877899999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.|+.||+...+.+++.+++.|++|+....++.+ ..||.+++.++++.+||+|++.+.+.++..+++++++.|+..
T Consensus 140 ~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 217 (334)
T cd06327 140 FLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLG--TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK 217 (334)
T ss_pred EEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCC--CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc
Confidence 999999999999999999999999999988888755 459999999999999999999999999999999999999852
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
. ..++....+.... .....+..+|++...++ .|.++++..|+.++..+||+++++++|++++
T Consensus 218 ~-~~~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~Y~~~~~~~~A~~~a 293 (334)
T cd06327 218 G-QKLAGLLLFLTDV---HSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGKMPSMVQAGAYSAVLHYLKAVEAA 293 (334)
T ss_pred C-CcEEEecccHHHH---HhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHHH
Confidence 2 2233332222111 11122467888877765 3444556678899999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCc-cccceeeEEEe--cCcccc
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTR-FKGLTGDYIFV--DGQLQS 282 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~-f~g~~G~i~fd--~G~~~~ 282 (783)
++. +++++.++|++++ ++++.|+++|+ +|+...
T Consensus 294 g~~-----------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~ 329 (334)
T cd06327 294 GTD-----------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVH 329 (334)
T ss_pred CCC-----------------------ChHHHHHhccccceeccCCCCceeeccccchhc
Confidence 976 4677999999885 68899999995 566543
No 46
>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=99.94 E-value=1e-26 Score=247.38 Aligned_cols=261 Identities=20% Similarity=0.285 Sum_probs=178.1
Q ss_pred cCCeEEEEccCCchh-HHHHHcccCCCCccEEeeccCC-CCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMP-TNFIIQPGNKSQVPILSFSATS-PSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~-~~av~~~~~~~~vP~Is~~a~s-~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+++|.|||||.+|.. +.+++++|++.+||+|+++... |.+...+++ ..++.|++..|+.|+++++++|||++|++||
T Consensus 63 ~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~-~i~l~P~~~~~~~Ai~dli~~~~W~~v~~iY 141 (333)
T cd06394 63 PKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFA-SVNLHPSNEDISVAVAGILNSFNYPTASLIC 141 (333)
T ss_pred hcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccce-EEEecCCHHHHHHHHHHHHHhcCCCEEEEEE
Confidence 459999999999975 6799999999999999986442 332222223 3788999999999999999999999999999
Q ss_pred EeCCcCCcchHHHHHHHhhCCc---eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 84 VDNQYGEAMIPSLTDALHAIDT---RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~---~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++++ ...|.+.++..+. .+.... ..++.|++++|.+|+++++|+||++++.+.+..+++||+++||+.
T Consensus 142 e~d~~----l~~L~~~l~~~~~~~~~i~~~~----~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~ 213 (333)
T cd06394 142 AKAEC----LLRLEELLRQFLISKETLSVRM----LDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTS 213 (333)
T ss_pred eCcHH----HHHHHHHHHhhcccCCceeeEE----ccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCC
Confidence 99997 4555566655432 222111 123568999999999999999999999999999999999999999
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCC
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSS 240 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~ 240 (783)
+.|+|++|+......+..+ .......+-++...+ ++. ..+.-+.++.++.-....+..
T Consensus 214 ~~y~~i~T~l~~~~~~L~~--~~~~~~niTgF~l~d--------~~~------~~v~~f~~~~~~~~~~~~~~~------ 271 (333)
T cd06394 214 AFYKYILTTMDFPLLRLDS--IVDDRSNILGFSMFN--------QSH------AFYQEFIRSLNQSWRENCDHS------ 271 (333)
T ss_pred CceEEEEecCCcccccHHH--hhcCCcceEEEEeec--------CCc------HHHHHHHHHHHHhhhhhcccc------
Confidence 9999999986554322211 111111222232211 110 112222333332110000000
Q ss_pred CCcccccccCCCChHHHHHHHH--cCccccceeeEEEe-cCccccceEEEEEec-CCcEEEEEECCCCCCc
Q 036525 241 NATDLEAFGISQNGPKLLQALS--STRFKGLTGDYIFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT 307 (783)
Q Consensus 241 ~~~~~~~~~~~~~g~~l~~aL~--~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~~~~vg~w~~~~~~~ 307 (783)
.+ .+...-.||. .+..-|+||+++|| +|+|.....+|+++. +|.++||.|++..|++
T Consensus 272 ---------~~-~~~~~~~al~~D~v~~~glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 272 ---------PY-TGPALSSALLFDAVYAVGLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred ---------cC-CCcccceeeecceEEEEeeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 00 0000111111 12222999999997 899999999999999 9999999999998875
No 47
>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=99.94 E-value=4e-26 Score=248.07 Aligned_cols=261 Identities=15% Similarity=0.108 Sum_probs=208.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~~va 80 (783)
+|+++++|.+|+|+.+|+.+.++.+++++.++|+|++.+.+. ...+||+||+.+++..++..+++++.. .|+++|+
T Consensus 61 ~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~va 137 (348)
T cd06355 61 KLLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFY 137 (348)
T ss_pred HHHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEE
Confidence 578888999999999999999999999999999998764322 235799999999999999999999865 5799999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+|+.|++||++..+.+++.+++.|++|+....++.+ ..||++++.+|++.+||+|++...+.++..+++|+++.|+..
T Consensus 138 ii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 215 (348)
T cd06355 138 LVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLG--HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITA 215 (348)
T ss_pred EECCcchHHHHHHHHHHHHHHHcCCeEEeeEEecCC--hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCc
Confidence 999999999999999999999999999998888754 469999999999999999999999999999999999999865
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccc--cchHHHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAE--LNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~--~~~~~~~aYDAv~~la~Al~ 224 (783)
....++... +... .+.....+..+|++....+ +|.+.++.. |+.++..+||+++++++|++
T Consensus 216 ~~~~~~~~~-~~~~--~~~~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~ 292 (348)
T cd06355 216 SKVPVLSFS-VAEE--ELRGIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVE 292 (348)
T ss_pred cCCeeEEcc-ccHH--HHhhcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHH
Confidence 433445433 2211 1111112456777664432 444555543 35678899999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEec-CccccceEEEEEec-CC
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVD-GQLQSSAFEIINVN-NG 293 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~-G~~~~~~~~I~~~~-~~ 293 (783)
++++. ++++|+++|++++|+++.|.++|+. ++.....+.|.+++ +|
T Consensus 293 ~ag~~-----------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g 340 (348)
T cd06355 293 KAGSF-----------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADG 340 (348)
T ss_pred HhCCC-----------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCC
Confidence 99865 5789999999999999999999973 33233566677776 44
No 48
>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=99.94 E-value=2.6e-26 Score=248.17 Aligned_cols=250 Identities=19% Similarity=0.241 Sum_probs=205.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcC-CeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFG-WREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~g-w~~va 80 (783)
+|+++++|.+|+|+.+|..+.++++++++.++|+|+++++++.++ .++||+||+.+++..++.++++++++.+ |++|+
T Consensus 60 ~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ 138 (332)
T cd06344 60 ELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVA 138 (332)
T ss_pred HHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEE
Confidence 578888999999999999999999999999999999998888887 4689999999999999999999998876 99999
Q ss_pred EEEEeCC-cCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 81 PIYVDNQ-YGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 81 ii~~d~~-~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+|+.|+. ||+...+.+.+.+++ .|++++....+ ..++.|+.+++.++++.+||+|++.+...+...+++++++.|.
T Consensus 139 ~i~~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~--~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 216 (332)
T cd06344 139 IFYNSTSPYSQSLKQEFTSALLERGGGIVVTPCDL--SSPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG 216 (332)
T ss_pred EEeCCCchHhHHHHHHHHHHHHHhcCCeeeeeccC--CCCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC
Confidence 9998876 999999999999999 59988765443 3445588899999999999999999999899999999999875
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
..+ +++++.+... ... .......+|+++..++ .|.++++.+|+.++..+||+++++++|++++
T Consensus 217 ~~~---i~~~~~~~~~-~~~-~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~a~~~Yda~~~l~~A~~~a 291 (332)
T cd06344 217 RLT---LLGGDSLYTP-DTL-LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWGGDVSWRTATAYDATKALIAALSQG 291 (332)
T ss_pred Cce---EEecccccCH-HHH-HhchhhhcCeEEEEecccccccchHHHHHHHHHhcCCchHHHHhHHHHHHHHHHHHHhC
Confidence 322 5555554322 111 1223567888888776 3334456678899999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHH-HHHHcCccccceeeEEEe-cCcccc
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLL-QALSSTRFKGLTGDYIFV-DGQLQS 282 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~-~aL~~~~f~g~~G~i~fd-~G~~~~ 282 (783)
++. ++..+. .++++..|+|+.|+++|+ +||+..
T Consensus 292 g~~-----------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 292 PTR-----------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred CCh-----------------------hhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 865 234455 677788899999999997 898754
No 49
>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=99.94 E-value=2.9e-26 Score=248.87 Aligned_cols=244 Identities=17% Similarity=0.168 Sum_probs=207.3
Q ss_pred cccccCCeEEEEccCCchhHHHH-------HcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHH
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFI-------IQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKA 73 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av-------~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~ 73 (783)
+|+++ +|.+||||.+|..+.++ ++++++++||+|+++++++.++. ..+||+||+.|++..++.++++++..
T Consensus 61 ~lv~~-~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~ 139 (342)
T cd06329 61 KAIDD-GVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKK 139 (342)
T ss_pred HHHHh-CCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHh
Confidence 46776 99999999999999999 88889999999999988888876 46899999999999999999999987
Q ss_pred cC-CeEEEEEEEeCCcCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHH
Q 036525 74 FG-WREAVPIYVDNQYGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIF 150 (783)
Q Consensus 74 ~g-w~~vaii~~d~~~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~ 150 (783)
.+ |++|++++.|+.||+...+.+++.+++ .|++|+....++.+. ..|+.+++.++++.+||+|++...+.++..++
T Consensus 140 ~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~-~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~ 218 (342)
T cd06329 140 QPDGKKVYLINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDLHPLGK-VKDFSPYVAKIKASGADTVITGNWGNDLLLLV 218 (342)
T ss_pred cccCceEEEEeCChHHHHHHHHHHHHHHHhhcCCcEEeceeccCCCC-CCchHHHHHHHHHcCCCEEEEcccCchHHHHH
Confidence 75 999999999999999999999999999 999999887777543 15999999999999999999999888999999
Q ss_pred HHHHHcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHH
Q 036525 151 EKANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDAT 216 (783)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv 216 (783)
+++++.|+..+ ++........ +.....+..+|++...++ .|.+.++..|+.++..+||++
T Consensus 219 ~~~~~~g~~~~---~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~y~~~ 292 (342)
T cd06329 219 KQAADAGLKLP---FYTPYLDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYGRVPDYYEGQAYNGI 292 (342)
T ss_pred HHHHHcCCCce---EEeccccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 99999998654 5554433221 112334567788776655 334445567888999999999
Q ss_pred HHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe
Q 036525 217 RALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV 276 (783)
Q Consensus 217 ~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd 276 (783)
+++++|++++++. +++++.++|++++|+|+.|+++|+
T Consensus 293 ~~~~~a~~~ag~~-----------------------~~~~v~~al~~~~~~~~~g~~~~~ 329 (342)
T cd06329 293 QMLADAIEKAGST-----------------------DPEAVAKALEGMEVDTPVGPVTMR 329 (342)
T ss_pred HHHHHHHHHhCCC-----------------------CHHHHHHHHhCCccccCCCCeEEc
Confidence 9999999998754 578999999999999999999997
No 50
>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=6.6e-26 Score=246.93 Aligned_cols=240 Identities=29% Similarity=0.464 Sum_probs=199.6
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|.+||||.+|..+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++|++++.+
T Consensus 90 ~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~ 169 (348)
T cd06350 90 PKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYSD 169 (348)
T ss_pred CceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 79999999999999999999999999999999999999975 57899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEE
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVW 165 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~ 165 (783)
++||+...+.|++.+++.|++|+..+.++.+....|+..++.+|+++++|+|++++...++..++++++++|+ .. ..|
T Consensus 170 ~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~-~~-~~~ 247 (348)
T cd06350 170 DDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGM-TG-KYW 247 (348)
T ss_pred chhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCC-CC-eEE
Confidence 9999999999999999999999998888765445799999999999999999999999999999999999998 43 445
Q ss_pred EEeCCcccccccCChhhhhcccceeEeeeCCC----CCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccccccCCC
Q 036525 166 IMTDGMTNLLRTLEPSVIDSMQGVIDVRPYEN----PSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVSSN 241 (783)
Q Consensus 166 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~ 241 (783)
+++++|....... ....+.++|++++.++.. ...+.+....+++++|||+++
T Consensus 248 i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~YDav~~----------------------- 303 (348)
T cd06350 248 IISTDWDTSTCLL-LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRKYAYNVYDAVYA----------------------- 303 (348)
T ss_pred EEEccccCccccc-cCCcceeeeEEEEEEEeecCCcCCChHHHHHHHHHHHHhheeE-----------------------
Confidence 5666665431111 233467889988877611 011111112278889998887
Q ss_pred CcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-C----CcEEEEEECCC
Q 036525 242 ATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-N----GARGVGFWTPE 303 (783)
Q Consensus 242 ~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~----~~~~vg~w~~~ 303 (783)
.++|+ +|++. ..+.|++++ . +++.||.|.+.
T Consensus 304 ------------------------------~v~f~~~gd~~-~~~~i~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 304 ------------------------------EVKFDENGDRL-ASYDIINWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred ------------------------------EEEecCCCCcc-cceeEEEEEEcCCcEEEEEEEEEcCC
Confidence 78997 78875 678888886 2 38999999874
No 51
>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=99.94 E-value=7.2e-26 Score=246.93 Aligned_cols=268 Identities=13% Similarity=0.074 Sum_probs=210.8
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+++++|.+||||.+|+.+.++++++++.++|+|....... ....+|+||+.+++..++.++++++...+-+++++
T Consensus 62 ~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~ 138 (374)
T TIGR03669 62 RLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYT 138 (374)
T ss_pred HHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEE
Confidence 578888999999999999999999999999999997532111 23478999999999999999999986543378999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
|++|++||+...+.+++.+++.|++++....++.+ ..||.+++.+|++++||+|++...+.+...+++|++++|+..+
T Consensus 139 l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g--~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~ 216 (374)
T TIGR03669 139 IAADYNFGQLSADWVRVIAKENGAEVVGEEFIPLS--VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP 216 (374)
T ss_pred EcCCcHHHHHHHHHHHHHHHHcCCeEEeEEecCCC--cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc
Confidence 99999999999999999999999999988888754 4599999999999999999999999999999999999998655
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCccccc--chHHHHHHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAEL--NIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~--~~~~~~aYDAv~~la~Al~~ 225 (783)
++............ .......+|+++..++ +|.++++..| +.++..+||+++++++|+++
T Consensus 217 ---~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~ 292 (374)
T TIGR03669 217 ---MGTSTAMAQGYEHK-RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEE 292 (374)
T ss_pred ---ccchhhhhhhhhhh-hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHH
Confidence 33222221110000 0112345677665554 4555555544 66789999999999999999
Q ss_pred hcccccCccccccCCCCcccccccCCCChHHHHHHHHc-CccccceeeEEEe-cCccccceEEEEEec-CC-cEEEEEEC
Q 036525 226 AGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSS-TRFKGLTGDYIFV-DGQLQSSAFEIINVN-NG-ARGVGFWT 301 (783)
Q Consensus 226 a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~-~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~-~~~vg~w~ 301 (783)
+++. ++++|+++|++ .+|+|+.|+++|+ +++.......|.++. ++ .+.+..|.
T Consensus 293 AGs~-----------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 293 AGTT-----------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred hCCC-----------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 9965 57999999997 5799999999998 444344567787887 43 66666665
No 52
>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=99.94 E-value=7.5e-26 Score=245.23 Aligned_cols=257 Identities=16% Similarity=0.229 Sum_probs=215.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++.+++++.+||+|+++++++.+++. ++||+||+.+++..++..+++++...+|++++
T Consensus 59 ~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~ 138 (336)
T cd06360 59 KLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVV 138 (336)
T ss_pred HHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEE
Confidence 46677799999999999999999999999999999999888888764 58999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.|+.||++..+.+++.+++.|++++....++.+ ..||++++.++++.+||+|++.+.+.++..+++++++.|+..
T Consensus 139 ~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~ 216 (336)
T cd06360 139 TVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPFG--TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA 216 (336)
T ss_pred EEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCCC--CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc
Confidence 999999999999999999999999999988777644 459999999999999999999999999999999999999842
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
...+++++.+.... ......+..+|++...++ .|.++++.+|+.++..+||+++++++|++++
T Consensus 217 -~~~~~~~~~~~~~~--~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~~~~~~~~~~yda~~~~~~A~~~a 293 (336)
T cd06360 217 -KIPLIGSGFLTDGT--TLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYPDTPSVYAVQGYDAGQALILALEAV 293 (336)
T ss_pred -CCeEEecccccCHH--HHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHh
Confidence 22366655443221 112334667888776665 3444566778999999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccce
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSA 284 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~ 284 (783)
+++. .+++.+.++|++++|.|+.|+++|+ +|+...+.
T Consensus 294 ~~~~---------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~ 331 (336)
T cd06360 294 GGDL---------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDN 331 (336)
T ss_pred CCCC---------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccce
Confidence 8641 1467899999999999999999997 78876443
No 53
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.94 E-value=1.1e-25 Score=245.62 Aligned_cols=260 Identities=25% Similarity=0.302 Sum_probs=210.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHH-cCCeEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKA-FGWREA 79 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~~v 79 (783)
+|+.+++|.+|||+.+|..+.++.+++++.++|+|+++++++.++.. ..+++||+++++.+|+.++++++.. .+.++|
T Consensus 72 ~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v 151 (366)
T COG0683 72 KLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRV 151 (366)
T ss_pred HHHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEE
Confidence 57888999999999999999999999999999999999999988764 4456999999999999999999965 555699
Q ss_pred EEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 80 VPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 80 aii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
++|+.|+.||++..+.+++.+++.|++++..+.+.+... +|.+++.++++++||+|++.+...+...|++|+++.|+.
T Consensus 152 ~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~--~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~ 229 (366)
T COG0683 152 AIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDT--DFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLK 229 (366)
T ss_pred EEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCC--ChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCC
Confidence 999999999999999999999999998666566665434 699999999999999999999999999999999999986
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccc-eeEeeeC--------------CCCCCcc--cccchHHHHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQG-VIDVRPY--------------ENPSLFD--AELNIIGLLAYDATRALAEA 222 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g-~~~~~~~--------------~~~~~~~--~~~~~~~~~aYDAv~~la~A 222 (783)
.. .+..++.... . .........++ .+....+ +|.++++ ..++.++..+||+++++++|
T Consensus 230 ~~---~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~a 304 (366)
T COG0683 230 AK---LIGGDGAGTA-E-FEEIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKA 304 (366)
T ss_pred Cc---cccccccCch-h-hhhhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHH
Confidence 54 2333322211 0 00011122223 3232222 3444455 45677999999999999999
Q ss_pred HHHhcc-cccCccccccCCCCcccccccCCCChHHHHHHHHcCc-cccceeeEEEe-cCccccceEEEEEec
Q 036525 223 VEKAGI-TSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTR-FKGLTGDYIFV-DGQLQSSAFEIINVN 291 (783)
Q Consensus 223 l~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~-f~g~~G~i~fd-~G~~~~~~~~I~~~~ 291 (783)
+++++. . +++++.++|+... +++.+|.+.|+ +|++....+.|.+++
T Consensus 305 i~~a~~~~-----------------------d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~ 353 (366)
T COG0683 305 IEKAGKSS-----------------------DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQ 353 (366)
T ss_pred HHHHhcCC-----------------------CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEE
Confidence 999984 2 4688999999887 78999999998 799988999999988
No 54
>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=99.94 E-value=2.2e-25 Score=241.84 Aligned_cols=269 Identities=15% Similarity=0.167 Sum_probs=185.0
Q ss_pred ccccCCe--EEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 3 LLNNAQV--RVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 3 Li~~~~V--~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
++++ +| .|||||.+|..+..++.+|+.++||+|+++.. ..++.++||++|+.|++..+++|+++++++|+|++|+
T Consensus 61 ~~~~-gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~ 137 (368)
T cd06383 61 KADS-AIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAA 137 (368)
T ss_pred HHHc-cCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEE
Confidence 4544 66 79999999999999999999999999998543 2233579999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHH-HHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCc-eEEEEEcChhhHHHHHHHHHHcCc
Q 036525 81 PIYVDNQYGEAMIPSLTD-ALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQT-RVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~-~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~-dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+||++++++......+.+ .....+.++. +. ...++...|.+|++.+. +||+++..++.+..++++|.++||
T Consensus 138 iIYddd~gl~~~l~~~l~~~~~~~~~~v~-----~~--~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm 210 (368)
T cd06383 138 ILYDDDFVMDHKYKSLLQNWPTRHVITII-----NS--IIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGF 210 (368)
T ss_pred EEEEcCchhhHHHHHHHHhHHhcCCEEEE-----ec--cchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCC
Confidence 999776644323333333 2333344432 11 22478899999999988 444555445999999999999999
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC---C---------CCC-----CcccccchHHHHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY---E---------NPS-----LFDAELNIIGLLAYDATRALAE 221 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~---------~~~-----~~~~~~~~~~~~aYDAv~~la~ 221 (783)
+..+|+||+++......+... ....-.++.++... + ..+ ....+...-++.+||||+++++
T Consensus 211 ~~~~y~wilt~ld~~~~dl~~--~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~ 288 (368)
T cd06383 211 MGRKYAWFLGNPDLGIYDDLS--CQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGE 288 (368)
T ss_pred cCCceEEEEcCCCchhhhhhh--hccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhcc
Confidence 999999999996544322111 11222344444442 0 000 0001224468999999999999
Q ss_pred HHHHhcccccCccccccCC-CCcccccc---cCC-CChHHHHHHHHcCccccceeeEEEe-cCccccceEEEE
Q 036525 222 AVEKAGITSFGFDKINVSS-NATDLEAF---GIS-QNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEII 288 (783)
Q Consensus 222 Al~~a~~~~~~~~~~~~~~-~~~~~~~~---~~~-~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~ 288 (783)
|++......... .+.. ....|... -+| ..|..+.++|+.++|+|+||.|+|| +|+|. .|.+.
T Consensus 289 a~~~l~~~~~~~---~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~--~~~l~ 356 (368)
T cd06383 289 WPRRMRKKRVED---GSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVS--TKTIG 356 (368)
T ss_pred ccchhheeeccC---CCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceee--eeeee
Confidence 999763211111 1110 01123221 134 5666999999999999999999997 88875 44443
No 55
>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=99.93 E-value=1e-25 Score=244.98 Aligned_cols=255 Identities=20% Similarity=0.222 Sum_probs=208.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+++++|.+|||+.+|..+.+ ++++++.++|+|++.++++.++...++|+||+.|++..++.+++++++..+|++|++
T Consensus 65 ~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~i 143 (347)
T cd06336 65 RLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVAL 143 (347)
T ss_pred HHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEE
Confidence 5787889999999999999988 999999999999999999988866789999999999999999999998889999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHHHcCccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKANEIGLMN 160 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~~~g~~~ 160 (783)
|+.|++||+...+.+++.+++.|++++....++.+ ..||++++.+|+++++|+|++.+... ++..++++++++|+..
T Consensus 144 l~~d~~~g~~~~~~~~~~l~~~G~~vv~~~~~~~~--~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~ 221 (347)
T cd06336 144 LGPNDAYGQPWVAAYKAAWEAAGGKVVSEEPYDPG--TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKG 221 (347)
T ss_pred EccCCchhHHHHHHHHHHHHHcCCEEeeecccCCC--CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCc
Confidence 99999999999999999999999999988888755 45999999999999999999999999 9999999999999865
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC----------------CCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY----------------ENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~----------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
+ ++...+.... ........+.++|++...++ +|.++++..|+.++..+||+++++++|++
T Consensus 222 ~---~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~~~~~~~~Al~ 297 (347)
T cd06336 222 G---FLSCTGDKYD-ELLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGEPPNSEAAVSYDAVYILKAAME 297 (347)
T ss_pred c---EEeccCCCch-HHHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHHH
Confidence 4 3332222111 01111223567888877664 12233456688899999999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHc--------CccccceeeEEEe-cCccccceEE
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSS--------TRFKGLTGDYIFV-DGQLQSSAFE 286 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~--------~~f~g~~G~i~fd-~G~~~~~~~~ 286 (783)
++++. ++.++++++.. ..|.++.|.+.|| +||...+.+.
T Consensus 298 ~ag~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 345 (347)
T cd06336 298 AAGSV-----------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWPV 345 (347)
T ss_pred hcCCC-----------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCccc
Confidence 99865 23445555433 4688999999998 9998766544
No 56
>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=99.93 E-value=2.1e-25 Score=240.96 Aligned_cols=249 Identities=17% Similarity=0.192 Sum_probs=202.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+++++|.+|+||.+|..+.++++++++.++|+|+++++++.++.. +++|+||+.+++..++.++++++... +++|+
T Consensus 62 ~li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~ 140 (333)
T cd06328 62 ELIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIA 140 (333)
T ss_pred HHHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEE
Confidence 57888899999999999999999999999999999999999998763 57999999998888899888888766 89999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHHHcCcc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKANEIGLM 159 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~~~g~~ 159 (783)
+|+.|++||++..+.+++.+++.|++|+....++++ ..||.+++.+|++++||+|++...+. +...+++++.+.|+.
T Consensus 141 ~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~ 218 (333)
T cd06328 141 TLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTD--TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYG 218 (333)
T ss_pred EEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCC--CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCC
Confidence 999999999999999999999999999998888754 45999999999999999998876555 678888898888875
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC-------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
.. ............ ........+|+.....+ +|.++++..|+.+++.+||++.++++|++++
T Consensus 219 ~~---~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~p~~~~~~~y~a~~~l~~Ai~~a 293 (333)
T cd06328 219 IE---ITLAGDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFGSPPDLFTAGGMSAAIAVVEALEET 293 (333)
T ss_pred Ce---EEecccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHHHHHHHHHHHh
Confidence 33 222222221111 01122345565544332 4555667788999999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe--cCccc
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV--DGQLQ 281 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd--~G~~~ 281 (783)
++. ++++++++|++..|+++.|+++|+ +++..
T Consensus 294 g~~-----------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~ 327 (333)
T cd06328 294 GDT-----------------------DTEALIAAMEGMSFETPKGTMTFRKEDHQAL 327 (333)
T ss_pred CCC-----------------------CHHHHHHHHhCCeeecCCCceEECcccchhh
Confidence 843 578999999999999999999996 45543
No 57
>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=99.93 E-value=1.9e-25 Score=241.71 Aligned_cols=247 Identities=15% Similarity=0.120 Sum_probs=202.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+++++|.+|+||.+|..+.++.+++++.+||+|++.+.+.. ..+||+||+.+++..++.++++++...+|++|++
T Consensus 61 ~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~i 137 (333)
T cd06331 61 RLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYL 137 (333)
T ss_pred HHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEE
Confidence 5788889999999999999999999999999999997653321 2468999999999999999999987767999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
|+.|+.||+...+.+.+.+++.|.+|+....++.+ ..||++++.++++.++|+|++.+.+.+...+++|+++.|+...
T Consensus 138 l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~ 215 (333)
T cd06331 138 IGSDYVWPRESNRIARALLEELGGEVVGEEYLPLG--TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDAD 215 (333)
T ss_pred ECCCchhHHHHHHHHHHHHHHcCCEEEEEEEecCC--cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcC
Confidence 99999999999999999999999999988888855 4599999999999999999999999999999999999998633
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCccc--ccchHHHHHHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDA--ELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~--~~~~~~~~aYDAv~~la~Al~~ 225 (783)
.. ++.+..+... . +........+|++...++ +|.++++. .|+.++..+||+++++++|+++
T Consensus 216 ~~-~~~~~~~~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ 292 (333)
T cd06331 216 RI-PILSLTLDEN-E-LAAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEK 292 (333)
T ss_pred CC-eeEEcccchh-h-hhccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHH
Confidence 33 3333332221 1 111122456788877654 23333443 3678999999999999999999
Q ss_pred hcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCc
Q 036525 226 AGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQ 279 (783)
Q Consensus 226 a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~ 279 (783)
+++. ++++|+++|++++|+|++|.++|+ +++
T Consensus 293 ag~~-----------------------~~~~l~~al~~~~~~~~~G~i~f~~~~~ 324 (333)
T cd06331 293 AGST-----------------------DPEAVRAALEGVSFDAPQGPVRIDPDNH 324 (333)
T ss_pred cCCC-----------------------CHHHHHHHhhcCcccCCCCceEecCCCC
Confidence 8754 578999999999999999999997 444
No 58
>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=99.93 E-value=2.8e-25 Score=240.31 Aligned_cols=257 Identities=19% Similarity=0.221 Sum_probs=207.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++++++++.+||+|+++++++.+.. ..+||+||+.+++..+..+++++++..||++|+
T Consensus 59 ~lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~va 138 (333)
T cd06359 59 RLIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVF 138 (333)
T ss_pred HHHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEE
Confidence 5777789999999999999999999999999999999877666664 358999999999999999999999989999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++++|++||+...+.+++.++ .+++....++. +..||.+++.++++++||+|++...+.++..+++|+++.|+..
T Consensus 139 il~~~~~~g~~~~~~~~~~~~---~~v~~~~~~~~--~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 213 (333)
T cd06359 139 LIAPNYQAGKDALAGFKRTFK---GEVVGEVYTKL--GQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK 213 (333)
T ss_pred EEecCchhhHHHHHHHHHHhC---ceeeeeecCCC--CCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc
Confidence 999999999999999988774 46666665553 3459999999999999999999888888999999999999843
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
...++++...... ... ....+..+|++...++ .|.++++..|+.++..+||+++++++|++++
T Consensus 214 -~~~~~~~~~~~~~-~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~a 290 (333)
T cd06359 214 -DIPLYSPGFSDEE-DTL-PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYGRLPTLYAAQAYDAAQLLDSAVRKV 290 (333)
T ss_pred -CCeeeccCcccCH-HHH-HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 2235555443321 111 2334567888876655 3444456678899999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEE
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEII 288 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~ 288 (783)
+... .+++.+.++|+++.|+|++|+++|+ +|+.. ....|+
T Consensus 291 g~~~---------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~ 331 (333)
T cd06359 291 GGNL---------------------SDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLR 331 (333)
T ss_pred cCCC---------------------CCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEE
Confidence 7531 1468899999999999999999997 77654 344444
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=99.93 E-value=5e-25 Score=241.31 Aligned_cols=263 Identities=14% Similarity=0.213 Sum_probs=211.8
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHH-HHcCCeEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAII-KAFGWREA 79 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~v 79 (783)
+|+.+++|.+||||.+|..+.++++++++.+||+|++.++++.+++. .+||+||+.|++..++.++++++ +++|+++|
T Consensus 68 ~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v 147 (362)
T cd06343 68 KLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKI 147 (362)
T ss_pred HHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceE
Confidence 57788899999999999999999999999999999998888888764 79999999999999999999986 56799999
Q ss_pred EEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 80 VPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 80 aii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
++|++|+.||++..+.+++.+++.|++++....++.+ ..|+++++.+++++++|+|++.+...++..+++++++.|+.
T Consensus 148 ~ii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 225 (362)
T cd06343 148 AVLYQNDDFGKDYLKGLKDGLGDAGLEIVAETSYEVT--EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWK 225 (362)
T ss_pred EEEEeccHHHHHHHHHHHHHHHHcCCeEEEEeeecCC--CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCC
Confidence 9999999999999999999999999999988888755 45999999999999999999999999999999999999986
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC-------------------CCCCCccc--ccchHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-------------------ENPSLFDA--ELNIIGLLAYDATRA 218 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-------------------~~~~~~~~--~~~~~~~~aYDAv~~ 218 (783)
.. ++.++.+......+.....+..+|++....+ .|.+.++. +|+.++..+||++.+
T Consensus 226 ~~---~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~ 302 (362)
T cd06343 226 PT---FLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAET 302 (362)
T ss_pred ce---EEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Confidence 54 5655544322110112223557787766543 11122333 378899999999999
Q ss_pred HHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCcc---c-cceeeEEEe-cCccccceEEEEEec
Q 036525 219 LAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRF---K-GLTGDYIFV-DGQLQSSAFEIINVN 291 (783)
Q Consensus 219 la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f---~-g~~G~i~fd-~G~~~~~~~~I~~~~ 291 (783)
+++|+++++.. .+++.|+++|+++++ . +..|++.|+ +++.......|.+++
T Consensus 303 ~~~a~~~ag~~----------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 358 (362)
T cd06343 303 LVKVLKQAGDD----------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFE 358 (362)
T ss_pred HHHHHHHhCCC----------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEe
Confidence 99999999743 146889999999886 3 344588996 333334566666665
No 60
>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=99.93 E-value=7.4e-25 Score=237.79 Aligned_cols=257 Identities=17% Similarity=0.255 Sum_probs=210.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH-HHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII-KAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~va 80 (783)
+|+++++|.+|+|+.+|+.+.++++++++.+||+|+++++++.+++ ..+|+||+.+++..++.++++++ +++||++|+
T Consensus 61 ~li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ 139 (340)
T cd06349 61 KFVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVA 139 (340)
T ss_pred HHhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEE
Confidence 5888899999999999999999999999999999999988787764 47999999999999999999996 678999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.|++||+...+.+++.+++.|++++....++++ ..|+++++.+|++++||+|++.+.+.++..+++++++.|+..
T Consensus 140 ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 217 (340)
T cd06349 140 ILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPG--EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI 217 (340)
T ss_pred EEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCC--CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC
Confidence 999999999999999999999999999988877755 459999999999999999999999999999999999999865
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
+ +++...+... ..+ ....+..+|++...+| +|.++++..|+.++..+||++.++++|++++
T Consensus 218 ~---~~~~~~~~~~-~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~~~~~~~~a~~~a 292 (340)
T cd06349 218 P---VVASSSVYSP-KFI-ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGAQPDAFAAQAYDAVGILAAAVRRA 292 (340)
T ss_pred c---EEccCCcCCH-HHH-HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCCCcchhhhhHHHHHHHHHHHHHHh
Confidence 5 5554433211 111 1223467888877655 2334455678899999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHH--HcCccccceeeEEEe-c-CccccceEEEEEec
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQAL--SSTRFKGLTGDYIFV-D-GQLQSSAFEIINVN 291 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL--~~~~f~g~~G~i~fd-~-G~~~~~~~~I~~~~ 291 (783)
+++ +.. ...++ .+..+.+++|.++|+ + ++.. ..+.++.++
T Consensus 293 g~~-----------------------~~~-~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~ 336 (340)
T cd06349 293 GTD-----------------------RRA-ARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVR 336 (340)
T ss_pred CCC-----------------------CHH-HHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEe
Confidence 865 122 33334 455688999999997 4 5554 477777665
No 61
>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=99.93 E-value=7.2e-25 Score=237.32 Aligned_cols=251 Identities=22% Similarity=0.311 Sum_probs=208.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH-HHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII-KAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~va 80 (783)
+|+++++|.+||||.+|..+.++++++++.+||+|+++++.+.+++. .+|+||+.+++..++.++++++ ++++|++|+
T Consensus 61 ~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ 139 (334)
T cd06347 61 RLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAA 139 (334)
T ss_pred HHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEE
Confidence 57777899999999999999999999999999999999887777653 4599999999999999999997 567999999
Q ss_pred EEEEeC-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 81 PIYVDN-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 81 ii~~d~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+|+.++ +|++...+.+++.+++.|++++....++.+ ..|+.+.+.++++.++|+|++.+...+...+++++++.|+.
T Consensus 140 ii~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~ 217 (334)
T cd06347 140 VLYDNSSDYSKGLAKAFKEAFKKLGGEIVAEETFNAG--DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK 217 (334)
T ss_pred EEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEEecCC--CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC
Confidence 999886 899999999999999999999988877754 34899999999999999999999999999999999999985
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
.+ |++++.|..... ........+|++...++ .|.+.++..|+.++..+||+++++++|+++
T Consensus 218 ~~---i~~~~~~~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~Al~~ 292 (334)
T cd06347 218 VP---ILGGDGWDSPKL--EEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYGKEPDAFAALGYDAYYLLADAIER 292 (334)
T ss_pred Cc---EEecccccCHHH--HHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCCCcchhHHHHHHHHHHHHHHHHH
Confidence 43 777777664211 11233567888777665 222334456888899999999999999999
Q ss_pred hcccccCccccccCCCCcccccccCCCChHHHHHHHHcC-ccccceeeEEEe-cCccccc
Q 036525 226 AGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSST-RFKGLTGDYIFV-DGQLQSS 283 (783)
Q Consensus 226 a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~-~f~g~~G~i~fd-~G~~~~~ 283 (783)
+++. +++.+.++|++. +|+|++|.++|+ +|+....
T Consensus 293 ag~~-----------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 293 AGST-----------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred hCCC-----------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 8753 468899998765 699999999997 7876533
No 62
>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=99.93 E-value=2.5e-24 Score=235.05 Aligned_cols=260 Identities=14% Similarity=0.116 Sum_probs=207.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
||+++++|.+|||+.+|..+.++++++++.++|++.+++... . ...+++|++.+++..++.++++++...+-+++++
T Consensus 61 ~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~ 137 (360)
T cd06357 61 RLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFL 137 (360)
T ss_pred HHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEE
Confidence 578888999999999999999999999999999998765322 1 2347888988888888889999987666689999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
|++|++||++..+.+++.+++.|++++....++.+.++.||++++.++++++||+|++.+.+.++..++++++++|+...
T Consensus 138 i~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~ 217 (360)
T cd06357 138 VGSNYIYPYESNRIMRDLLEQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPA 217 (360)
T ss_pred ECCCCcchHHHHHHHHHHHHHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCcc
Confidence 99999999999999999999999999987667766556799999999999999999999999999999999999998644
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccc--cchHHHHHHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAE--LNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~--~~~~~~~aYDAv~~la~Al~~ 225 (783)
. +.+.+...... .+.....+..+|+++..++ +|.++|+.. ++.++..+||+++++++|+++
T Consensus 218 ~-~~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ 294 (360)
T cd06357 218 R-MPIASLTTSEA--EVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQR 294 (360)
T ss_pred C-ceeEEeeccHH--HHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 2 23333322211 1111223567888887654 344555544 577899999999999999999
Q ss_pred hcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEe
Q 036525 226 AGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINV 290 (783)
Q Consensus 226 a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~ 290 (783)
+++. +++.|+++|++++|+++.|.++|+ .++.......+.++
T Consensus 295 ag~~-----------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~ 337 (360)
T cd06357 295 AGSD-----------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARV 337 (360)
T ss_pred cCCC-----------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEE
Confidence 9854 468899999999999999999998 44433345556666
No 63
>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=99.92 E-value=2.3e-24 Score=235.22 Aligned_cols=261 Identities=13% Similarity=0.101 Sum_probs=204.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~~va 80 (783)
+|+++++|.+|+||.+|..+.++.+++++.++|+|.+.... .....||+||+.+++..++.++++++.. .|.++|+
T Consensus 62 ~Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~ 138 (359)
T TIGR03407 62 KLITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFF 138 (359)
T ss_pred HHHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEE
Confidence 57888899999999999999999999999999999875322 1246799999999999999999999876 5999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.|++||++..+.+++.+++.|++++....++.+ ..||++++.+|++++||+|++...+.+...+++++++.|+..
T Consensus 139 ~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~ 216 (359)
T TIGR03407 139 LLGSDYVFPRTANKIIKAYLKSLGGTVVGEDYTPLG--HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITA 216 (359)
T ss_pred EecCccHHHHHHHHHHHHHHHHcCCEEEeeEEecCC--hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCc
Confidence 999999999999999999999999999988887754 569999999999999999999888888899999999999854
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCccccc--chHHHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAEL--NIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~--~~~~~~aYDAv~~la~Al~ 224 (783)
....++...........+. .+.++|++....+ +|.+.++..+ +.++..+||+++++++|++
T Consensus 217 ~~~~~~~~~~~~~~~~~~g---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~ 293 (359)
T TIGR03407 217 KDVPVVSFSVAEEEIRGIG---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVE 293 (359)
T ss_pred cCCcEEEeecCHHHHhhcC---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHH
Confidence 4322344332211111111 2456777654322 3444444433 4456789999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEec-CccccceEEEEEec-CC
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVD-GQLQSSAFEIINVN-NG 293 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~-G~~~~~~~~I~~~~-~~ 293 (783)
++++. ++++++++|++++|+++.|+++|+. ++.....+.+.++. +|
T Consensus 294 ~ag~~-----------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g 341 (359)
T TIGR03407 294 KAGSF-----------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADG 341 (359)
T ss_pred HhCCC-----------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCC
Confidence 99865 5789999999999999999999972 33233556666765 44
No 64
>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=99.92 E-value=2.9e-23 Score=221.04 Aligned_cols=276 Identities=17% Similarity=0.182 Sum_probs=193.2
Q ss_pred CCeEEEEcc-CCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEE--EeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 7 AQVRVMLGP-EDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFF--RGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp-~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~f--r~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
.||.||+|| .++..+..+..+|+..+||+|+++..++...+ ..++.| ++.|+...++.|+.+++++|+|++|++||
T Consensus 80 ~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~-~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy 158 (382)
T cd06377 80 QGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGS-QNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVL 158 (382)
T ss_pred CCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccC-CCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEE
Confidence 499999995 77788899999999999999998654432211 234444 66999999999999999999999999999
Q ss_pred EeCCcCCcchHHHHHHHhhCCc-eEeEEEecCCC-CChhHH-HHHHHHHhccC-ceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQYGEAMIPSLTDALHAIDT-RVPYRSVISPL-ATDDQI-EKELYKLFTMQ-TRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~-~v~~~~~i~~~-~~~~d~-~~~l~~l~~~~-~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+.++....+.+.++ .....+. .+......+.. .+..++ ++.|.+|++.. +++|++.|+.+.+..+++++.+
T Consensus 159 ~~~~gl~~lq~l~~-~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~---- 233 (382)
T cd06377 159 CRERDPTGLLLLWT-NHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP---- 233 (382)
T ss_pred ecCcCHHHHHHHHH-HhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc----
Confidence 88875444333322 2222221 12222222211 123355 99999999999 9999999999999999988754
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccccccC
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVS 239 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~ 239 (783)
+|+||+++... .+.+. .....-|.++... . . .....+..||||+++|+|++.+....... ...
T Consensus 234 --~y~wIv~~~~~--le~~~--~~g~nigLl~~~~--~---~---~~~l~ali~DAV~lvA~a~~~l~~~~~~~---~l~ 296 (382)
T cd06377 234 --GPHWILGDPLP--PEALR--TEGLPPGLLAHGE--T---T---QPPLEAYVQDALELVARAVGSATLVQPEL---ALI 296 (382)
T ss_pred --ceEEEEcCCcC--hhhcc--CCCCCceEEEEee--c---c---cccHHHHHHHHHHHHHHHHHHhhhccccc---ccC
Confidence 49999987321 11111 1123334443211 1 1 11338999999999999999874211100 111
Q ss_pred CCCcccccc--c-CCCChHHHHHHHHcCccccceeeEEEecCcc--ccceEEEEEec---CC---cEEEEEECCCCC
Q 036525 240 SNATDLEAF--G-ISQNGPKLLQALSSTRFKGLTGDYIFVDGQL--QSSAFEIINVN---NG---ARGVGFWTPEKG 305 (783)
Q Consensus 240 ~~~~~~~~~--~-~~~~g~~l~~aL~~~~f~g~~G~i~fd~G~~--~~~~~~I~~~~---~~---~~~vg~w~~~~~ 305 (783)
....+|... . .|.+|..|.++|++++|+|+||.|.|+.|.+ ....++|++++ .| |++||.|++...
T Consensus 297 ~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~~g~R~~~~~~l~I~~L~~~~~G~~~W~kVG~W~~~~~ 373 (382)
T cd06377 297 PATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVTGSSQVHSSRHFKVWSLRRDPVGQPTWTTVGSWQGGRK 373 (382)
T ss_pred CCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEccCeeecccceEEEEEeccccCCCccceEEEEecCCCc
Confidence 111355433 4 8999999999999999999999999987887 78899999997 34 699999998733
No 65
>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=1.4e-24 Score=236.18 Aligned_cols=252 Identities=21% Similarity=0.181 Sum_probs=204.6
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHc--CCeE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAF--GWRE 78 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~ 78 (783)
+|+.+++|.+||||.+|..+.++++++++.+||+|++.++++.+++ ..++|+||+.+++..++.+++++++.+ +|++
T Consensus 61 ~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (346)
T cd06330 61 ELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKT 140 (346)
T ss_pred HHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccE
Confidence 5777789999999999999999999999999999999988888875 578999999999999999999999876 4999
Q ss_pred EEEEEEeCCcCCcchHHHHHHHhhCC--ceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYVDNQYGEAMIPSLTDALHAID--TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~d~~~G~~~~~~~~~~l~~~g--~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|++++.|++||+...+.+++.+++.| ++++....++. ...|+.+++.+|++.++|+|++.+.+.+...+++++++.
T Consensus 141 v~~l~~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~--~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~ 218 (346)
T cd06330 141 WATINPDYAYGQDAWADFKAALKRLRPDVEVVSEQWPKL--GAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANAR 218 (346)
T ss_pred EEEECCchHHHHHHHHHHHHHHHHhCCCCeecccccCCC--CCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhc
Confidence 99999999999999999999999984 55665554443 456999999999999999999999999999999999999
Q ss_pred CccccceEEEEeCCcccccccCChhhhhcccceeEeeeC----------------CCCCCcccccchHHHHHHHHHHHHH
Q 036525 157 GLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY----------------ENPSLFDAELNIIGLLAYDATRALA 220 (783)
Q Consensus 157 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~----------------~~~~~~~~~~~~~~~~aYDAv~~la 220 (783)
|+.. +..|+.+.+..... .....+..+|++....+ .|.++++..|+.++..+||++++++
T Consensus 219 g~~~-~~~~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~y~a~~~l~ 294 (346)
T cd06330 219 GLFD-GTTVVLTLTGAPEL---APLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYGDYPTYGAYGAYQAVMALA 294 (346)
T ss_pred Cccc-CceEEeeccchhhh---hhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHH
Confidence 9854 45577766543221 11223456777654432 2233445667889999999999999
Q ss_pred HHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEecC
Q 036525 221 EAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVDG 278 (783)
Q Consensus 221 ~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~G 278 (783)
+|++++++.... + ..+.|+++|++++|.|+.|++.|+.+
T Consensus 295 ~a~~~a~~~~~~------------------~-~~~~v~~al~~~~~~~~~G~~~f~~~ 333 (346)
T cd06330 295 AAVEKAGATDGG------------------A-PPEQIAAALEGLSFETPGGPITMRAA 333 (346)
T ss_pred HHHHHhcCCCCC------------------C-cHHHHHHHHcCCCccCCCCceeeecC
Confidence 999999865210 0 11579999999999999999999743
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=99.92 E-value=4.4e-24 Score=231.05 Aligned_cols=251 Identities=18% Similarity=0.203 Sum_probs=205.2
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCC-CCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSI-RSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++.+++++.++|+|+++++++.+++. .+||+||+.+++..++..+++++...||++++
T Consensus 59 ~l~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~ 138 (333)
T cd06332 59 KLIEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVV 138 (333)
T ss_pred HHHHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEE
Confidence 45666799999999999999999999999999999999888877764 48999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.++.||++..+.+.+.++ .+++....++.+ ..|+.+++.++++.+||+|++...+.++..+++++++.|+..
T Consensus 139 il~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~--~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~ 213 (333)
T cd06332 139 IIAPDYAAGKDAVAGFKRTFK---GEVVEEVYTPLG--QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK 213 (333)
T ss_pred EEecCcchhHHHHHHHHHhhc---EEEeeEEecCCC--CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc
Confidence 999999999999999999988 466666655543 348999999999999999999988889999999999999832
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccccchHHHHHHHHHHHHHHHHHHh
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAELNIIGLLAYDATRALAEAVEKA 226 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a 226 (783)
...+++++.+.... .........+|++...++ .|.++++..|+.++..+||+++++++|++++
T Consensus 214 -~~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~a 290 (333)
T cd06332 214 -KIPLYGPGFLTDQD--TLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYGRVPSVYAAQGYDAAQLLDAALRAV 290 (333)
T ss_pred -CCceeccCCCCCHH--HHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 22366655444321 112334567888877655 2334455668889999999999999999999
Q ss_pred cccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccc
Q 036525 227 GITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQ 281 (783)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~ 281 (783)
+... .+++.|.++|++++|+|++|++.|+ +|+..
T Consensus 291 g~~~---------------------~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~ 325 (333)
T cd06332 291 GGDL---------------------SDKDALRAALRAADFDSPRGPFKFNPNHNPI 325 (333)
T ss_pred cCCC---------------------CCHHHHHHHHhcCceecCccceeECCCCCcc
Confidence 7541 1457899999999999999999997 78864
No 67
>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=99.92 E-value=5.2e-24 Score=230.21 Aligned_cols=241 Identities=15% Similarity=0.098 Sum_probs=196.0
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
||+.+++|.+|||+.+|..+.++.+++++.++|+|.+.+... ..+.+|+||+.+++..++.++++++...+.+++++
T Consensus 61 ~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vai 137 (334)
T cd06356 61 RLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYT 137 (334)
T ss_pred HHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEE
Confidence 578888999999999999999999999999999998643322 23468999999999999999999987765588999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc-cc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL-MN 160 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~-~~ 160 (783)
|+.|++||++..+.+++.+++.|++++....++.+ ..||++++.+|++.+||+|++.+.+.+...+++++++.|+ ..
T Consensus 138 l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~ 215 (334)
T cd06356 138 IAADYNFGQISAEWVRKIVEENGGEVVGEEFIPLD--VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNI 215 (334)
T ss_pred ECCCchhhHHHHHHHHHHHHHcCCEEEeeeecCCC--chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccC
Confidence 99999999999999999999999999998888755 4599999999999999999999999999999999999998 32
Q ss_pred cceEEEEeCCcccc--cccCChhhhhcccceeEeeeC--------------CCCCCccccc--chHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNL--LRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAEL--NIIGLLAYDATRALAEA 222 (783)
Q Consensus 161 ~~~~~i~~~~~~~~--~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~--~~~~~~aYDAv~~la~A 222 (783)
+ .+........ ...+. ....+|++...++ .|.++++..| +.++..+||+++++++|
T Consensus 216 ~---~~~~~~~~~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~y~a~~~~~~A 289 (334)
T cd06356 216 P---MASSTLGAQGYEHKRLK---PPALKDMYATANYIEELDTPANKAFVERFRAKFPDAPYINEEAENNYEAIYLYKEA 289 (334)
T ss_pred c---eeeeecccchhHHhccC---chhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCCCCCchhHHHHHHHHHHHHH
Confidence 2 2222111110 11111 2456777776554 3344455544 67899999999999999
Q ss_pred HHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHc-CccccceeeEEEe
Q 036525 223 VEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSS-TRFKGLTGDYIFV 276 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~-~~f~g~~G~i~fd 276 (783)
++++++. ++++|+++|++ ..|+|+.|+++|+
T Consensus 290 ~~~ag~~-----------------------~~~~v~~aL~~~~~~~~~~g~~~~~ 321 (334)
T cd06356 290 VEKAGTT-----------------------DRDAVIEALESGLVCDGPEGKVCID 321 (334)
T ss_pred HHHHCCC-----------------------CHHHHHHHHHhCCceeCCCceEEEe
Confidence 9999865 57889999997 4689999999997
No 68
>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=99.91 E-value=3.2e-24 Score=234.01 Aligned_cols=245 Identities=12% Similarity=0.119 Sum_probs=194.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCC--C-----CCCCCeEEEeecCchhhHHHHHHHHHHc
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSL--T-----SIRSPYFFRGALNDSSQVGAITAIIKAF 74 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~l--s-----~~~~~~~fr~~p~~~~~~~ai~~~l~~~ 74 (783)
+|+++++|.+|||+.+|..+.++++++++.+||+|++.+..+.+ + ..+++|+||+.+++..+..+++.+++..
T Consensus 63 ~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 142 (357)
T cd06337 63 ELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQL 142 (357)
T ss_pred HHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhC
Confidence 58888899999999999999999999999999999986543221 1 2347899999999988889999888887
Q ss_pred C-CeEEEEEEEeCCcCCcchHHHH---HHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHH
Q 036525 75 G-WREAVPIYVDNQYGEAMIPSLT---DALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIF 150 (783)
Q Consensus 75 g-w~~vaii~~d~~~G~~~~~~~~---~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~ 150 (783)
+ +++|++++.|+.||+...+.+. +.+++.|++|+..+.++++ ..||++++.+|++++||+|++.+.+.++..++
T Consensus 143 ~~~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~ 220 (357)
T cd06337 143 ETNKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPG--TDDFSSQINAFKREGVDIVTGFAIPPDFATFW 220 (357)
T ss_pred CCCceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCC--CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHH
Confidence 7 9999999999999998877665 5677899999988888765 44999999999999999999999999999999
Q ss_pred HHHHHcCccccceEEEEe-CCc--ccccccCChhhhhcccceeEeeeC--------------------CCCCCcccccch
Q 036525 151 EKANEIGLMNKGCVWIMT-DGM--TNLLRTLEPSVIDSMQGVIDVRPY--------------------ENPSLFDAELNI 207 (783)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~-~~~--~~~~~~~~~~~~~~~~g~~~~~~~--------------------~~~~~~~~~~~~ 207 (783)
+|++++|+..+ ++.. .+. ..... ...+..+|++....+ +|.++++..|..
T Consensus 221 ~~~~~~G~~~~---~~~~~~~~~~~~~~~----~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~~~~~ 293 (357)
T cd06337 221 RQAAQAGFKPK---IVTIAKALLFPEDVE----ALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGRQWTQ 293 (357)
T ss_pred HHHHHCCCCCC---eEEEeccccCHHHHH----HhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCCCccC
Confidence 99999998655 4432 222 11111 122334565543221 333445556667
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEec
Q 036525 208 IGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVD 277 (783)
Q Consensus 208 ~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~ 277 (783)
...++||+++++++|++++++.. ++++|+++|++++++++.|++.|+.
T Consensus 294 ~~~~~~~~~~~l~~Ai~~Ags~~----------------------d~~~v~~aL~~~~~~~~~G~~~f~~ 341 (357)
T cd06337 294 PLGYAHALFEVGVKALVRADDPD----------------------DPAAVADAIATLKLDTVVGPVDFGN 341 (357)
T ss_pred cchHHHHHHHHHHHHHHHcCCCC----------------------CHHHHHHHHHcCCcccceeeeecCC
Confidence 77889999999999999998641 4688999999999999999999973
No 69
>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=99.91 E-value=5.4e-24 Score=230.22 Aligned_cols=242 Identities=17% Similarity=0.180 Sum_probs=197.4
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH-HHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII-KAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~va 80 (783)
+|+.+++|.+|||+.+|..+.++.++++ .+||+|++.+.+.. ...+|+||+.+++..++.+++.++ +..||++|+
T Consensus 61 ~Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ 136 (333)
T cd06358 61 RLVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWY 136 (333)
T ss_pred HHHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEE
Confidence 5788889999999999999999999999 99999998654332 346999999999999988888887 457999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.|+.||+...+.+++.+++.|++|+....++.+ ..||++++.+|++.+||+|++.+.+.+...+++++++.|+..
T Consensus 137 i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 214 (333)
T cd06358 137 LIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLG--TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRD 214 (333)
T ss_pred EEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCC--hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCc
Confidence 999999999999999999999999999988887754 569999999999999999999999999999999999999976
Q ss_pred cceEEEEe-CCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccc---cchHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMT-DGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAE---LNIIGLLAYDATRALAEA 222 (783)
Q Consensus 161 ~~~~~i~~-~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~---~~~~~~~aYDAv~~la~A 222 (783)
+ ++.. ..+.... .........+|++...++ .|.++++.+ |+.++..+||+++++++|
T Consensus 215 ~---~~~~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A 289 (333)
T cd06358 215 R---ILRLSPLMDENM--LLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAA 289 (333)
T ss_pred c---CceeecccCHHH--HHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHH
Confidence 5 3332 2222211 111112456777766543 333445543 677899999999999999
Q ss_pred HHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEec
Q 036525 223 VEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVD 277 (783)
Q Consensus 223 l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~ 277 (783)
++++++. ++++|.++|++++|+|++|+++|+.
T Consensus 290 ~~~ag~~-----------------------~~~~v~~al~~~~~~~~~G~~~~~~ 321 (333)
T cd06358 290 AERAGSL-----------------------DPEALIAALEDVSYDGPRGTVTMRG 321 (333)
T ss_pred HHHhCCC-----------------------CHHHHHHHhccCeeeCCCcceEEcc
Confidence 9998854 4689999999999999999999974
No 70
>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=99.91 E-value=1.2e-23 Score=228.82 Aligned_cols=246 Identities=18% Similarity=0.224 Sum_probs=197.3
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC--CCCCeEEEeecCchhhHHHHHHHHH-HcCCeE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS--IRSPYFFRGALNDSSQVGAITAIIK-AFGWRE 78 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~-~~gw~~ 78 (783)
+|+++++|.+|+||.+|..+.++.+++++.+||+|++.++.+.+++ ..++|+||+.+++..++.++++++. +.+|++
T Consensus 61 ~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~ 140 (347)
T cd06335 61 ELAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKK 140 (347)
T ss_pred HHhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCe
Confidence 5888889999999999999999999999999999999888777764 3568999999999999999999874 566999
Q ss_pred EEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 79 AVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 79 vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
|+++|+|++||+...+.+++.+++.|++++....++++ ..|+++.+.+|++.+||+|++.+.+.+...+++++++.|+
T Consensus 141 v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~ 218 (347)
T cd06335 141 VALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWG--DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGW 218 (347)
T ss_pred EEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCC--CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCC
Confidence 99999999999999999999999999999988888765 4599999999999999999999999999999999999998
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC---------------CCCCCcccc------cchHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY---------------ENPSLFDAE------LNIIGLLAYDATR 217 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---------------~~~~~~~~~------~~~~~~~aYDAv~ 217 (783)
..+ ++........ ..+ ....+..+|++...++ .|.++++.. ++.++..+||+++
T Consensus 219 ~~~---~~~~~~~~~~-~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~ 293 (347)
T cd06335 219 KVP---IISHWGLSGG-NFI-EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVH 293 (347)
T ss_pred CCc---EecccCCcCc-hhh-hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHH
Confidence 543 3332222111 111 1223456777665443 233333333 4566789999999
Q ss_pred HHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcC--ccccceeeE--EEec
Q 036525 218 ALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSST--RFKGLTGDY--IFVD 277 (783)
Q Consensus 218 ~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~--~f~g~~G~i--~fd~ 277 (783)
++++|+++++++ .++.++++|+++ .+.|+.|.+ .|+.
T Consensus 294 ~l~~A~~~ag~~-----------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~ 334 (347)
T cd06335 294 LLAAAIKQAGST-----------------------DGRAIKRALENLKKPVEGLVKTYDKPFSK 334 (347)
T ss_pred HHHHHHHHhcCC-----------------------CHHHHHHHHHhccCCceeeecccCCCCCh
Confidence 999999999865 347799999875 477888865 4643
No 71
>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=99.91 E-value=9e-24 Score=229.64 Aligned_cols=260 Identities=25% Similarity=0.367 Sum_probs=211.4
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHH-HcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIK-AFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~-~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.++.+++++.++|+|++++.++ ...++|+||+.|++..++.++++++. ++|.++++
T Consensus 63 ~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ 139 (343)
T PF13458_consen 63 KLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVA 139 (343)
T ss_dssp HHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEE
T ss_pred HhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEE
Confidence 467778999999999999999999999999999999765443 35689999999999999999999974 58999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+|+.+++||+...+.+++.+++.|++++....++.+. .|+.+.+.++++.++|+|++.+...+...+++++++.|+..
T Consensus 140 iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~--~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 217 (343)
T PF13458_consen 140 IVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPGD--TDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKP 217 (343)
T ss_dssp EEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TTS--SHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCS
T ss_pred EEecCchhhhHHHHHHHHHHhhcCceeccceeccccc--ccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccc
Confidence 9999999999999999999999999998888887554 59999999999999999999999999999999999999864
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCcccc--cchHHHHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAE--LNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~--~~~~~~~aYDAv~~la~Al~ 224 (783)
+.+....+..+...+ .....+..+|++...++ .|.+.++.. |+.++..+||++.++++|++
T Consensus 218 ~~~~~~~~~~~~~~l---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~ 294 (343)
T PF13458_consen 218 PRIPLFGTSLDDASL---QQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALE 294 (343)
T ss_dssp CTEEEEEGGGSSHHH---HHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHH
T ss_pred ccceeeccccCcHHH---HHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHH
Confidence 434333333222221 12223468888888776 233334444 89999999999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe--cCccccceEEEEEec-CC
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV--DGQLQSSAFEIINVN-NG 293 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd--~G~~~~~~~~I~~~~-~~ 293 (783)
++++. +++.++++|++++|+|+.|++.|+ +|+. ...+.|++++ +|
T Consensus 295 ~~g~~-----------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~-~~~~~i~~v~~~G 342 (343)
T PF13458_consen 295 RAGSL-----------------------DREAVREALESLKYDGLFGPISFDPPDHQA-NKPVYIVQVKSDG 342 (343)
T ss_dssp HHTSH-----------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBE-EEEEEEEEEETTT
T ss_pred HhCCC-----------------------CHHHHHHHHHhCCCcccccceEEeCCCCcc-ccCeEEEEEecCC
Confidence 99743 578999999999999999999996 5554 5788888887 54
No 72
>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=99.91 E-value=2e-23 Score=226.66 Aligned_cols=257 Identities=15% Similarity=0.091 Sum_probs=199.5
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcC-----
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFG----- 75 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~g----- 75 (783)
+|+.+++|.+|+ +.+|..+.++++++++++||+|+++++++.+++ .+++|+||+.|++..++.++++++...+
T Consensus 61 ~Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~ 139 (351)
T cd06334 61 RLKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLK 139 (351)
T ss_pred HHhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCC
Confidence 578888899876 578999999999999999999999877777764 5789999999999999999999997654
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
.++|++|+.|++||++..+.+++.+++.|++|+....++.+ ..||++++.+|++.+||+|++.+.+.++..+++|+++
T Consensus 140 ~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~ 217 (351)
T cd06334 140 GKKIALVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPG--PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKR 217 (351)
T ss_pred CCeEEEEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCC--cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHH
Confidence 79999999999999999999999999999999998887755 4599999999999999999999999999999999999
Q ss_pred cCccccceEEEEeCCcccccccCChhhhhcccceeEeeeC--------------CCCCCccccc------chHHHHHHHH
Q 036525 156 IGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAEL------NIIGLLAYDA 215 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~~------~~~~~~aYDA 215 (783)
+|+..+ ++.+..... .... ....+..+|+++..++ .|.++++..| +.++..+||+
T Consensus 218 ~G~~~~---~~~~~~~~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a 292 (351)
T cd06334 218 VGLDDK---FIGNWWSGD-EEDV-KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVN 292 (351)
T ss_pred cCCCce---EEEeeccCc-HHHH-HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHH
Confidence 998543 555433221 1111 2344667888877665 2333344333 5789999999
Q ss_pred HHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe
Q 036525 216 TRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV 276 (783)
Q Consensus 216 v~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd 276 (783)
++++++|++++++..... .+.....-..-+..++.+.+....|+.|++.|.
T Consensus 293 ~~~l~~Al~~ag~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 343 (351)
T cd06334 293 AMIMVEAIRRAQEKGGET----------TIAGEEQLENLKLDAARLEELGAEGLGPPVSVS 343 (351)
T ss_pred HHHHHHHHHHHHHhcCCC----------CCcHHHHHHhhhhhhhhhhhcCcccccCCceec
Confidence 999999999999874221 000000000012334556666788999999995
No 73
>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=99.91 E-value=4.7e-23 Score=222.46 Aligned_cols=261 Identities=21% Similarity=0.253 Sum_probs=184.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+.+++|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..++|+||+.|++..+++++++++++++|++|+
T Consensus 57 ~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~ 136 (328)
T cd06351 57 DLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFA 136 (328)
T ss_pred HHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEE
Confidence 3565679999999999999999999999999999999988887775 578999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCc-eEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQT-RVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~-dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+||++++++..+.+ +.+.....+..+... .+..+ .+++...+.++++.++ ++|+.++...++..+++||+++||+
T Consensus 137 iiy~~~~~~~~l~~-~~~~~~~~~~~v~~~-~~~~~--~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~ 212 (328)
T cd06351 137 IIYDSDEGLSRLQE-LLDESGIKGIQVTVR-RLDLD--DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMM 212 (328)
T ss_pred EEEeCchHHHHHHH-HHHhhcccCceEEEE-EecCC--chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccc
Confidence 99999886544333 333333334444433 34433 3389999999999999 6666665559999999999999999
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCccccccC
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKINVS 239 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~ 239 (783)
.++|+||.++......+. ........|+.++........ ...+-...+ .. .....
T Consensus 213 ~~~~~~i~~~~~~~~~d~--~~~~~~~~~i~g~~~~~~~~~----------~~~~~~~~~----~~-~~~~~-------- 267 (328)
T cd06351 213 GYGYHWILTNLDLSDIDL--EPFQYGPANITGFRLVDPDSP----------DVSQFLQRW----LE-ESPGV-------- 267 (328)
T ss_pred cCCcEEEEecCCccccch--hhhccCCcceEEEEEeCCCch----------HHHHHHHhh----hh-ccCCC--------
Confidence 999999999976544322 233456678888876411100 000000000 00 00000
Q ss_pred CCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec--CCcEEEEEECC
Q 036525 240 SNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN--NGARGVGFWTP 302 (783)
Q Consensus 240 ~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~--~~~~~vg~w~~ 302 (783)
... ....+...+.++.... +|.++|+ +|++....++|+++. .+++.+|.|.+
T Consensus 268 ----~~~--~~~~~~~~~~d~~~~~-----tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 268 ----NLR--APIYDAALLYDAVLLL-----TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred ----CcC--ccchhhHhhhcEEEEE-----EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 000 0001122222222211 9999998 899999999999997 67999999994
No 74
>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=99.89 E-value=7.1e-23 Score=221.29 Aligned_cols=240 Identities=15% Similarity=0.183 Sum_probs=194.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+.+ +|.+||||.+|..+.++++++++.+||+|+++++++ +.. .+|+||+.+++..++.++++++...|+++|++
T Consensus 54 ~li~~-~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vai 129 (336)
T cd06339 54 QAVAE-GADIIVGPLLKENVAALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLV 129 (336)
T ss_pred HHHHc-CCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEE
Confidence 35654 999999999999999999999999999999875543 332 68999999999999999999998889999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc---------------------CceEEEEE
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM---------------------QTRVFIVH 140 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---------------------~~dvii~~ 140 (783)
|+.+++||++..+.|.+.+++.|++|+....++. +..||++++.+|++. +||+|++.
T Consensus 130 i~~~~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~--~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~ 207 (336)
T cd06339 130 LAPDGAYGQRVADAFRQAWQQLGGTVVAIESYDP--SPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAV 207 (336)
T ss_pred EecCChHHHHHHHHHHHHHHHcCCceeeeEecCC--CHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEE
Confidence 9999999999999999999999999998888774 456999999999998 99999998
Q ss_pred cChh-hHHHHHHHHHHcCc---cccceEEEEeCCcccccccCChhhhhcccceeEeeeC---------CCCCCccccc-c
Q 036525 141 KLPS-LGSRIFEKANEIGL---MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY---------ENPSLFDAEL-N 206 (783)
Q Consensus 141 ~~~~-~~~~~~~~a~~~g~---~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---------~~~~~~~~~~-~ 206 (783)
+.+. ++..+.++++..+. ..+ ++++++|.... .. ....+..+|++...+. +|.++++..| +
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~g~~~~~~~~-~~-~~~g~~~~g~~~~~~~~~~~~~f~~~y~~~~~~~p~~ 282 (336)
T cd06339 208 ALPDGEARLIKPQLLFYYGVPGDVP---LYGTSRWYSGT-PA-PLRDPDLNGAWFADPPWLLDANFELRYRAAYGWPPLS 282 (336)
T ss_pred ecChhhhhhhcchhhhhccCcCCCC---EEEeccccCCC-CC-cccCcccCCcEEeCCCcccCcchhhhHHHHhcCCCCc
Confidence 8887 77777778777663 334 78887766431 11 1233567787765542 4556677788 9
Q ss_pred hHHHHHHHHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHc-CccccceeeEEEe-cCccc
Q 036525 207 IIGLLAYDATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSS-TRFKGLTGDYIFV-DGQLQ 281 (783)
Q Consensus 207 ~~~~~aYDAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~-~~f~g~~G~i~fd-~G~~~ 281 (783)
.+++.+|||+.+++.++++++++ . +|.+ ..|+|++|+++|+ +|+..
T Consensus 283 ~~~a~~YDa~~l~~~~~~~~~~~-----------------------~------al~~~~~~~g~~G~~~f~~~g~~~ 330 (336)
T cd06339 283 RLAALGYDAYALAAALAQLGQGD-----------------------A------ALTPGAGFSGVTGVLRLDPDGVIE 330 (336)
T ss_pred hHHHHHHhHHHHHHHHHHccccc-----------------------c------ccCCCCccccCcceEEECCCCeEE
Confidence 99999999999999888877533 1 3433 3599999999997 78754
No 75
>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=99.89 E-value=4.9e-23 Score=221.48 Aligned_cols=245 Identities=15% Similarity=0.118 Sum_probs=183.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+. ++|.+|+|+.+|+.+.++.++++++++|+|+++++++.++. .+++|+||+.+++..++.++++++...|.++|+
T Consensus 54 ~Li~-~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkva 132 (347)
T TIGR03863 54 ALLA-QGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRIL 132 (347)
T ss_pred HHHH-CCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEE
Confidence 4664 57999999999999999999999999999999999999986 578999999999999999999999878999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCC--hhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLAT--DDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~--~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+|+.|++||+...+.+++.+++.|++|+..+.++.+.. ..|+.......+.++||+|++...+.+....+.... +.
T Consensus 133 ii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~ 210 (347)
T TIGR03863 133 LIQGPLPADALYADAFRRSAKRFGAKIVAERPFTFSGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL 210 (347)
T ss_pred EEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEeccCCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc
Confidence 99999999999999999999999999999988875432 124443223334589999999877665433222211 11
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeC--CCCCCcccccchHHHHHHHHHHHHHHHHHHhcccccCcccc
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY--ENPSLFDAELNIIGLLAYDATRALAEAVEKAGITSFGFDKI 236 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~~~~~~~~aYDAv~~la~Al~~a~~~~~~~~~~ 236 (783)
..+ .++..++.... ... ..+. -....+ .|.++++..|+.+++.+||+++++++|+++|+++
T Consensus 211 ~~~---~~g~~G~~~~~--~~~----~~~~-~~~~~f~~~f~~~~g~~p~~~~a~aY~av~~~a~Ai~~AGs~------- 273 (347)
T TIGR03863 211 PRP---VAGSAGLVPTA--WHR----AWER-WGATQLQSRFEKLAGRPMTELDYAAWLAVRAVGEAVTRTRSA------- 273 (347)
T ss_pred ccc---cccccCccccc--cCC----cccc-hhHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHhcCC-------
Confidence 001 12222211000 000 0000 000001 5667777889999999999999999999999977
Q ss_pred ccCCCCcccccccCCCChHHHHHHHHcCcc--cccee-eEEEe--cCcccc
Q 036525 237 NVSSNATDLEAFGISQNGPKLLQALSSTRF--KGLTG-DYIFV--DGQLQS 282 (783)
Q Consensus 237 ~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f--~g~~G-~i~fd--~G~~~~ 282 (783)
++++++++|+++++ +++.| +++|. ||+...
T Consensus 274 ----------------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~ 308 (347)
T TIGR03863 274 ----------------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQ 308 (347)
T ss_pred ----------------CHHHHHHHHcCCCceecccCCCcceeeCCCccccc
Confidence 68999999998876 57777 69995 777653
No 76
>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=99.87 E-value=1.9e-21 Score=210.70 Aligned_cols=250 Identities=16% Similarity=0.162 Sum_probs=197.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+.+++|.+|||+.+|..+.++.+++++.++|+|++++.++.++....+++||+.+++..++..+++++.+.||+++++
T Consensus 62 ~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~ 141 (336)
T cd06326 62 KLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAV 141 (336)
T ss_pred HHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEE
Confidence 35665699999999999888888899999999999998776666544578999999999999999999999999999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
++.++.||+...+.+++.+++.|++++....++.+ ..|+.+++.++++.++|+|++......+..+++++++.|+..+
T Consensus 142 l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~--~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~ 219 (336)
T cd06326 142 FYQDDAFGKDGLAGVEKALAARGLKPVATASYERN--TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ 219 (336)
T ss_pred EEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCC--cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc
Confidence 99999999999999999999999998877776644 4589999999999999999999988899999999999998543
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEee--eC--------------CCCCCccc-ccchHHHHHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVR--PY--------------ENPSLFDA-ELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~--~~--------------~~~~~~~~-~~~~~~~~aYDAv~~la~Al~ 224 (783)
++........ . +........+|++... ++ .|.+.++. +|+.++..+||+++++++|++
T Consensus 220 ---~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~y~~~~~~~~a~~ 294 (336)
T cd06326 220 ---FYNLSFVGAD-A-LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGAPPSYVSLEGYIAAKVLVEALR 294 (336)
T ss_pred ---EEEEeccCHH-H-HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCCCCCCeeeehhHHHHHHHHHHHH
Confidence 2333322211 1 1122345567776432 21 12222332 678889999999999999999
Q ss_pred HhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCcc-ccceeeEEEecCcc
Q 036525 225 KAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRF-KGLTGDYIFVDGQL 280 (783)
Q Consensus 225 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f-~g~~G~i~fd~G~~ 280 (783)
++++.. ++++|+++|++++. ++..|.+.|..+++
T Consensus 295 ~~g~~~----------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 295 RAGPDP----------------------TRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred HcCCCC----------------------CHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 988541 57899999999875 56556899964444
No 77
>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=99.87 E-value=2.3e-21 Score=205.70 Aligned_cols=165 Identities=30% Similarity=0.474 Sum_probs=154.6
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++++++++++++||++|+++|++
T Consensus 70 ~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~ 149 (298)
T cd06269 70 RGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSD 149 (298)
T ss_pred CceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 78999999999999999999999999999999999988886 47899999999999999999999999999999999999
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEE
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVW 165 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~ 165 (783)
+++|....+.+++.+++.|+++.....++.+ ..++...+.++++.++++|++++.+.++..+++++++.||+ .+++|
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~--~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~ 226 (298)
T cd06269 150 DDYGRRLLELLEEELEKNGICVAFVESIPDG--SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHW 226 (298)
T ss_pred chhhHHHHHHHHHHHHHCCeeEEEEEEcCCC--HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEE
Confidence 9999999999999999999999988877643 36899999999999999999999999999999999999998 89999
Q ss_pred EEeCCcccc
Q 036525 166 IMTDGMTNL 174 (783)
Q Consensus 166 i~~~~~~~~ 174 (783)
|+++.|...
T Consensus 227 i~~~~~~~~ 235 (298)
T cd06269 227 IITDLWLTS 235 (298)
T ss_pred EEEChhhcc
Confidence 999987653
No 78
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.86 E-value=6e-21 Score=198.64 Aligned_cols=262 Identities=16% Similarity=0.140 Sum_probs=186.4
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC--CCCCeEEEeecCchhhHHHHHHHH-HHcCCeE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS--IRSPYFFRGALNDSSQVGAITAII-KAFGWRE 78 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l-~~~gw~~ 78 (783)
+||.+++|.+|+|+++|..-+++.|+.++++-++..+. ..+ ...|++|-+.....+|...+++++ +++|.++
T Consensus 62 ~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~-----~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r 136 (363)
T PF13433_consen 62 KLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPT-----QYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKR 136 (363)
T ss_dssp HHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SE
T ss_pred HHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEecc-----ccccccCCCceEEcCCCchhhHHHHHHHHHhccCCce
Confidence 57888999999999999999999999999999998754 333 467999999999999999999997 6789999
Q ss_pred EEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 79 AVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 79 vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+.+|.+|+.|++..-..+++.+++.|++|+.+..+|.+ .+||...+.+|++.+||+|+-...++....|+++++++|+
T Consensus 137 ~~lvGSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg--~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~ 214 (363)
T PF13433_consen 137 FYLVGSDYVYPRESNRIIRDLLEARGGEVVGERYLPLG--ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGL 214 (363)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S---HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-
T ss_pred EEEecCCccchHHHHHHHHHHHHHcCCEEEEEEEecCC--chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCC
Confidence 99999999999999999999999999999999999966 4699999999999999999999999999999999999998
Q ss_pred cccceEEEEeCCccc-ccccCChhhhhcccceeEeeeC--------------CCCCCcccc--cchHHHHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTN-LLRTLEPSVIDSMQGVIDVRPY--------------ENPSLFDAE--LNIIGLLAYDATRALAE 221 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~-~~~~~~~~~~~~~~g~~~~~~~--------------~~~~~~~~~--~~~~~~~aYDAv~~la~ 221 (783)
... .+-|.+-..+. .+..++ .+...|.+...+| +|+++++.. ++.....+|.+|+++|+
T Consensus 215 ~~~-~~Pi~S~~~~E~E~~~~g---~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~ 290 (363)
T PF13433_consen 215 DPE-RIPIASLSTSEAELAAMG---AEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQ 290 (363)
T ss_dssp SSS----EEESS--HHHHTTS----HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHH
T ss_pred Ccc-cCeEEEEecCHHHHhhcC---hhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHH
Confidence 643 45666655442 222233 2578999999988 455666543 57778889999999999
Q ss_pred HHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec-CC-cEEE
Q 036525 222 AVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN-NG-ARGV 297 (783)
Q Consensus 222 Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~-~~-~~~v 297 (783)
|+++|++. +.++++++|.+.+|+.+.|.+++| +.+.......|-+++ +| +..+
T Consensus 291 Av~~ags~-----------------------d~~~vr~al~g~~~~aP~G~v~id~~n~H~~l~~rIg~~~~dG~f~Iv 346 (363)
T PF13433_consen 291 AVEKAGSD-----------------------DPEAVREALAGQSFDAPQGRVRIDPDNHHTWLPPRIGRVNADGQFDIV 346 (363)
T ss_dssp HHHHHTS-------------------------HHHHHHHHTT--EEETTEEEEE-TTTSBEEB--EEEEE-TTS-EEEE
T ss_pred HHHHhCCC-----------------------CHHHHHHHhcCCeecCCCcceEEcCCCCeecccceEEEEcCCCCEEEE
Confidence 99999977 579999999999999999999998 344334555565665 33 4444
No 79
>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=99.83 E-value=8.6e-20 Score=198.18 Aligned_cols=237 Identities=16% Similarity=0.138 Sum_probs=190.1
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+.+++|.+|||+.+|..+.++ +++++.++|+|++.++++.++. .+++|++.+++..++.++++++...|.+++++
T Consensus 61 ~li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~ 137 (341)
T cd06341 61 DLVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVA 137 (341)
T ss_pred HHHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEE
Confidence 46777799999999998887766 8899999999999877766654 57899999999999999999999889999999
Q ss_pred EEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 82 IYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 82 i~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++.++. ||+...+.+++.+++.|++++....++.+ ..|+.+.+.++++.+||+|++.....++..+++++++.|+..
T Consensus 138 i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 138 LVTALSAAVSAAAALLARSLAAAGVSVAGIVVITAT--APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred EEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCC--CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 987765 99999999999999999999887666643 458999999999999999999999989999999999999876
Q ss_pred cceEEEEeC-CcccccccCChhhhhcccceeEeeeC------------------CCCCCcccccchHHHHHHHHHHHHHH
Q 036525 161 KGCVWIMTD-GMTNLLRTLEPSVIDSMQGVIDVRPY------------------ENPSLFDAELNIIGLLAYDATRALAE 221 (783)
Q Consensus 161 ~~~~~i~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~------------------~~~~~~~~~~~~~~~~aYDAv~~la~ 221 (783)
+ .+... ..... .+ ....+..+|++...++ +|...++..|+.++..+||+++++++
T Consensus 216 ~---~~~~~~~~~~~--~~-~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~ 289 (341)
T cd06341 216 K---VVLSGTCYDPA--LL-AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLR 289 (341)
T ss_pred C---EEEecCCCCHH--HH-HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHH
Confidence 6 23332 22211 11 2334677888876654 23333444689999999999999999
Q ss_pred HHHHhcccccCccccccCCCCcccccccCCCChHH-HHHHHHcCcccccee
Q 036525 222 AVEKAGITSFGFDKINVSSNATDLEAFGISQNGPK-LLQALSSTRFKGLTG 271 (783)
Q Consensus 222 Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-l~~aL~~~~f~g~~G 271 (783)
|+++++... ++++ ++++|++++.....|
T Consensus 290 a~~~ag~~~----------------------~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 290 GLSGAGGCP----------------------TRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred HHHhcCCCC----------------------ChHHHHHHHhhcCCCCCCCC
Confidence 999998641 3566 999999997544444
No 80
>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=99.82 E-value=7.2e-21 Score=207.82 Aligned_cols=285 Identities=20% Similarity=0.290 Sum_probs=227.3
Q ss_pred CeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 8 QVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 8 ~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
.-.+++|+ ||+.+..++.-+..++..++++++++|.+++ +.+|+|||+.|+...+......++++++|++|+.++++.
T Consensus 113 ~k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e 191 (865)
T KOG1055|consen 113 NKLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTE 191 (865)
T ss_pred chheeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeeh
Confidence 34567788 9999999999999999999999999999997 589999999999999999999999999999999999999
Q ss_pred CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEEE
Q 036525 87 QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWI 166 (783)
Q Consensus 87 ~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i 166 (783)
+--....+.+...+.+.+++++.+..+.. |....+.+++...+|+|+...+...++..++++++.+|.+..|+|+
T Consensus 192 ~~f~~~~~dl~~~~~~~~ieiv~~qsf~~-----dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~ 266 (865)
T KOG1055|consen 192 EVFSSTLNDLEARLKEAGIEIVFRQSFSS-----DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWF 266 (865)
T ss_pred hhhcchHHHHHHhhhccccEEEEeecccc-----CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEE
Confidence 99999999999999999999998876542 4456788999999999999999999999999999999999999999
Q ss_pred EeCCcccccc--------cCChhhhhcccceeEeeeC-----------------------CCCCC--cccccchHHHHHH
Q 036525 167 MTDGMTNLLR--------TLEPSVIDSMQGVIDVRPY-----------------------ENPSL--FDAELNIIGLLAY 213 (783)
Q Consensus 167 ~~~~~~~~~~--------~~~~~~~~~~~g~~~~~~~-----------------------~~~~~--~~~~~~~~~~~aY 213 (783)
...+..+.+. +.-.++..+++|.+++... .++.. ..........++|
T Consensus 267 ~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ay 346 (865)
T KOG1055|consen 267 LIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAY 346 (865)
T ss_pred EEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHH
Confidence 8765432211 2223566788888887544 11110 0123456789999
Q ss_pred HHHHHHHHHHHHhcccccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEecCccccceEEEEEec-C
Q 036525 214 DATRALAEAVEKAGITSFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFVDGQLQSSAFEIINVN-N 292 (783)
Q Consensus 214 DAv~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd~G~~~~~~~~I~~~~-~ 292 (783)
||+|++|.|++++...... .+.+ ..|.+ ...-.-.+.+.+++.+++|+|++|.+.|.+|++. ..-.|-|++ +
T Consensus 347 d~Iwa~ala~n~t~e~l~~---~~~~--l~~f~-y~~k~i~d~i~eamn~tsF~GvsG~V~F~~geR~-a~t~ieQ~qdg 419 (865)
T KOG1055|consen 347 DAIWALALALNKTMEGLGR---SHVR--LEDFN-YNNKTIADQIYEAMNSTSFEGVSGHVVFSNGERM-ALTLIEQFQDG 419 (865)
T ss_pred HHHHHHHHHHHHHHhcCCc---ccee--ccccc-hhhhHHHHHHHHHhhcccccccccceEecchhhH-HHHHHHHHhCC
Confidence 9999999999998755310 0000 01111 0011235689999999999999999999889985 777788888 6
Q ss_pred CcEEEEEECCCCC
Q 036525 293 GARGVGFWTPEKG 305 (783)
Q Consensus 293 ~~~~vg~w~~~~~ 305 (783)
.++.+|.++...+
T Consensus 420 ~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 420 KYKKIGYYDSTKD 432 (865)
T ss_pred ceEeecccccccc
Confidence 7999999988655
No 81
>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=99.78 E-value=1.6e-18 Score=183.85 Aligned_cols=212 Identities=22% Similarity=0.320 Sum_probs=176.9
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~va 80 (783)
+|+++++|.+||||.++..+.+++++++..+||+|++.+.++.+.+ ..+|++||+.+++..++..++++++++||++++
T Consensus 61 ~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~ 140 (299)
T cd04509 61 RLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVA 140 (299)
T ss_pred HHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEE
Confidence 3556668999999999999999999999999999999988777664 468999999999999999999999999999999
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+++.++.+|+...+.+++.+++.|++++....++.+ .+++...+.++++.++|+|++++....+..+++++++.|+.
T Consensus 141 iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~--~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~- 217 (299)
T cd04509 141 ILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPLG--TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT- 217 (299)
T ss_pred EEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCCC--CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-
Confidence 999999999999999999999999999876666543 34888999999988999999999889999999999999997
Q ss_pred cceEEEEeCCcccccccCChhhhhcccceeEeeeCCC-----------------CCCcccccchHHHHHHHHHHH
Q 036525 161 KGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYEN-----------------PSLFDAELNIIGLLAYDATRA 218 (783)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-----------------~~~~~~~~~~~~~~aYDAv~~ 218 (783)
.++.|++.+.+...... ....+..+|+++..++.. ...++..|+.++..+||++++
T Consensus 218 ~~~~~i~~~~~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 218 GGYPILGITLGLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYEDQPDYFAALAYDAVLL 290 (299)
T ss_pred CCCcEEecccccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCCCCChhhhhhcceeee
Confidence 77889998876643221 133466788888877610 011234678899999999988
No 82
>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=99.77 E-value=4.8e-18 Score=182.03 Aligned_cols=211 Identities=18% Similarity=0.224 Sum_probs=170.7
Q ss_pred cccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+|+.+++|.+|||+.+|..+.++.+++.+.++|+|++.++++.++ ...+|+||+.+++..++..+++++...||++|++
T Consensus 60 ~li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vai 138 (312)
T cd06333 60 KLIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAF 138 (312)
T ss_pred HHHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEE
Confidence 467777999999999888888899999999999999887655443 4568999999999999999999999999999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
++.++.+|+...+.+.+.+++.|++++....++.+ ..|+...+.++++.+||+|++.+...++..+++++++.|+..+
T Consensus 139 l~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p 216 (312)
T cd06333 139 IGFSDAYGESGLKELKALAPKYGIEVVADERYGRT--DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP 216 (312)
T ss_pred EecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCCC--CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC
Confidence 99999999999999999999999999877776644 3488999999998999999999888888889999999998766
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeC----------------------CCCCCcccc-cchHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY----------------------ENPSLFDAE-LNIIGLLAYDATRA 218 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~----------------------~~~~~~~~~-~~~~~~~aYDAv~~ 218 (783)
++++++.... . +....++..+|++.+..+ +|.++++.+ |+.+++.+|||+++
T Consensus 217 ---~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~Yda~~~ 291 (312)
T cd06333 217 ---IYQTHGVASP-D-FLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGAGSVSTFGGHAYDALLL 291 (312)
T ss_pred ---EEeecCcCcH-H-HHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCCCCCCchhHHHHHHHHH
Confidence 5555444321 1 112334567887654321 233445666 88999999999999
Q ss_pred HH
Q 036525 219 LA 220 (783)
Q Consensus 219 la 220 (783)
++
T Consensus 292 ~~ 293 (312)
T cd06333 292 LA 293 (312)
T ss_pred HH
Confidence 99
No 83
>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=99.73 E-value=5.9e-17 Score=171.67 Aligned_cols=210 Identities=25% Similarity=0.345 Sum_probs=174.2
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcC-CeEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFG-WREAVP 81 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~g-w~~vai 81 (783)
|++ ++|.+||||.++..+.++.+++.+.+||+|++.+..+.+.+..++++|++.+++..++.++++++...+ |+++++
T Consensus 62 l~~-~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 140 (298)
T cd06268 62 LVD-DGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAI 140 (298)
T ss_pred HHh-CCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEE
Confidence 444 489999999999888899999999999999998887766544589999999999999999999998887 999999
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
++.++++|....+.+.+++++.|++++....++.+ ..++...+.++++.++|+|++.+.+..+..+++++++.|+...
T Consensus 141 v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~--~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~ 218 (298)
T cd06268 141 IYDDYAYGRGLAAAFREALKKLGGEVVAEETYPPG--ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLKVP 218 (298)
T ss_pred EEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCCC--CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc
Confidence 99999999999999999999999999877766543 3588999999999999999999988999999999999998444
Q ss_pred ceEEEEeCCcccccccCChhhhhcccceeEeeeCC---------------CCCCcccccchHHHHHHHHHHHHH
Q 036525 162 GCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYE---------------NPSLFDAELNIIGLLAYDATRALA 220 (783)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---------------~~~~~~~~~~~~~~~aYDAv~~la 220 (783)
|++.+.+..... . ....+..+|++...++. |.+.++..|+.++..+||++++++
T Consensus 219 ---~~~~~~~~~~~~-~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 219 ---IVGGDGAAAPAL-L-ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ---EEecCccCCHHH-H-HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhCCCcccchHHHHHHHHHHc
Confidence 888776654221 1 22345678888887761 222334678899999999999998
No 84
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.72 E-value=1.1e-16 Score=169.38 Aligned_cols=220 Identities=15% Similarity=0.189 Sum_probs=158.2
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhh----hCCC---CCCCCCCCChHHHHHHHHcCeecEE
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIP----ELPY---APDGSSSGSYNDLIYQVFLGEFDAV 382 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~----~l~f---~~~~~~~~~~~gli~~l~~g~~Di~ 382 (783)
++|+||+..+ |+||.+.+. + +++.||++|++++|++ +||. +.. ....+|..++..|.+|++|++
T Consensus 40 g~L~Vg~~~~--~pP~~f~~~-----~-g~~~G~didl~~~ia~~l~~~lg~~~~~~~-~v~~~~~~~i~~L~~G~~Di~ 110 (302)
T PRK10797 40 GVIVVGHRES--SVPFSYYDN-----Q-QKVVGYSQDYSNAIVEAVKKKLNKPDLQVK-LIPITSQNRIPLLQNGTFDFE 110 (302)
T ss_pred CeEEEEEcCC--CCCcceECC-----C-CCEeeecHHHHHHHHHHHHHhhCCCCceEE-EEEcChHhHHHHHHCCCccEE
Confidence 7899999632 334444321 2 6799999998777765 6653 311 222468889999999999999
Q ss_pred EeceeeecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHH
Q 036525 383 VGDITIVFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFS 462 (783)
Q Consensus 383 ~~~~~~t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 462 (783)
++++++|++|.+.++||.||+.++ ..++.+..+ .+..
T Consensus 111 ~~~~~~t~eR~~~~~fS~Py~~~~-----------------------------~~lv~r~~~-~i~s------------- 147 (302)
T PRK10797 111 CGSTTNNLERQKQAAFSDTIFVVG-----------------------------TRLLTKKGG-DIKD------------- 147 (302)
T ss_pred ecCCccCcchhhcceecccEeecc-----------------------------EEEEEECCC-CCCC-------------
Confidence 999999999999999999998763 112222221 1100
Q ss_pred HHHhhhcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcC---CCcccceecCC
Q 036525 463 FSTMVFSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLG---FDERKLVVYNS 539 (783)
Q Consensus 463 ~~~l~~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~---~~~~~~~~~~~ 539 (783)
+....++. -.+..|+....+++... .+..++..+.+
T Consensus 148 -----------l~dL~Gk~------------------------------V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~ 186 (302)
T PRK10797 148 -----------FADLKGKA------------------------------VVVTSGTTSEVLLNKLNEEQKMNMRIISAKD 186 (302)
T ss_pred -----------hHHcCCCE------------------------------EEEeCCCcHHHHHHHHhhhcCCceEEEEeCC
Confidence 00001111 13334666666665431 23457788999
Q ss_pred hhHHHHHHhcCcccCceeEEecchhHHHHHHhhc--CCceEEecccccccceEEEecCCCC-ChHHHHHHHHhhhcCChH
Q 036525 540 PEDCHELFQKGSANGGIAAALDEIPYMKLLIGQH--CSKYTMIEPKFKTAGFGFVFPLHSP-LVHDVSKAILNVTEGDKM 616 (783)
Q Consensus 540 ~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~--c~~l~~v~~~~~~~~~~~~~~k~sp-l~~~in~~il~l~e~G~~ 616 (783)
.++.+++|..|+ +||++.+...+.+.+.+. .+.++++++++...+++++++|+++ +++.+|.+|.+++++|.+
T Consensus 187 ~~~~l~~L~~Gr----vDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l 262 (302)
T PRK10797 187 HGDSFRTLESGR----AVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEA 262 (302)
T ss_pred HHHHHHHHHcCC----ceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchH
Confidence 999999999999 999999987776654432 3357888888888889999999875 999999999999999999
Q ss_pred HHHHHHhcCC
Q 036525 617 KEIEDAWFKK 626 (783)
Q Consensus 617 ~~~~~kw~~~ 626 (783)
++|.++|++.
T Consensus 263 ~~i~~kw~~~ 272 (302)
T PRK10797 263 EKWFDKWFKN 272 (302)
T ss_pred HHHHHHHcCC
Confidence 9999999985
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=99.72 E-value=8.4e-16 Score=159.67 Aligned_cols=265 Identities=15% Similarity=0.144 Sum_probs=199.2
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH------HHcCCeEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII------KAFGWREAV 80 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l------~~~gw~~va 80 (783)
+.-.+++||.|.-++..++++...+++|+||.++-.-... ..+++=|..|+....+..+.++. ++++|+++.
T Consensus 80 ~~gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfglscd--~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay 157 (380)
T cd06369 80 RLGCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFGLSCD--YKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY 157 (380)
T ss_pred ccCcEEEcCccceehhhhhhhhhcCCCceEeccccccCCC--chhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE
Confidence 3458999999999999999999999999999887443332 24588999999999999999998 488998655
Q ss_pred EEEEeCCcC---CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcC
Q 036525 81 PIYVDNQYG---EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 81 ii~~d~~~G---~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
||.+++-- --.+.++....+..+..+...+... +.+++...++.++ .++||||+|+.+.+.+.++.+ +
T Consensus 158 -vyk~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~---~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~ 228 (380)
T cd06369 158 -VYKKQENTEDCFWYINALEAGVAYFSSALKFKELLR---TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----R 228 (380)
T ss_pred -EEcCCCCccceeeEhHhhhhhhhhhhhcccceeeec---CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----C
Confidence 99766322 2335566666665555555444432 3357888887765 778999999999999999986 4
Q ss_pred ccccceEEEEeCCcccccccCChhhhhcccceeEeeeC-----CCCC--Ccccccc-hHHHHHHHHHHHHHHHHHHhccc
Q 036525 158 LMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY-----ENPS--LFDAELN-IIGLLAYDATRALAEAVEKAGIT 229 (783)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-----~~~~--~~~~~~~-~~~~~aYDAv~~la~Al~~a~~~ 229 (783)
+...+|++|..|....... .+....++++.++.+++. .|.+ .++.... .+++.-||||.++|+||++....
T Consensus 229 ~~~gDYVf~~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~~~~~~~~~fn~~l~~~~aa~fyDaVLLYa~AL~EtL~~ 307 (380)
T cd06369 229 AVAEDIVIILIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNSTNNSSFTTDNSLLKDDYVAAYHDGVLLFGHVLKKFLES 307 (380)
T ss_pred ccCCCEEEEEEecccchhc-cCcchHHHHhceEEEecCCCCCcccccCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4457999999987654321 223445678999888765 1111 1112223 89999999999999999998755
Q ss_pred ccCccccccCCCCcccccccCCCChHHHHHHHHcCccccceeeEEEe-cCccccceEEEEEec---CCcEEEEEECCC
Q 036525 230 SFGFDKINVSSNATDLEAFGISQNGPKLLQALSSTRFKGLTGDYIFV-DGQLQSSAFEIINVN---NGARGVGFWTPE 303 (783)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~aL~~~~f~g~~G~i~fd-~G~~~~~~~~I~~~~---~~~~~vg~w~~~ 303 (783)
... ..+.++.+.+++.+|.|.+|.+.+| +||+. ..|.++.+. ++...||.|...
T Consensus 308 G~~-------------------~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd-~dfsLl~ms~~tg~y~vV~~y~t~ 365 (380)
T cd06369 308 QEG-------------------VQTFSFINEFRNISFEGAGGPYTLDEYGDRD-VNFTLLYTSTDTSKYKVLFEFDTS 365 (380)
T ss_pred CCC-------------------CCcHHHHHHHhCcceecCCCceEeCCCCCcc-CceEEEEeeCCCCCeEEEEEEECC
Confidence 311 1337899999999999999999998 99985 899999987 458999999874
No 86
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.72 E-value=1.1e-16 Score=165.24 Aligned_cols=219 Identities=21% Similarity=0.302 Sum_probs=162.8
Q ss_pred ceEEEEec-ccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVP-VKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~-~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|+|++. ..+|| .+. ++ +++.|+++|+++++++++|.+..... .+|.+++.+|.+|++|+++++++.
T Consensus 25 ~~l~v~~~~~~~P~---~~~------~~-g~~~G~~vdl~~~ia~~lg~~~~~~~-~~~~~~~~~l~~G~vDi~~~~~~~ 93 (247)
T PRK09495 25 KKLVVATDTAFVPF---EFK------QG-DKYVGFDIDLWAAIAKELKLDYTLKP-MDFSGIIPALQTKNVDLALAGITI 93 (247)
T ss_pred CeEEEEeCCCCCCe---eec------CC-CceEEEeHHHHHHHHHHhCCceEEEe-CCHHHHHHHHhCCCcCEEEecCcc
Confidence 78999985 34454 432 12 67999999999999999998833222 469999999999999999999999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
|++|.+.++||.||+.++ + .++.+.....+..
T Consensus 94 t~~R~~~~~fs~p~~~~~----~-------------------------~~~~~~~~~~~~~------------------- 125 (247)
T PRK09495 94 TDERKKAIDFSDGYYKSG----L-------------------------LVMVKANNNDIKS------------------- 125 (247)
T ss_pred CHHHHhhccccchheecc----e-------------------------EEEEECCCCCCCC-------------------
Confidence 999999999999998763 0 1112211111100
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHh
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 548 (783)
.....++.+ .+..|+....++... .+..++..+++..++.++|.
T Consensus 126 -----~~dL~g~~I------------------------------~v~~g~~~~~~l~~~-~~~~~i~~~~~~~~~~~~L~ 169 (247)
T PRK09495 126 -----VKDLDGKVV------------------------------AVKSGTGSVDYAKAN-IKTKDLRQFPNIDNAYLELG 169 (247)
T ss_pred -----hHHhCCCEE------------------------------EEecCchHHHHHHhc-CCCCceEEcCCHHHHHHHHH
Confidence 000001101 222255566666654 45557778889999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhc-CCceEEecccccccceEEEecCCCCChHHHHHHHHhhhcCChHHHHHHHhcCCC
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQH-CSKYTMIEPKFKTAGFGFVFPLHSPLVHDVSKAILNVTEGDKMKEIEDAWFKKH 627 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~-c~~l~~v~~~~~~~~~~~~~~k~spl~~~in~~il~l~e~G~~~~~~~kw~~~~ 627 (783)
+|+ +|+++.+...+.+++++. ...+..++......+++++++|++.+++.||++|.++.++|.++++.+||+...
T Consensus 170 ~gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~n~al~~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 170 TGR----ADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELREKVNGALKTLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred cCc----eeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHHHHHHHHHHHHHCCcHHHHHHHHcCCC
Confidence 999 999999998888887765 345777777677778999999999999999999999999999999999999754
No 87
>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=99.67 E-value=1.7e-16 Score=160.99 Aligned_cols=221 Identities=19% Similarity=0.252 Sum_probs=159.4
Q ss_pred EEEEe-cccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeeec
Q 036525 312 LRIGV-PVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIVF 390 (783)
Q Consensus 312 L~V~v-~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t~ 390 (783)
||||+ .+.+|| .+.+. + +++.|+++|+++++++++|++...... +|..++.+|.+|++|+++++++.|+
T Consensus 1 l~V~~~~~~~P~---~~~~~-----~-~~~~G~~~dl~~~i~~~~g~~~~~~~~-~~~~~~~~l~~g~~D~~~~~~~~~~ 70 (225)
T PF00497_consen 1 LRVGVDEDYPPF---SYIDE-----D-GEPSGIDVDLLRAIAKRLGIKIEFVPM-PWSRLLEMLENGKADIIIGGLSITP 70 (225)
T ss_dssp EEEEEESEBTTT---BEEET-----T-SEEESHHHHHHHHHHHHHTCEEEEEEE-EGGGHHHHHHTTSSSEEESSEB-BH
T ss_pred CEEEEcCCCCCe---EEECC-----C-CCEEEEhHHHHHHHHhhcccccceeec-ccccccccccccccccccccccccc
Confidence 68999 555665 44433 2 789999999999999999998333333 8999999999999999999999999
Q ss_pred ccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccC-CCCCCCccCccchhHHHHHHHhhhc
Q 036525 391 NRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRIN-DDFRGPAKHQVGTSFWFSFSTMVFS 469 (783)
Q Consensus 391 ~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~ 469 (783)
+|.+.++||.||+.+. ..++.++.+ +....
T Consensus 71 ~r~~~~~~s~p~~~~~-----------------------------~~~~~~~~~~~~~~~-------------------- 101 (225)
T PF00497_consen 71 ERAKKFDFSDPYYSSP-----------------------------YVLVVRKGDAPPIKT-------------------- 101 (225)
T ss_dssp HHHTTEEEESESEEEE-----------------------------EEEEEETTSTCSTSS--------------------
T ss_pred cccccccccccccchh-----------------------------heeeecccccccccc--------------------
Confidence 9999999999999873 011222111 00000
Q ss_pred ccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHhc
Q 036525 470 QRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQK 549 (783)
Q Consensus 470 ~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ 549 (783)
-..+....+ ..-.+..|+....+++.......+++.+.+.++++++|.+
T Consensus 102 -~~~~~dl~~------------------------------~~i~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ 150 (225)
T PF00497_consen 102 -IKSLDDLKG------------------------------KRIGVVRGSSYADYLKQQYPSNINIVEVDSPEEALEALLS 150 (225)
T ss_dssp -HSSGGGGTT------------------------------SEEEEETTSHHHHHHHHHTHHTSEEEEESSHHHHHHHHHT
T ss_pred -ccchhhhcC------------------------------cccccccchhHHHHhhhhccchhhhcccccHHHHHHHHhc
Confidence 000000000 0112333666666666542114577789999999999999
Q ss_pred CcccCceeEEecchhHHHHHHhhcCC-ceEEecccccccceEEEecCC-CCChHHHHHHHHhhhcCChHHHHHHHhcCC
Q 036525 550 GSANGGIAAALDEIPYMKLLIGQHCS-KYTMIEPKFKTAGFGFVFPLH-SPLVHDVSKAILNVTEGDKMKEIEDAWFKK 626 (783)
Q Consensus 550 g~~~~g~~a~~~~~~~~~~~~~~~c~-~l~~v~~~~~~~~~~~~~~k~-spl~~~in~~il~l~e~G~~~~~~~kw~~~ 626 (783)
|+ +|+++.+...+.+++++... ............+++++++++ +.+++.||++|.+|.++|.++++.+||+++
T Consensus 151 g~----~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 151 GR----IDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp TS----SSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred CC----eeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 99 99999999999999988743 233325556667777777765 579999999999999999999999999974
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.64 E-value=3.7e-15 Score=155.63 Aligned_cols=221 Identities=18% Similarity=0.252 Sum_probs=162.8
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+||+.. .++||...+. + +++.|+.+|+++.|++++|++..... .+|..++.+|.+|++|+++++++.+
T Consensus 41 ~~l~v~~~~--~~~P~~~~~~-----~-g~~~G~~~dl~~~i~~~lg~~~e~~~-~~~~~~~~~l~~G~~D~~~~~~~~~ 111 (266)
T PRK11260 41 GTLLVGLEG--TYPPFSFQGE-----D-GKLTGFEVEFAEALAKHLGVKASLKP-TKWDGMLASLDSKRIDVVINQVTIS 111 (266)
T ss_pred CeEEEEeCC--CcCCceEECC-----C-CCEEEehHHHHHHHHHHHCCeEEEEe-CCHHHHHHHHhcCCCCEEEeccccC
Confidence 789999863 2334443322 2 77999999999999999998832222 4699999999999999999989999
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCC-CCCCCccCccchhHHHHHHHhhh
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRIND-DFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
++|.+.+.||.||+.++. .++.+..+. .+.
T Consensus 112 ~~r~~~~~fs~p~~~~~~-----------------------------~~~~~~~~~~~~~-------------------- 142 (266)
T PRK11260 112 DERKKKYDFSTPYTVSGI-----------------------------QALVKKGNEGTIK-------------------- 142 (266)
T ss_pred HHHHhccccCCceeecce-----------------------------EEEEEcCCcCCCC--------------------
Confidence 999999999999987530 111121110 000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHh
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 548 (783)
.+....++.+ .+..|+....++++. ++..++..+++..+++++|.
T Consensus 143 ----~~~dL~g~~I------------------------------gv~~G~~~~~~l~~~-~~~~~i~~~~~~~~~l~~L~ 187 (266)
T PRK11260 143 ----TAADLKGKKV------------------------------GVGLGTNYEQWLRQN-VQGVDVRTYDDDPTKYQDLR 187 (266)
T ss_pred ----CHHHcCCCEE------------------------------EEecCCcHHHHHHHh-CCCCceEecCCHHHHHHHHH
Confidence 0000001111 222266666676654 55667888999999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecCCCC-ChHHHHHHHHhhhcCChHHHHHHHhcCCC
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLHSP-LVHDVSKAILNVTEGDKMKEIEDAWFKKH 627 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~sp-l~~~in~~il~l~e~G~~~~~~~kw~~~~ 627 (783)
+|+ +|+++.+.....+++++....+.+....+...+++++++|+++ +++.+|++|.++.++|.++++.+||+.+.
T Consensus 188 ~Gr----vD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~~ 263 (266)
T PRK11260 188 VGR----IDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWFGAD 263 (266)
T ss_pred cCC----CCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCCc
Confidence 999 9999999988888887765445555666777889999999875 99999999999999999999999999753
No 89
>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=99.64 E-value=4.1e-15 Score=156.03 Aligned_cols=222 Identities=18% Similarity=0.209 Sum_probs=159.6
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+|++...+|| .+.+. + +++.|+++|+++++++++|++.......+|+.++..|.+|++|++++++++|
T Consensus 33 ~~l~v~~~~~pP~---~~~~~-----~-g~~~G~~~dl~~~i~~~lg~~~~~~~~~~w~~~~~~l~~G~~Di~~~~~~~t 103 (275)
T TIGR02995 33 GFARIAIANEPPF---TYVGA-----D-GKVSGAAPDVARAIFKRLGIADVNASITEYGALIPGLQAGRFDAIAAGLFIK 103 (275)
T ss_pred CcEEEEccCCCCc---eeECC-----C-CceecchHHHHHHHHHHhCCCceeeccCCHHHHHHHHHCCCcCEEeecccCC
Confidence 7899999765554 44322 2 7789999999999999999862223346899999999999999999999999
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCC-CCCCccCccchhHHHHHHHhhh
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDD-FRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
++|.+.++||.||+.+. ..++.+..+.. +. .+.-+-
T Consensus 104 ~eR~~~~~fs~py~~~~-----------------------------~~~~~~~~~~~~i~-------------~~~dl~- 140 (275)
T TIGR02995 104 PERCKQVAFTQPILCDA-----------------------------EALLVKKGNPKGLK-------------SYKDIA- 140 (275)
T ss_pred HHHHhccccccceeecc-----------------------------eeEEEECCCCCCCC-------------CHHHhc-
Confidence 99999999999998763 01222222110 00 000000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHh
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 548 (783)
...+ ..-.+..|+...+++++.+++..+++.+++.+++++.|.
T Consensus 141 -------~~~g------------------------------~~Igv~~g~~~~~~l~~~~~~~~~i~~~~~~~~~i~~L~ 183 (275)
T TIGR02995 141 -------KNPD------------------------------AKIAAPGGGTEEKLAREAGVKREQIIVVPDGQSGLKMVQ 183 (275)
T ss_pred -------cCCC------------------------------ceEEEeCCcHHHHHHHHcCCChhhEEEeCCHHHHHHHHH
Confidence 0000 011233377777788876666667888999999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhcC-CceEEeccc---ccccceEEEecCCC-CChHHHHHHHHhhhcCChHHHHHHHh
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQHC-SKYTMIEPK---FKTAGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEIEDAW 623 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~c-~~l~~v~~~---~~~~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~~~kw 623 (783)
+|+ +|+++.+...+.+.+++.. ..+..+.+. .....+++++++++ .|++.||++|.++.++|.++++.+||
T Consensus 184 ~gr----vDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky 259 (275)
T TIGR02995 184 DGR----ADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRDAFNVELAKLKESGEFAKIIAPY 259 (275)
T ss_pred cCC----CCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHHHHHHHHHHHHhChHHHHHHHHh
Confidence 999 9999999998888877542 234443221 11123478888875 59999999999999999999999999
Q ss_pred c
Q 036525 624 F 624 (783)
Q Consensus 624 ~ 624 (783)
-
T Consensus 260 ~ 260 (275)
T TIGR02995 260 G 260 (275)
T ss_pred C
Confidence 4
No 90
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.63 E-value=6.4e-15 Score=151.74 Aligned_cols=215 Identities=17% Similarity=0.291 Sum_probs=156.3
Q ss_pred ceEEEEec-ccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVP-VKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~-~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|+|++. ..+|| .+.+. + +++.|+++|++++|++++|++... ...+|..++.+|.+|++|+++++++.
T Consensus 21 ~~l~v~~~~~~~P~---~~~~~-----~-g~~~G~~~dl~~~i~~~lg~~~~~-~~~~~~~~~~~l~~g~~D~~~~~~~~ 90 (243)
T PRK15007 21 ETIRFATEASYPPF---ESIDA-----N-NQIVGFDVDLAQALCKEIDATCTF-SNQAFDSLIPSLKFRRVEAVMAGMDI 90 (243)
T ss_pred CcEEEEeCCCCCCc---eeeCC-----C-CCEEeeeHHHHHHHHHHhCCcEEE-EeCCHHHHhHHHhCCCcCEEEEcCcc
Confidence 68999996 45555 44322 2 779999999999999999988322 23579999999999999999888999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
+++|.+.++||.||+..+. .++.+.. . +. .+..
T Consensus 91 ~~~r~~~~~fs~p~~~~~~-----------------------------~~v~~~~-~-~~-------------~~~d--- 123 (243)
T PRK15007 91 TPEREKQVLFTTPYYDNSA-----------------------------LFVGQQG-K-YT-------------SVDQ--- 123 (243)
T ss_pred CHHHhcccceecCccccce-----------------------------EEEEeCC-C-CC-------------CHHH---
Confidence 9999999999999987520 0111111 0 00 0000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHh
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 548 (783)
..++ .-.+..|+...+++++. .++.+.+.+++..++.++|.
T Consensus 124 --------L~g~------------------------------~Igv~~g~~~~~~l~~~-~~~~~~~~~~~~~~~~~~L~ 164 (243)
T PRK15007 124 --------LKGK------------------------------KVGVQNGTTHQKFIMDK-HPEITTVPYDSYQNAKLDLQ 164 (243)
T ss_pred --------hCCC------------------------------eEEEecCcHHHHHHHHh-CCCCeEEEcCCHHHHHHHHH
Confidence 0000 11233366666776654 45557778899999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhcCCceEEeccc-----ccccceEEEecCCC-CChHHHHHHHHhhhcCChHHHHHHH
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPK-----FKTAGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEIEDA 622 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~-----~~~~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~~~k 622 (783)
+|+ +|+++.+...+.+++.+... +..++.. +...+++++++++. ++++.||++|.++.++|.++++.++
T Consensus 165 ~gr----vDa~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~~ 239 (243)
T PRK15007 165 NGR----IDAVFGDTAVVTEWLKDNPK-LAAVGDKVTDKDYFGTGLGIAVRQGNTELQQKLNTALEKVKKDGTYETIYNK 239 (243)
T ss_pred cCC----CCEEEeCHHHHHHHHhcCCC-ceeecCcccccccCCcceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence 999 99999998888887766543 4444322 22345789999875 6999999999999999999999999
Q ss_pred hcC
Q 036525 623 WFK 625 (783)
Q Consensus 623 w~~ 625 (783)
|++
T Consensus 240 w~~ 242 (243)
T PRK15007 240 WFQ 242 (243)
T ss_pred hcC
Confidence 985
No 91
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.61 E-value=1.2e-14 Score=151.25 Aligned_cols=220 Identities=14% Similarity=0.166 Sum_probs=153.1
Q ss_pred ceEEEEec-ccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVP-VKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~-~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|+|++. ..+| |.+.+. + +++.|+++|+++++++++|.+..... .+|+.++.++..|++|++++++..
T Consensus 26 ~~l~v~~~~~~pP---f~~~~~-----~-g~~~G~~vdl~~~ia~~lg~~~~~~~-~~~~~~~~~l~~g~~Di~~~~~~~ 95 (260)
T PRK15010 26 ETVRIGTDTTYAP---FSSKDA-----K-GDFVGFDIDLGNEMCKRMQVKCTWVA-SDFDALIPSLKAKKIDAIISSLSI 95 (260)
T ss_pred CeEEEEecCCcCC---ceeECC-----C-CCEEeeeHHHHHHHHHHhCCceEEEe-CCHHHHHHHHHCCCCCEEEecCcC
Confidence 78999986 3444 455432 2 77999999999999999998833222 479999999999999999999999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
|++|.+.++||.||+.+. ..++.++..+.... +..
T Consensus 96 t~eR~~~~~fs~p~~~~~-----------------------------~~~~~~~~~~~~~~-------------~~d--- 130 (260)
T PRK15010 96 TDKRQQEIAFSDKLYAAD-----------------------------SRLIAAKGSPIQPT-------------LDS--- 130 (260)
T ss_pred CHHHHhhcccccceEecc-----------------------------EEEEEECCCCCCCC-------------hhH---
Confidence 999999999999998763 11222222111000 000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcC-CCcccceecCChhHHHHHH
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLG-FDERKLVVYNSPEDCHELF 547 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~-~~~~~~~~~~~~~~~~~~l 547 (783)
..+ ..-.+..|+....++.... ....++..+.+.++++++|
T Consensus 131 --------l~g------------------------------~~Igv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 172 (260)
T PRK15010 131 --------LKG------------------------------KHVGVLQGSTQEAYANETWRSKGVDVVAYANQDLVYSDL 172 (260)
T ss_pred --------cCC------------------------------CEEEEecCchHHHHHHHhcccCCceEEecCCHHHHHHHH
Confidence 000 0112333666655554321 1223566788889999999
Q ss_pred hcCcccCceeEEecchhHHHH-HHhhc-CCceEEecccc-----cccceEEEecCCC-CChHHHHHHHHhhhcCChHHHH
Q 036525 548 QKGSANGGIAAALDEIPYMKL-LIGQH-CSKYTMIEPKF-----KTAGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEI 619 (783)
Q Consensus 548 ~~g~~~~g~~a~~~~~~~~~~-~~~~~-c~~l~~v~~~~-----~~~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~ 619 (783)
.+|+ +|+++.+...+.+ +..+. ...+..++..+ ...+++++++++. .|++.+|++|.+++++|.++++
T Consensus 173 ~~gr----iDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i 248 (260)
T PRK15010 173 AAGR----LDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTAAFNKALGELRQDGTYDKM 248 (260)
T ss_pred HcCC----ccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHH
Confidence 9999 9999999877654 33332 34455554332 2234678999886 5999999999999999999999
Q ss_pred HHHhcCC
Q 036525 620 EDAWFKK 626 (783)
Q Consensus 620 ~~kw~~~ 626 (783)
.+||++.
T Consensus 249 ~~ky~~~ 255 (260)
T PRK15010 249 AKKYFDF 255 (260)
T ss_pred HHHhcCC
Confidence 9999963
No 92
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.61 E-value=1.4e-14 Score=150.32 Aligned_cols=214 Identities=14% Similarity=0.206 Sum_probs=149.4
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhC-CCCCC-CCCCCChHHHHHHHHcCeecEEEecee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPEL-PYAPD-GSSSGSYNDLIYQVFLGEFDAVVGDIT 387 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l-~f~~~-~~~~~~~~gli~~l~~g~~Di~~~~~~ 387 (783)
++|+||+.. +++||.+.+. .+ +++.||++|++++++++| |.... .....+|...+.+|.+|++|+++++++
T Consensus 38 g~l~vg~~~--~~pP~~~~~~----~~-g~~~G~~vdl~~~ia~~llg~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~ 110 (259)
T PRK11917 38 GQLIVGVKN--DVPHYALLDQ----AT-GEIKGFEIDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFT 110 (259)
T ss_pred CEEEEEECC--CCCCceeeeC----CC-CceeEeeHHHHHHHHHHhcCCCccEEEEEcChhhHHHHHHCCCccEEEeccc
Confidence 899999973 3445554321 12 779999999999999995 75311 111245777889999999999999999
Q ss_pred eecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhh
Q 036525 388 IVFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMV 467 (783)
Q Consensus 388 ~t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 467 (783)
+|++|.+.++||.||+.++. .++.+..+. +. ++.-|
T Consensus 111 ~t~eR~~~~~fs~py~~~~~-----------------------------~lvv~~~~~-~~-------------s~~dL- 146 (259)
T PRK11917 111 ITPERKRIYNFSEPYYQDAI-----------------------------GLLVLKEKN-YK-------------SLADM- 146 (259)
T ss_pred CChhhhheeeeccCceeece-----------------------------EEEEECCCC-CC-------------CHHHh-
Confidence 99999999999999998740 122222211 10 00000
Q ss_pred hcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHh----cCCCcccceecCChhHH
Q 036525 468 FSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQ----LGFDERKLVVYNSPEDC 543 (783)
Q Consensus 468 ~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~----~~~~~~~~~~~~~~~~~ 543 (783)
.++ .-.+..|+...+.+.+ .+ ...++..+++..+.
T Consensus 147 ----------~g~------------------------------~V~v~~gs~~~~~l~~~~~~~~-~~~~~~~~~~~~~~ 185 (259)
T PRK11917 147 ----------KGA------------------------------NIGVAQAATTKKAIGEAAKKIG-IDVKFSEFPDYPSI 185 (259)
T ss_pred ----------CCC------------------------------eEEEecCCcHHHHHHHhhHhcC-CceeEEecCCHHHH
Confidence 000 0122235544443332 22 22356678899999
Q ss_pred HHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecCCCC-ChHHHHHHHHhhhcCChHHHHHHH
Q 036525 544 HELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLHSP-LVHDVSKAILNVTEGDKMKEIEDA 622 (783)
Q Consensus 544 ~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~sp-l~~~in~~il~l~e~G~~~~~~~k 622 (783)
.++|..|+ +||++.+...+.++..+. ..++++.+...+++++++|+++ +++.+|+.|.++.. .+++|.+|
T Consensus 186 ~~~l~~Gr----vDa~~~d~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~k 256 (259)
T PRK11917 186 KAALDAKR----VDAFSVDKSILLGYVDDK---SEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKN--EIDALAKK 256 (259)
T ss_pred HHHHHcCC----CcEEEecHHHHHHhhhcC---CeecCCcCCCCceEEEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 99999999 999999988776655432 4567777888889999999975 89999999999865 89999999
Q ss_pred hc
Q 036525 623 WF 624 (783)
Q Consensus 623 w~ 624 (783)
|-
T Consensus 257 w~ 258 (259)
T PRK11917 257 WG 258 (259)
T ss_pred hC
Confidence 94
No 93
>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=99.60 E-value=1.9e-16 Score=149.74 Aligned_cols=99 Identities=31% Similarity=0.638 Sum_probs=74.0
Q ss_pred ChhHHHHHHHHHHHHHHhhheeecccCCCCCC-------CccCccchhHHHHHHHhhhcc-cccccccchhhhHHHHHHH
Q 036525 418 TWDLWVTSGCFFIFIGFVVWVFEHRINDDFRG-------PAKHQVGTSFWFSFSTMVFSQ-RERVISNLARFVVIVWCFV 489 (783)
Q Consensus 418 ~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~l~~~w~l~ 489 (783)
+++||++++++++++++++|+++|..+...+. .....+.+++|++++.+++|+ ...|++.++|++.++|+++
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 58999999999999999999999876665554 223468899999999999766 5578999999999999999
Q ss_pred HHHHHHHhhhhhhheeeccccCCcccC
Q 036525 490 VLILTQSYTASLTSLLTVQQLQPTITD 516 (783)
Q Consensus 490 ~lil~s~Yta~L~s~Lt~~~~~~~i~s 516 (783)
+++++++|+|+|+++||.++.+++|++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~s 107 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDS 107 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCC
Confidence 999999999999999999999988876
No 94
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.60 E-value=1.7e-14 Score=149.36 Aligned_cols=218 Identities=18% Similarity=0.304 Sum_probs=156.7
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+|++.. .+.||...+. + +++.|+++|+++++++.+|++..... .+|..++.+|.+|++|+++++++.+
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-----~-g~~~G~~~dl~~~i~~~lg~~~~~~~-~~~~~~~~~l~~G~~D~~~~~~~~~ 94 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-----N-GKLVGFDVDLAKALCKRMKAKCKFVE-QNFDGLIPSLKAKKVDAIMATMSIT 94 (250)
T ss_pred CeEEEEECC--CCCCceEECC-----C-CCEEeehHHHHHHHHHHhCCeEEEEe-CCHHHHHHHHhCCCcCEEEecCccC
Confidence 579999852 3334444322 2 77999999999999999998833323 5799999999999999999889999
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhc
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFS 469 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 469 (783)
.+|.+.+.||.||+.++. .++.+..+..... +.-
T Consensus 95 ~~r~~~~~~s~p~~~~~~-----------------------------~~~~~~~~~~~~~-------------~~d---- 128 (250)
T TIGR01096 95 PKRQKQIDFSDPYYATGQ-----------------------------GFVVKKGSDLAKT-------------LED---- 128 (250)
T ss_pred HHHhhccccccchhcCCe-----------------------------EEEEECCCCcCCC-------------hHH----
Confidence 999999999999987630 1122221110000 000
Q ss_pred ccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCC-cccceecCChhHHHHHHh
Q 036525 470 QRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFD-ERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 470 ~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~-~~~~~~~~~~~~~~~~l~ 548 (783)
..+ ..-.+..|+....++.+. ++ ..++..+.+.++++++|.
T Consensus 129 -------l~g------------------------------~~i~~~~g~~~~~~l~~~-~~~~~~~~~~~s~~~~~~~L~ 170 (250)
T TIGR01096 129 -------LDG------------------------------KTVGVQSGTTHEQYLKDY-FKPGVDIVEYDSYDNANMDLK 170 (250)
T ss_pred -------cCC------------------------------CEEEEecCchHHHHHHHh-ccCCcEEEEcCCHHHHHHHHH
Confidence 000 000222266666666554 22 446677899999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhcC--CceEEecccccc-----cceEEEecCCC-CChHHHHHHHHhhhcCChHHHHH
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQHC--SKYTMIEPKFKT-----AGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEIE 620 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~c--~~l~~v~~~~~~-----~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~~ 620 (783)
+|+ +|+++.+...+.+.+++.. +++.++++.+.. ..++++++|++ .|+..||++|.+|.++|.++++.
T Consensus 171 ~g~----vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~ 246 (250)
T TIGR01096 171 AGR----IDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKIS 246 (250)
T ss_pred cCC----CCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHH
Confidence 999 9999999999988887653 236666544332 24789999987 59999999999999999999999
Q ss_pred HHhc
Q 036525 621 DAWF 624 (783)
Q Consensus 621 ~kw~ 624 (783)
+||+
T Consensus 247 ~kw~ 250 (250)
T TIGR01096 247 KKWF 250 (250)
T ss_pred HhhC
Confidence 9996
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.55 E-value=8.2e-14 Score=176.19 Aligned_cols=217 Identities=15% Similarity=0.184 Sum_probs=159.8
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+|++. +.|+||.+.+.+ +++.||++|++++|++++|++........|..++.+|.+|++|++. +++.|
T Consensus 302 ~~l~v~~~--~~~pP~~~~d~~------g~~~G~~~Dll~~i~~~~g~~~~~v~~~~~~~~~~~l~~g~~D~i~-~~~~t 372 (1197)
T PRK09959 302 PDLKVLEN--PYSPPYSMTDEN------GSVRGVMGDILNIITLQTGLNFSPITVSHNIHAGTQLNPGGWDIIP-GAIYS 372 (1197)
T ss_pred CceEEEcC--CCCCCeeEECCC------CcEeeehHHHHHHHHHHHCCeEEEEecCCHHHHHHHHHCCCceEee-cccCC
Confidence 78888875 445566766433 7899999999999999999884333345688888999999999865 45689
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhc
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFS 469 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 469 (783)
++|.+.++||.||+.+.. .++.+....... .+.
T Consensus 373 ~~r~~~~~fs~py~~~~~-----------------------------~~v~~~~~~~~~----------------~~~-- 405 (1197)
T PRK09959 373 EDRENNVLFAEAFITTPY-----------------------------VFVMQKAPDSEQ----------------TLK-- 405 (1197)
T ss_pred ccccccceeccccccCCE-----------------------------EEEEecCCCCcc----------------ccc--
Confidence 999999999999998730 111221110000 000
Q ss_pred ccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHhc
Q 036525 470 QRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQK 549 (783)
Q Consensus 470 ~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ 549 (783)
.++. -.+..|+...+++++. ++..+++.|++..+++++|.+
T Consensus 406 --------~g~~------------------------------vav~~g~~~~~~~~~~-~p~~~~~~~~~~~~~l~av~~ 446 (1197)
T PRK09959 406 --------KGMK------------------------------VAIPYYYELHSQLKEM-YPEVEWIKVDNASAAFHKVKE 446 (1197)
T ss_pred --------cCCE------------------------------EEEeCCcchHHHHHHH-CCCcEEEEcCCHHHHHHHHHc
Confidence 0111 1333466666666654 566788999999999999999
Q ss_pred CcccCceeEEecchhHHHHHHhhcC-Cc-eEEecccccccceEEEecCCCC-ChHHHHHHHHhhhcCChHHHHHHHhcCC
Q 036525 550 GSANGGIAAALDEIPYMKLLIGQHC-SK-YTMIEPKFKTAGFGFVFPLHSP-LVHDVSKAILNVTEGDKMKEIEDAWFKK 626 (783)
Q Consensus 550 g~~~~g~~a~~~~~~~~~~~~~~~c-~~-l~~v~~~~~~~~~~~~~~k~sp-l~~~in~~il~l~e~G~~~~~~~kw~~~ 626 (783)
|+ +||++.+...+.|+++++. +. +....+.+....++++++|+.| |++.+|++|..+.++ .++++.+||++.
T Consensus 447 G~----~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~~ 521 (1197)
T PRK09959 447 GE----LDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELKDIINKALNAIPPS-EVLRLTEKWIKM 521 (1197)
T ss_pred CC----CCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHHHHHHHHHHhCCHH-HHHHHHhhcccC
Confidence 99 9999999999999988752 22 3344455556778999999975 999999999999999 889999999963
No 96
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.55 E-value=8.6e-14 Score=144.74 Aligned_cols=220 Identities=15% Similarity=0.176 Sum_probs=151.5
Q ss_pred ceEEEEecc-cCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVPV-KKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~~-~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|+|++.. .+|| .+.+. + +++.|+++|++++++++++.+..... .+|+.++.++.+|++|+++++++.
T Consensus 26 ~~l~v~~~~~~~P~---~~~~~-----~-g~~~G~~vdi~~~ia~~lg~~i~~~~-~pw~~~~~~l~~g~~D~~~~~~~~ 95 (259)
T PRK15437 26 QNIRIGTDPTYAPF---ESKNS-----Q-GELVGFDIDLAKELCKRINTQCTFVE-NPLDALIPSLKAKKIDAIMSSLSI 95 (259)
T ss_pred CeEEEEeCCCCCCc---ceeCC-----C-CCEEeeeHHHHHHHHHHcCCceEEEe-CCHHHHHHHHHCCCCCEEEecCCC
Confidence 788999853 4554 44332 2 77999999999999999998733222 579999999999999999999999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
|++|.+.++||.||+.++. .++.+...+... .+..
T Consensus 96 t~eR~~~~~fs~p~~~~~~-----------------------------~~~~~~~~~~~~-------------~~~d--- 130 (259)
T PRK15437 96 TEKRQQEIAFTDKLYAADS-----------------------------RLVVAKNSDIQP-------------TVES--- 130 (259)
T ss_pred CHHHhhhccccchhhcCce-----------------------------EEEEECCCCCCC-------------ChHH---
Confidence 9999999999999987630 111222111000 0000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCC-CcccceecCChhHHHHHH
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGF-DERKLVVYNSPEDCHELF 547 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l 547 (783)
. ....-.+..|+..+.+++.... ...++..+.+..+.+++|
T Consensus 131 --------l------------------------------~g~~Igv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~L 172 (259)
T PRK15437 131 --------L------------------------------KGKRVGVLQGTTQETFGNEHWAPKGIEIVSYQGQDNIYSDL 172 (259)
T ss_pred --------h------------------------------CCCEEEEecCcHHHHHHHhhccccCceEEecCCHHHHHHHH
Confidence 0 0111133336666666654322 124567888999999999
Q ss_pred hcCcccCceeEEecchhHHHH-HHhhc-CCceEEec-----ccccccceEEEecCCC-CChHHHHHHHHhhhcCChHHHH
Q 036525 548 QKGSANGGIAAALDEIPYMKL-LIGQH-CSKYTMIE-----PKFKTAGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEI 619 (783)
Q Consensus 548 ~~g~~~~g~~a~~~~~~~~~~-~~~~~-c~~l~~v~-----~~~~~~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~ 619 (783)
.+|+ +|+++.+.....+ +..+. -..+.+.+ +++...+++++++++. .|++.+|++|.++.++|.++++
T Consensus 173 ~~gr----vD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i 248 (259)
T PRK15437 173 TAGR----IDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELREALNKAFAEMRADGTYEKL 248 (259)
T ss_pred HcCC----ccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHH
Confidence 9999 9999998876543 23322 12233322 2233345678888764 6999999999999999999999
Q ss_pred HHHhcCC
Q 036525 620 EDAWFKK 626 (783)
Q Consensus 620 ~~kw~~~ 626 (783)
.+||++.
T Consensus 249 ~~k~~~~ 255 (259)
T PRK15437 249 AKKYFDF 255 (259)
T ss_pred HHHhcCC
Confidence 9999974
No 97
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.54 E-value=3.7e-14 Score=159.92 Aligned_cols=219 Identities=15% Similarity=0.142 Sum_probs=153.4
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+|++.. +|+. +...+ +...||++|+++++++++|++.......+|+.++.+|.+|++|++++++++|
T Consensus 43 g~LrVg~~~-~P~~---~~~~~------~~~~G~~~DLl~~ia~~LGv~~e~v~~~~~~~ll~aL~~G~iDi~~~~lt~T 112 (482)
T PRK10859 43 GELRVGTIN-SPLT---YYIGN------DGPTGFEYELAKRFADYLGVKLEIKVRDNISQLFDALDKGKADLAAAGLTYT 112 (482)
T ss_pred CEEEEEEec-CCCe---eEecC------CCcccHHHHHHHHHHHHhCCcEEEEecCCHHHHHHHHhCCCCCEEeccCcCC
Confidence 789999975 3442 22111 3358999999999999999884333346899999999999999999999999
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhc
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFS 469 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 469 (783)
++|.+.++||.||+.+. ..++.+..+.....
T Consensus 113 ~eR~~~~~FS~Py~~~~-----------------------------~~lv~r~~~~~i~~-------------------- 143 (482)
T PRK10859 113 PERLKQFRFGPPYYSVS-----------------------------QQLVYRKGQPRPRS-------------------- 143 (482)
T ss_pred hhhhccCcccCCceeee-----------------------------EEEEEeCCCCCCCC--------------------
Confidence 99999999999998763 01222222111100
Q ss_pred ccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhc--CCCcccc--eecCChhHHHH
Q 036525 470 QRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQL--GFDERKL--VVYNSPEDCHE 545 (783)
Q Consensus 470 ~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~--~~~~~~~--~~~~~~~~~~~ 545 (783)
+....++. -.+..|+...+.+++. .++..++ ..+.+.+++++
T Consensus 144 ----l~dL~Gk~------------------------------I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~ 189 (482)
T PRK10859 144 ----LGDLKGGT------------------------------LTVAAGSSHVETLQELKKKYPELSWEESDDKDSEELLE 189 (482)
T ss_pred ----HHHhCCCe------------------------------EEEECCCcHHHHHHHHHHhCCCceEEecCCCCHHHHHH
Confidence 00000110 1233366666655442 1233332 34578999999
Q ss_pred HHhcCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecCC-C-CChHHHHHHHHhhhcCChHHHHHHHh
Q 036525 546 LFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLH-S-PLVHDVSKAILNVTEGDKMKEIEDAW 623 (783)
Q Consensus 546 ~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~-s-pl~~~in~~il~l~e~G~~~~~~~kw 623 (783)
+|.+|+ +|+++.+...+.+...... ++.+........+++++++|+ + .|++.+|++|.++.++|.++++.+||
T Consensus 190 aL~~G~----iDa~v~d~~~~~~~~~~~p-~l~v~~~l~~~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~ky 264 (482)
T PRK10859 190 QVAEGK----IDYTIADSVEISLNQRYHP-ELAVAFDLTDEQPVAWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEKY 264 (482)
T ss_pred HHHCCC----CCEEEECcHHHHHHHHhCC-CceeeeecCCCceeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence 999999 9999999877665444333 365554444566789999994 4 49999999999999999999999999
Q ss_pred cCC
Q 036525 624 FKK 626 (783)
Q Consensus 624 ~~~ 626 (783)
|+.
T Consensus 265 fg~ 267 (482)
T PRK10859 265 FGH 267 (482)
T ss_pred hhh
Confidence 975
No 98
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.45 E-value=1.5e-12 Score=136.65 Aligned_cols=223 Identities=19% Similarity=0.265 Sum_probs=155.6
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCC-CCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAP-DGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~-~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
+.++|++.... +.||.+.+.. . +.+.||++|+++++++.++... .......|+++++.|..|++|++++++++
T Consensus 34 ~~~~v~~~~~~-~~p~~~~~~~----~-~~~~G~dvdl~~~ia~~l~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 107 (275)
T COG0834 34 GKLRVGTEATY-APPFEFLDAK----G-GKLVGFDVDLAKAIAKRLGGDKKVEFVPVAWDGLIPALKAGKVDIIIAGMTI 107 (275)
T ss_pred CeEEEEecCCC-CCCcccccCC----C-CeEEeeeHHHHHHHHHHhCCcceeEEeccchhhhhHHHhcCCcCEEEecccc
Confidence 67888886321 1233332221 1 3799999999999999988763 23444689999999999999999999999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCC-CCCCccCccchhHHHHHHHhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDD-FRGPAKHQVGTSFWFSFSTMV 467 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~ 467 (783)
|++|.+.++||.||+.++. .++.+..... +.
T Consensus 108 t~er~~~~~fs~py~~~~~-----------------------------~~~~~~~~~~~~~------------------- 139 (275)
T COG0834 108 TPERKKKVDFSDPYYYSGQ-----------------------------VLLVKKDSDIGIK------------------- 139 (275)
T ss_pred CHHHhccccccccccccCe-----------------------------EEEEECCCCcCcC-------------------
Confidence 9999999999999998751 1111111100 00
Q ss_pred hcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCch--HHHHHHhcCCCcccceecCChhHHHH
Q 036525 468 FSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSF--VLGILKQLGFDERKLVVYNSPEDCHE 545 (783)
Q Consensus 468 ~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~--~~~~l~~~~~~~~~~~~~~~~~~~~~ 545 (783)
......+ ..-.+..|++ ....... ..+..++..|++..+.++
T Consensus 140 -----~~~DL~g------------------------------k~v~v~~gt~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 183 (275)
T COG0834 140 -----SLEDLKG------------------------------KKVGVQLGTTDEAEEKAKK-PGPNAKIVAYDSNAEALL 183 (275)
T ss_pred -----CHHHhCC------------------------------CEEEEEcCcchhHHHHHhh-ccCCceEEeeCCHHHHHH
Confidence 0000000 1113333666 3333332 234567889999999999
Q ss_pred HHhcCcccCceeEEecchhHHHHH--HhhcCCceEEecccccc-cceEEEecCC--CCChHHHHHHHHhhhcCChHHHHH
Q 036525 546 LFQKGSANGGIAAALDEIPYMKLL--IGQHCSKYTMIEPKFKT-AGFGFVFPLH--SPLVHDVSKAILNVTEGDKMKEIE 620 (783)
Q Consensus 546 ~l~~g~~~~g~~a~~~~~~~~~~~--~~~~c~~l~~v~~~~~~-~~~~~~~~k~--spl~~~in~~il~l~e~G~~~~~~ 620 (783)
+|..|+ +||++.+.+.+.+. ..+.............. .+++++++|+ ..+++.+|+.|.++.++|.++++.
T Consensus 184 al~~Gr----~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G~~~~i~ 259 (275)
T COG0834 184 ALKNGR----ADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELLEAVNKALKELKADGTLQKIS 259 (275)
T ss_pred HHHcCC----ccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCCcHHHHHHHHHHHHHHHhCccHHHHH
Confidence 999999 99999999998884 33333222333333334 7899999999 479999999999999999999999
Q ss_pred HHhcCC
Q 036525 621 DAWFKK 626 (783)
Q Consensus 621 ~kw~~~ 626 (783)
++|+..
T Consensus 260 ~kw~~~ 265 (275)
T COG0834 260 DKWFGP 265 (275)
T ss_pred HHhcCc
Confidence 999974
No 99
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.41 E-value=1.4e-12 Score=164.97 Aligned_cols=219 Identities=11% Similarity=0.070 Sum_probs=160.2
Q ss_pred ceEEEEecc-cCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVPV-KKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~~-~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|+||+.. .+||. ...+. + +++.||++|+++.|++.+|++.......+|++++.+|.+|++|++.+.++.
T Consensus 56 ~~l~vgv~~~~~p~~--~~~~~-----~-g~~~G~~~D~l~~ia~~lG~~~e~v~~~~~~~~l~~l~~g~iDl~~~~~~~ 127 (1197)
T PRK09959 56 KNLVIAVHKSQTATL--LHTDS-----Q-QRVRGINADYLNLLKRALNIKLTLREYADHQKAMDALEEGEVDIVLSHLVA 127 (1197)
T ss_pred CeEEEEecCCCCCCc--eeecC-----C-CccceecHHHHHHHHHhcCCceEEEeCCCHHHHHHHHHcCCCcEecCcccc
Confidence 789999953 34432 22112 2 789999999999999999988443344589999999999999999999999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
|++|.+.++||.||+.+.. .++.++... .+.
T Consensus 128 ~~~r~~~~~fs~py~~~~~-----------------------------~~v~~~~~~-~~~------------------- 158 (1197)
T PRK09959 128 SPPLNDDIAATKPLIITFP-----------------------------ALVTTLHDS-MRP------------------- 158 (1197)
T ss_pred ccccccchhcCCCccCCCc-----------------------------eEEEeCCCC-CCC-------------------
Confidence 9999999999999987631 112222110 000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHh
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQ 548 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 548 (783)
.....++ .-.+..|+...+++++. ++..+++.|++..++++++.
T Consensus 159 -----~~~l~~~------------------------------~i~~~~g~~~~~~~~~~-~p~~~i~~~~s~~~al~av~ 202 (1197)
T PRK09959 159 -----LTSSKPV------------------------------NIARVANYPPDEVIHQS-FPKATIISFTNLYQALASVS 202 (1197)
T ss_pred -----cccccCe------------------------------EEEEeCCCCCHHHHHHh-CCCCEEEeCCCHHHHHHHHH
Confidence 0000000 01223366666777654 77789999999999999999
Q ss_pred cCcccCceeEEecchhHHHHHHhhc-CCceEEecc-cccccceEEEecCCCC-ChHHHHHHHHhhhcCChHHHHHHHhcC
Q 036525 549 KGSANGGIAAALDEIPYMKLLIGQH-CSKYTMIEP-KFKTAGFGFVFPLHSP-LVHDVSKAILNVTEGDKMKEIEDAWFK 625 (783)
Q Consensus 549 ~g~~~~g~~a~~~~~~~~~~~~~~~-c~~l~~v~~-~~~~~~~~~~~~k~sp-l~~~in~~il~l~e~G~~~~~~~kw~~ 625 (783)
.|+ +||++.+...+.++++++ -.++.+++. ......+.++++|+.+ |...+|++|..+.++|.. ++.+||+.
T Consensus 203 ~G~----~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~ 277 (1197)
T PRK09959 203 AGQ----NDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNWLD 277 (1197)
T ss_pred cCC----CCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccC
Confidence 999 999999999999998875 223555432 2233446688999977 888899999999999988 89999997
Q ss_pred C
Q 036525 626 K 626 (783)
Q Consensus 626 ~ 626 (783)
.
T Consensus 278 ~ 278 (1197)
T PRK09959 278 T 278 (1197)
T ss_pred C
Confidence 4
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=99.40 E-value=1.9e-12 Score=135.34 Aligned_cols=232 Identities=13% Similarity=0.127 Sum_probs=148.6
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhC-CCCCCCCCCCChHHHHHHHHcCeecEEEeceee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPEL-PYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITI 388 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l-~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~ 388 (783)
++|++++...||| .+.+. + +...|+..++++++++++ +++... ...+|++++..| .|+.|.++.++++
T Consensus 18 ~~l~~~~~~~pPf---~~~~~-----~-~~~~G~~~~i~~~i~~~~~~~~~~~-~~~pw~r~l~~l-~~~~d~~~~~~~~ 86 (268)
T TIGR02285 18 EAITWIVNDFPPF---FIFSG-----P-SKGRGVFDVILQEIRRALPQYEHRF-VRVSFARSLKEL-QGKGGVCTVNLLR 86 (268)
T ss_pred ceeEEEecccCCe---eEeCC-----C-CCCCChHHHHHHHHHHHcCCCceeE-EECCHHHHHHHH-hcCCCeEEeeccC
Confidence 6888888765555 44322 2 567899999999999998 766322 235899999999 7888888888999
Q ss_pred ecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCC-CCCCCccCccchhHHHHHHHhh
Q 036525 389 VFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRIND-DFRGPAKHQVGTSFWFSFSTMV 467 (783)
Q Consensus 389 t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~ 467 (783)
|++|.+.++||.||+... -..++.+..+. .+.. +..
T Consensus 87 t~eR~~~~~Fs~P~~~~~----------------------------~~~~~~~~~~~~~~~~-----~~d---------- 123 (268)
T TIGR02285 87 TPEREKFLIFSDPTLRAL----------------------------PVGLVLRKELTAGVRD-----EQD---------- 123 (268)
T ss_pred CcchhhceeecCCccccC----------------------------CceEEEccchhhhccc-----cCC----------
Confidence 999999999999997431 00122222110 0000 000
Q ss_pred hcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccC----CchHHHHHHhcCCCc-ccceecCChhH
Q 036525 468 FSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITD----GSFVLGILKQLGFDE-RKLVVYNSPED 542 (783)
Q Consensus 468 ~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~s----gs~~~~~l~~~~~~~-~~~~~~~~~~~ 542 (783)
+.. ++.+++......-.+.. +...++.+++.+... .++..+.+..+
T Consensus 124 --~~~---------------------------~~~~l~~l~g~~vgv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 (268)
T TIGR02285 124 --GDV---------------------------DLKKLLASKKKRLGVIASRSYGQQIDDILSDSGYQHNTRIIGNAAMGN 174 (268)
T ss_pred --CCc---------------------------cHHHHhcCCCeEEEEecceeccHHHHHHHHhCCcccceeeeccchHHH
Confidence 000 00000000000011222 223345555443321 23455677888
Q ss_pred HHHHHhcCcccCceeEEecchhHHHHHHhhc---CCceEEecccc--cccceEEEecCCC---CChHHHHHHHHhhhcCC
Q 036525 543 CHELFQKGSANGGIAAALDEIPYMKLLIGQH---CSKYTMIEPKF--KTAGFGFVFPLHS---PLVHDVSKAILNVTEGD 614 (783)
Q Consensus 543 ~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~---c~~l~~v~~~~--~~~~~~~~~~k~s---pl~~~in~~il~l~e~G 614 (783)
++++|..|| +|+++.+...+.+++++. ...+..+.... ...+++++++|++ .+++.||++|.+|.++|
T Consensus 175 ~~~~L~~Gr----vD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG 250 (268)
T TIGR02285 175 LFKMLEKGR----VNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDP 250 (268)
T ss_pred HHHHHHcCC----ccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCH
Confidence 999999999 999999999898888743 22344443221 2235789999963 59999999999999999
Q ss_pred hHHHHHHHhcCCCC
Q 036525 615 KMKEIEDAWFKKHS 628 (783)
Q Consensus 615 ~~~~~~~kw~~~~~ 628 (783)
.++++.+||++..+
T Consensus 251 ~~~~i~~k~~~~~~ 264 (268)
T TIGR02285 251 KYYKYFDRWLSPEM 264 (268)
T ss_pred HHHHHHHHhCCHhh
Confidence 99999999997543
No 101
>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=99.37 E-value=4.1e-12 Score=130.89 Aligned_cols=209 Identities=14% Similarity=0.098 Sum_probs=134.0
Q ss_pred eEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHH---HHHHcCeecEEEecee
Q 036525 311 KLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLI---YQVFLGEFDAVVGDIT 387 (783)
Q Consensus 311 ~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli---~~l~~g~~Di~~~~~~ 387 (783)
+|+||+. +.|+||.+. + + .||++||+++||++||++.... ..+|++++ ..|.+|++|+++ +++
T Consensus 1 ~l~vg~~--~~~pPf~~~--~------~--~Gfdvdl~~~ia~~lg~~~~~~-~~~~~~~~~~~~~L~~g~~Dii~-~~~ 66 (246)
T TIGR03870 1 TLRVCAA--TKEAPYSTK--D------G--SGFENKIAAALAAAMGRKVVFV-WLAKPAIYLVRDGLDKKLCDVVL-GLD 66 (246)
T ss_pred CeEEEeC--CCCCCCccC--C------C--CcchHHHHHHHHHHhCCCeEEE-EeccchhhHHHHHHhcCCccEEE-eCC
Confidence 4788885 234444442 1 2 5999999999999999984322 24677766 699999999988 588
Q ss_pred eecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCC-CCCCCccCccchhHHHHHHHh
Q 036525 388 IVFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRIND-DFRGPAKHQVGTSFWFSFSTM 466 (783)
Q Consensus 388 ~t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l 466 (783)
+|++| ++||.||+.++ ..++.++.+. .+..
T Consensus 67 ~t~~r---~~fS~PY~~~~-----------------------------~~~v~~k~~~~~~~~----------------- 97 (246)
T TIGR03870 67 TGDPR---VLTTKPYYRSS-----------------------------YVFLTRKDRNLDIKS----------------- 97 (246)
T ss_pred CChHH---HhcccCcEEee-----------------------------eEEEEeCCCCCCCCC-----------------
Confidence 88888 68999999763 0122222211 1110
Q ss_pred hhcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeecccc-CCcccCCchHHHHHHhcCCC------cccceec--
Q 036525 467 VFSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQL-QPTITDGSFVLGILKQLGFD------ERKLVVY-- 537 (783)
Q Consensus 467 ~~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~-~~~i~sgs~~~~~l~~~~~~------~~~~~~~-- 537 (783)
... +.+... .-.+..|+..+.++++.... ..++..+
T Consensus 98 -------~~d----------------------------~~L~g~~~vgv~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~ 142 (246)
T TIGR03870 98 -------WND----------------------------PRLKKVSKIGVIFGSPAETMLKQIGRYEDNFAYLYSLVNFKS 142 (246)
T ss_pred -------ccc----------------------------hhhccCceEEEecCChHHHHHHhcCccccccccccccccccC
Confidence 000 000000 11344477777777653210 0111222
Q ss_pred -----C--ChhHHHHHHhcCcccCceeEEecchhHHHHHHhhcCCceE--Eecccc-------c--ccceEEEecCCCC-
Q 036525 538 -----N--SPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYT--MIEPKF-------K--TAGFGFVFPLHSP- 598 (783)
Q Consensus 538 -----~--~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~--~v~~~~-------~--~~~~~~~~~k~sp- 598 (783)
. +..+++++|..|+ +||++.+.+.+.+++.+....+. .+++.. . ..+++++++|+.+
T Consensus 143 ~~~~~~~~~~~~~~~aL~~Gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~ 218 (246)
T TIGR03870 143 PRNQYTQIDPRKLVSEVATGK----ADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTA 218 (246)
T ss_pred cccccccCCHHHHHHHHHcCC----CCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCHH
Confidence 1 3578899999999 99999988777777765322233 233221 1 1135899999985
Q ss_pred ChHHHHHHHHhhhcCChHHHHHHHh
Q 036525 599 LVHDVSKAILNVTEGDKMKEIEDAW 623 (783)
Q Consensus 599 l~~~in~~il~l~e~G~~~~~~~kw 623 (783)
|++.||++|.+|. |.+++|..+|
T Consensus 219 L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 219 LLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred HHHHHHHHHHHhH--HHHHHHHHHc
Confidence 9999999999999 4999999998
No 102
>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=99.20 E-value=2.3e-10 Score=116.90 Aligned_cols=210 Identities=15% Similarity=0.100 Sum_probs=133.9
Q ss_pred eEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCC-CCCChHHHHHHHHcCeecEEEeceeee
Q 036525 311 KLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGS-SSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 311 ~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~-~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
.|||++.. .|+||.+ +...||++||++++++++|.+.... ....+.-++..|.+|++|++++ +
T Consensus 1 ~l~v~~~~--~~~P~~~----------~~~~G~~~el~~~i~~~~g~~i~~~~~~~~~~~~~~~l~~g~~Di~~~----~ 64 (232)
T TIGR03871 1 ALRVCADP--NNLPFSN----------EKGEGFENKIAQLLADDLGLPLEYTWFPQRRGFVRNTLNAGRCDVVIG----V 64 (232)
T ss_pred CeEEEeCC--CCCCccC----------CCCCchHHHHHHHHHHHcCCceEEEecCcchhhHHHHHhcCCccEEEe----c
Confidence 37888753 3444442 2236999999999999999883221 1122444677899999999876 5
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccC-CCCCCCccCccchhHHHHHHHhhh
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRIN-DDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
++|.+.++||.||+..+ ..++.+..+ ..++. +.-.
T Consensus 65 ~~r~~~~~fs~py~~~~-----------------------------~~lv~~~~~~~~~~~-------------~~d~-- 100 (232)
T TIGR03871 65 PAGYEMVLTTRPYYRST-----------------------------YVFVTRKDSLLDVKS-------------LDDP-- 100 (232)
T ss_pred cCccccccccCCcEeee-----------------------------EEEEEeCCCcccccc-------------hhhh--
Confidence 78999999999998763 011222221 11100 0000
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCccccee---------cCC
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVV---------YNS 539 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~---------~~~ 539 (783)
......-.+..|+...+++...+... ++.. ..+
T Consensus 101 -------------------------------------~l~g~~V~v~~g~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~ 142 (232)
T TIGR03871 101 -------------------------------------RLKKLRIGVFAGTPPAHWLARHGLVE-NVVGYSLFGDYRPESP 142 (232)
T ss_pred -------------------------------------hhcCCeEEEEcCChHHHHHHhcCccc-ccccccccccccccCC
Confidence 00001112333666667666544321 2221 346
Q ss_pred hhHHHHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEeccc------ccccceEEEecCCC-CChHHHHHHHHhhhc
Q 036525 540 PEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPK------FKTAGFGFVFPLHS-PLVHDVSKAILNVTE 612 (783)
Q Consensus 540 ~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~------~~~~~~~~~~~k~s-pl~~~in~~il~l~e 612 (783)
..+++++|..|+ +||++.+...+.+++++....+.+.... ....+++++++|++ .+++.||++|.++.
T Consensus 143 ~~~~~~~l~~G~----~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~- 217 (232)
T TIGR03871 143 PGRMVEDLAAGE----IDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQ- 217 (232)
T ss_pred HHHHHHHHHcCC----cCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCCHHHHHHHHHHHHHHH-
Confidence 789999999999 9999999888888777642234443321 12345788899886 59999999999986
Q ss_pred CChHHHHHHHhc
Q 036525 613 GDKMKEIEDAWF 624 (783)
Q Consensus 613 ~G~~~~~~~kw~ 624 (783)
|.+++|.+||.
T Consensus 218 -~~~~~i~~kyg 228 (232)
T TIGR03871 218 -AEIDAILREYG 228 (232)
T ss_pred -HHHHHHHHHcC
Confidence 48999999996
No 103
>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=99.19 E-value=2.3e-10 Score=118.41 Aligned_cols=204 Identities=22% Similarity=0.282 Sum_probs=152.4
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
++++.++||+.++.....+...+.+.++|+|+..+..+... .+++++++.+++..++..+++++.+.+|+++++++.+
T Consensus 56 ~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~ 133 (269)
T cd01391 56 QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGD 133 (269)
T ss_pred HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecC
Confidence 34899999998887777688888999999999987765554 5789999999999999999999999999999999987
Q ss_pred C-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-CceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 86 N-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM-QTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 86 ~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~-~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
. .++....+.+++.+++.|.++......+.. .+.++......+++. ++++|++++. ..+..+++++++.|+.+.++
T Consensus 134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~ 211 (269)
T cd01391 134 DGAYGRERLEGFKAALKKAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDI 211 (269)
T ss_pred CcchhhHHHHHHHHHHHhcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCC
Confidence 7 788888999999999999777654443322 224677777777776 7899999877 88999999999999874566
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHH
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRA 218 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~ 218 (783)
.|++.+.+..... .......+...+.. .++......++.+...+|||+.+
T Consensus 212 ~ii~~~~~~~~~~----~~~~~~~~~~ti~~-~~~~~~~~~~~~~~~~~~~a~~~ 261 (269)
T cd01391 212 SIIGFDGSPAALL----AAGEAGPGLTTVAQ-PFPGDDPDQPDYPAALGYDAVLL 261 (269)
T ss_pred EEEeccccccccc----ccccccceEEeccc-CCCCCCCCCCCccccceeeeeee
Confidence 7777776543321 01122233333333 22222224566777888888876
No 104
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.17 E-value=3e-10 Score=113.43 Aligned_cols=216 Identities=25% Similarity=0.466 Sum_probs=152.2
Q ss_pred eEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeeec
Q 036525 311 KLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIVF 390 (783)
Q Consensus 311 ~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t~ 390 (783)
+|+||+. +.+.||...+. + +.+.|+.+|+++.+.+++|++...... +|..++.+|.+|++|++++....+.
T Consensus 1 ~l~v~~~--~~~~p~~~~~~-----~-g~~~G~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~l~~g~~D~~~~~~~~~~ 71 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADE-----D-GELTGFDVDLAKAIAKELGLKVEFVEV-SFDNLLTALKSGKIDVVAAGMTITP 71 (219)
T ss_pred CEEEEec--CCCCCcEEECC-----C-CCcccchHHHHHHHHHHhCCeEEEEec-cHHHHHHHHHCCcccEEeccccCCH
Confidence 4788984 34444554322 2 679999999999999999977332232 7999999999999999999888888
Q ss_pred ccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhcc
Q 036525 391 NRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFSQ 470 (783)
Q Consensus 391 ~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 470 (783)
+|.+.+.|+.|++... ..++.+...+ .. .+.-|
T Consensus 72 ~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~-~~-------------~~~dL---- 104 (219)
T smart00062 72 ERAKQVDFSDPYYKSG-----------------------------QVILVRKDSP-IK-------------SLEDL---- 104 (219)
T ss_pred HHHhheeeccceeece-----------------------------eEEEEecCCC-CC-------------ChHHh----
Confidence 9998899999987652 1112222111 00 00000
Q ss_pred cccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHhcC
Q 036525 471 RERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQKG 550 (783)
Q Consensus 471 ~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g 550 (783)
.++-+ .+..|+....++... .+..++..+.+..+...+|..|
T Consensus 105 -------~g~~i------------------------------~~~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~g 146 (219)
T smart00062 105 -------KGKKV------------------------------AVVAGTTGEELLKKL-YPEAKIVSYDSQAEALAALKAG 146 (219)
T ss_pred -------CCCEE------------------------------EEecCccHHHHHHHh-CCCceEEEcCCHHHHHHHhhcC
Confidence 00000 111144444555544 2334667788889999999999
Q ss_pred cccCceeEEecchhHHHHHHhhcC-CceEEecccccc-cceEEEecCCCC-ChHHHHHHHHhhhcCChHHHHHHHhc
Q 036525 551 SANGGIAAALDEIPYMKLLIGQHC-SKYTMIEPKFKT-AGFGFVFPLHSP-LVHDVSKAILNVTEGDKMKEIEDAWF 624 (783)
Q Consensus 551 ~~~~g~~a~~~~~~~~~~~~~~~c-~~l~~v~~~~~~-~~~~~~~~k~sp-l~~~in~~il~l~e~G~~~~~~~kw~ 624 (783)
+ +|+++...+...+...+.. ..+.++.+.... ..++++++|+++ +.+.+++.|..+.++|.++++.++|+
T Consensus 147 ~----~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 147 R----ADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred c----ccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHHHHHHHHHHHhCchHHHHHhccC
Confidence 9 9999999988887776651 246666665555 788999999985 89999999999999999999999996
No 105
>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=99.15 E-value=7.2e-10 Score=110.84 Aligned_cols=214 Identities=23% Similarity=0.368 Sum_probs=147.7
Q ss_pred EEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeeecc
Q 036525 312 LRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIVFN 391 (783)
Q Consensus 312 L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t~~ 391 (783)
|+|++... ++||...+ .+ +.+.|+..++++.++++++++..... ..|..++.+|.+|++|++++....+.+
T Consensus 1 l~i~~~~~--~~p~~~~~-----~~-g~~~G~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~l~~g~~D~~~~~~~~~~~ 71 (218)
T cd00134 1 LTVGTAGT--YPPFSFRD-----AN-GELTGFDVDLAKAIAKELGVKVKFVE-VDWDGLITALKSGKVDLIAAGMTITPE 71 (218)
T ss_pred CEEecCCC--CCCeeEEC-----CC-CCEEeeeHHHHHHHHHHhCCeEEEEe-CCHHHHHHHHhcCCcCEEeecCcCCHH
Confidence 57888643 33444332 23 78999999999999999997722222 339999999999999999998888999
Q ss_pred cceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhccc
Q 036525 392 RSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFSQR 471 (783)
Q Consensus 392 R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 471 (783)
|.+.+.|+.|+.... ..++.+...+.. .+.-
T Consensus 72 ~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~~~--------------~~~d------ 102 (218)
T cd00134 72 RAKQVDFSDPYYKSG-----------------------------QVILVKKGSPIK--------------SVKD------ 102 (218)
T ss_pred HHhhccCcccceecc-----------------------------EEEEEECCCCCC--------------ChHH------
Confidence 999999999887753 012222211100 0000
Q ss_pred ccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHHhcCCCcccceecCChhHHHHHHhcCc
Q 036525 472 ERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILKQLGFDERKLVVYNSPEDCHELFQKGS 551 (783)
Q Consensus 472 ~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~ 551 (783)
..++-+ .+..|+....++.+. ....++..+.+.++.++.+.+|+
T Consensus 103 -----l~g~~i------------------------------~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~g~ 146 (218)
T cd00134 103 -----LKGKKV------------------------------AVQKGSTAEKYLKKA-LPEAKVVSYDDNAEALAALENGR 146 (218)
T ss_pred -----hCCCEE------------------------------EEEcCchHHHHHHHh-CCcccEEEeCCHHHHHHHHHcCC
Confidence 000000 111134444444443 22346677888999999999999
Q ss_pred ccCceeEEecchhHHHHHHhhc-CCceEEeccc--ccccceEEEecCCC-CChHHHHHHHHhhhcCChHHHHHHHhc
Q 036525 552 ANGGIAAALDEIPYMKLLIGQH-CSKYTMIEPK--FKTAGFGFVFPLHS-PLVHDVSKAILNVTEGDKMKEIEDAWF 624 (783)
Q Consensus 552 ~~~g~~a~~~~~~~~~~~~~~~-c~~l~~v~~~--~~~~~~~~~~~k~s-pl~~~in~~il~l~e~G~~~~~~~kw~ 624 (783)
+|+++.+.....+...+. ++ ++++... .....++++.++++ .+.+.+|++|..++++|.++.+.+||+
T Consensus 147 ----~d~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 147 ----ADAVIVDEIALAALLKKHPPE-LKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred ----ccEEEeccHHHHHHHHhcCCC-cEEeccccCCCccceEEEEcCCCHHHHHHHHHHHHHHHhCccHHHHHHhhC
Confidence 999999998888877665 43 6666553 34455677777766 589999999999999999999999996
No 106
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.08 E-value=7.5e-10 Score=102.54 Aligned_cols=107 Identities=29% Similarity=0.506 Sum_probs=92.8
Q ss_pred cccCCchHHHHHHhcCCCc----------ccceecCChhHHHHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEecc
Q 036525 513 TITDGSFVLGILKQLGFDE----------RKLVVYNSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEP 582 (783)
Q Consensus 513 ~i~sgs~~~~~l~~~~~~~----------~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~ 582 (783)
.+..|++.+.++++...+. .++..|++..+++.+|..|+ ||++.+.+.+.+++++.|+ +.++++
T Consensus 17 gv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-----da~v~d~~~~~~~~~~~~~-~~~~~~ 90 (134)
T smart00079 17 GTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-----YAFLMESTYLDYELSQNCD-LMTVGE 90 (134)
T ss_pred eEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-----CEEEeehHhHHHHHhCCCC-eEEcCc
Confidence 4445888888887753321 25677899999999999987 7999999999998887786 888988
Q ss_pred cccccceEEEecCCCCChHHHHHHHHhhhcCChHHHHHHHhcC
Q 036525 583 KFKTAGFGFVFPLHSPLVHDVSKAILNVTEGDKMKEIEDAWFK 625 (783)
Q Consensus 583 ~~~~~~~~~~~~k~spl~~~in~~il~l~e~G~~~~~~~kw~~ 625 (783)
.+...+++++++||++|++.||.+|.+|.++|.++++.++||+
T Consensus 91 ~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 91 NFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred ccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 8888899999999999999999999999999999999999986
No 107
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=98.73 E-value=6.8e-08 Score=98.72 Aligned_cols=218 Identities=15% Similarity=0.088 Sum_probs=150.3
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|||+|...|- ..|. .. +...|++.++.+++++.||.+-.-.+..+.+.++.+|.+|++|++.+++...
T Consensus 23 GvLrV~tinsp~-sy~~--------~~-~~p~G~eYelak~Fa~yLgV~Lki~~~~n~dqLf~aL~ng~~DL~Aagl~~~ 92 (473)
T COG4623 23 GVLRVSTINSPL-SYFE--------DK-GGPTGLEYELAKAFADYLGVKLKIIPADNIDQLFDALDNGNADLAAAGLLYN 92 (473)
T ss_pred CeEEEEeecCcc-ceec--------cC-CCccchhHHHHHHHHHHhCCeEEEEecCCHHHHHHHHhCCCcceecccccCC
Confidence 899999986543 2222 12 5677999999999999999882223335789999999999999999999999
Q ss_pred cccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhhee-ecccCCCCCCCccCccchhHHHHHHHhhh
Q 036525 390 FNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVF-EHRINDDFRGPAKHQVGTSFWFSFSTMVF 468 (783)
Q Consensus 390 ~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 468 (783)
++|.+.+....-|+... |.+ -|+.+...+
T Consensus 93 ~~~l~~~~~gP~y~svs------------------------------~qlVyRkG~~Rp~-------------------- 122 (473)
T COG4623 93 SERLKNFQPGPTYYSVS------------------------------QQLVYRKGQYRPR-------------------- 122 (473)
T ss_pred hhHhcccCCCCceeccc------------------------------HHHHhhcCCCCCC--------------------
Confidence 99988877665555431 111 122111111
Q ss_pred cccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHHHH---hcCCCcccce--ecCChhHH
Q 036525 469 SQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGILK---QLGFDERKLV--VYNSPEDC 543 (783)
Q Consensus 469 ~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~l~---~~~~~~~~~~--~~~~~~~~ 543 (783)
.+....+|.+ +|..|+...+.++ +..+|.-..+ .-...++.
T Consensus 123 ----~l~~L~g~~i------------------------------~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dL 168 (473)
T COG4623 123 ----SLGQLKGRQI------------------------------TVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDL 168 (473)
T ss_pred ----CHHHccCcee------------------------------eccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHH
Confidence 0111222222 3333555544443 2234432222 12356789
Q ss_pred HHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecCC--CCChHHHHHHHHhhhcCChHHHHHH
Q 036525 544 HELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLH--SPLVHDVSKAILNVTEGDKMKEIED 621 (783)
Q Consensus 544 ~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~--spl~~~in~~il~l~e~G~~~~~~~ 621 (783)
++.+..|+ ++-.+.|...+..+..-.++ +.+.-+.-...+.++++|.+ +.|...++..+..+.|+|.+++++.
T Consensus 169 le~v~~Gk----ldytiads~~is~~q~i~P~-laVafd~tde~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larlee 243 (473)
T COG4623 169 LEMVAEGK----LDYTIADSVEISLFQRVHPE-LAVAFDLTDEQPVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARLEE 243 (473)
T ss_pred HHHHhcCC----cceeeeccHHHHHHHHhCcc-ceeeeecccccCceeeccCCchHHHHHHHHHHHHHhhcchHHHHHHH
Confidence 99999999 99999998877766555554 65555555568899999996 5799999999999999999999999
Q ss_pred HhcCC
Q 036525 622 AWFKK 626 (783)
Q Consensus 622 kw~~~ 626 (783)
||++.
T Consensus 244 ky~gH 248 (473)
T COG4623 244 KYLGH 248 (473)
T ss_pred HHhcc
Confidence 99974
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=98.50 E-value=9.1e-07 Score=100.38 Aligned_cols=180 Identities=14% Similarity=0.121 Sum_probs=105.2
Q ss_pred cCCeEEEEccCCchhHHHHHcccCC--CCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNK--SQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~--~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
.+|+.+||||..=....+++..-.. ..||++..+..+.. .. -+.+|....+.+.++..+++.+..-|++++.||+
T Consensus 276 ~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~ 352 (536)
T PF04348_consen 276 ADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLA 352 (536)
T ss_dssp HTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEE
T ss_pred HcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEc
Confidence 4589999999998888887776432 58999998866544 11 3456666666788999999999999999999999
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
+++++|+...+.|.+++++.|++++....+. ...|+...+..-.+.+.|.||+.+.+.+++.+--+..-.. ...--
T Consensus 353 p~~~~g~R~~~aF~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~~-a~~lP 428 (536)
T PF04348_consen 353 PQNAWGQRMAEAFNQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFHF-AGDLP 428 (536)
T ss_dssp ESSHHHHHHHHHHHHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT-T--TT-E
T ss_pred CCChHHHHHHHHHHHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhccccc-CCCCC
Confidence 9999999999999999999999987666654 2348888888666678999999999888887766654321 11111
Q ss_pred EEEEeCCcccccccCChhhhhcccceeEeeeC
Q 036525 164 VWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPY 195 (783)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 195 (783)
...++..... ..++.....++|+.++...
T Consensus 429 -vyatS~~~~g--~~~~~~~~dL~gv~f~d~P 457 (536)
T PF04348_consen 429 -VYATSRSYSG--SPNPSQDRDLNGVRFSDMP 457 (536)
T ss_dssp -EEE-GGG--H--HT-HHHHHHTTT-EEEE-G
T ss_pred -EEEeccccCC--CCCcchhhhhcCCEEeccc
Confidence 2223222111 1233445678999888654
No 109
>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=98.45 E-value=5e-08 Score=75.73 Aligned_cols=52 Identities=35% Similarity=0.673 Sum_probs=40.4
Q ss_pred ccEEEeeC--CCCCCCccEEEeeHHHHHHHhhhCCCC------CCC-----CCCCChHHHHHHHHc
Q 036525 324 DFVNVTID--PKTQEQTSVTGYCIDVFKAVIPELPYA------PDG-----SSSGSYNDLIYQVFL 376 (783)
Q Consensus 324 ~f~~~~~~--~~~~~~~~~~G~~idl~~~ia~~l~f~------~~~-----~~~~~~~gli~~l~~ 376 (783)
||++.+++ +.+++ .++.|||+||+++||+.|||+ +++ .++++|+||+++|.+
T Consensus 1 Pfvm~~~~~~~~~g~-~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGENLTGN-DRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSGSBGG-GGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcccCCC-ccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 45666555 44566 899999999999999999999 443 458999999999874
No 110
>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=98.17 E-value=2.1e-05 Score=81.35 Aligned_cols=154 Identities=10% Similarity=0.066 Sum_probs=111.6
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
.++.++|+...+.......+.+.+.++|+|......+. .++++++..++...+..+++++...|.++|+++..+.
T Consensus 54 ~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 128 (264)
T cd01537 54 RGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPL 128 (264)
T ss_pred cCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 47888887666655554677888999999998765442 3567788888899999999999888999999998655
Q ss_pred C--cCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 87 Q--YGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 87 ~--~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
. ++....+.|++.+++.| .++.... ....+.++....+.++.+.+ ++++++... ..+..+++++++.|+..+
T Consensus 129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~i~ 205 (264)
T cd01537 129 GSSTARERVAGFKDALKEAGPIEIVLVQ--EGDWDAEKGYQAAEELLTAHPDPTAIFAAND-DMALGALRALREAGLRVP 205 (264)
T ss_pred CCCcHHHHHHHHHHHHHHcCCcChhhhc--cCCCCHHHHHHHHHHHHhcCCCCCEEEEcCc-HHHHHHHHHHHHhCCCCC
Confidence 4 66777899999999887 4443222 22334556777777877766 566666544 456678899999998644
Q ss_pred ceEEEEe
Q 036525 162 GCVWIMT 168 (783)
Q Consensus 162 ~~~~i~~ 168 (783)
+.+-+.+
T Consensus 206 ~~i~i~~ 212 (264)
T cd01537 206 DDISVIG 212 (264)
T ss_pred CCeEEEe
Confidence 4444443
No 111
>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=98.00 E-value=4.7e-05 Score=78.77 Aligned_cols=154 Identities=8% Similarity=0.042 Sum_probs=107.9
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
.++.+||....+..+.. .+.+...+||+|......+. +.+..+..++...+..+++++...|.+++++++.+.
T Consensus 54 ~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 126 (264)
T cd06267 54 RRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPP 126 (264)
T ss_pred cCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCC
Confidence 47888887666555555 67788999999998765432 455667777888889999999888999999998654
Q ss_pred C--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 87 Q--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 87 ~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
. ++....+.+++.+++.|..+.....+....+..+....+.++.+.. +|+|+.. ....+..+++++++.|+..++
T Consensus 127 ~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~ 205 (264)
T cd06267 127 DLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPE 205 (264)
T ss_pred ccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCC
Confidence 4 6777889999999998854433222222223346667777777665 6776654 445667888889999985444
Q ss_pred eEEEEe
Q 036525 163 CVWIMT 168 (783)
Q Consensus 163 ~~~i~~ 168 (783)
.+.|.+
T Consensus 206 ~i~i~~ 211 (264)
T cd06267 206 DVSVVG 211 (264)
T ss_pred ceEEEe
Confidence 444443
No 112
>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=97.90 E-value=0.00019 Score=74.46 Aligned_cols=154 Identities=8% Similarity=0.032 Sum_probs=104.3
Q ss_pred CCeEEEEccCC-chhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVMLGPED-SMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp~~-S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+||+... +.......+.+.+.++|+|......+. .+.+..+.+++...+..+++++... |.+++++++
T Consensus 54 ~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~ 128 (267)
T cd01536 54 QGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIE 128 (267)
T ss_pred cCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 37888876433 333334556667889999998764332 2345667777788888899998776 889999998
Q ss_pred EeC--CcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhccCc--eEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VDN--QYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTMQT--RVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~--~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~--dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.+. .++....+.|++.+++.| .++..... .+.+..+..+.+.++.+..+ ++|++. ....+..+++++++.|+
T Consensus 129 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~~~-~d~~a~~~~~~l~~~g~ 205 (267)
T cd01536 129 GPPGSSNAQERVKGFRDALKEYPDIEIVAVQD--GNWDREKALQAMEDLLQANPDIDAIFAA-NDSMALGAVAALKAAGR 205 (267)
T ss_pred cccccchHHHHHHHHHHHHHhCCCcEEEEEec--CCCcHHHHHHHHHHHHHhCCCccEEEEe-cCCchHHHHHHHHhcCC
Confidence 654 478888999999999984 66543322 22333466677777765554 554444 44567779999999997
Q ss_pred cccceEEEEeC
Q 036525 159 MNKGCVWIMTD 169 (783)
Q Consensus 159 ~~~~~~~i~~~ 169 (783)
. .+...++.+
T Consensus 206 ~-~~i~ivg~d 215 (267)
T cd01536 206 K-GDVKIVGVD 215 (267)
T ss_pred C-CCceEEecC
Confidence 5 444344443
No 113
>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=97.77 E-value=0.00013 Score=75.47 Aligned_cols=208 Identities=15% Similarity=0.121 Sum_probs=123.1
Q ss_pred ceEEEEecccCCccccEEEeeCCCCCCCccEEEeeHHHHHHHhhhCCCCCCCCCCCChHHHHHHHHcCeecEEEeceeee
Q 036525 310 LKLRIGVPVKKGFSDFVNVTIDPKTQEQTSVTGYCIDVFKAVIPELPYAPDGSSSGSYNDLIYQVFLGEFDAVVGDITIV 389 (783)
Q Consensus 310 ~~L~V~v~~~~p~~~f~~~~~~~~~~~~~~~~G~~idl~~~ia~~l~f~~~~~~~~~~~gli~~l~~g~~Di~~~~~~~t 389 (783)
++|+||+.. .+.+ ..+.+...++.+.+++++|++.......+|+.++..+.+|++|+++.+....
T Consensus 32 ~~l~vg~~~--~~~~-------------~~~~~~~~~l~~~l~~~~g~~v~~~~~~~~~~~~~~l~~g~~Di~~~~~~~~ 96 (254)
T TIGR01098 32 KELNFGILP--GENA-------------SNLTRRWEPLADYLEKKLGIKVQLFVATDYSAVIEAMRFGRVDIAWFGPSSY 96 (254)
T ss_pred CceEEEECC--CCCH-------------HHHHHHHHHHHHHHHHHhCCcEEEEeCCCHHHHHHHHHcCCccEEEECcHHH
Confidence 678999952 2222 2233556799999999999873333336799999999999999999776544
Q ss_pred c---ccceeeeccccccccc-ccccceeeccCChhHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHH
Q 036525 390 F---NRSNYVGFTLPYTESG-KRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFST 465 (783)
Q Consensus 390 ~---~R~~~vdFs~p~~~s~-~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 465 (783)
. +|....+|+.||.... ...... .++.+.... +. .+.-
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------~lvv~~d~~-i~-------------~~~d 138 (254)
T TIGR01098 97 VLAHYRANAEVFALTAVSTDGSPGYYS------------------------VIIVKADSP-IK-------------SLKD 138 (254)
T ss_pred HHHHHhcCCceEEeeccccCCCCceEE------------------------EEEEECCCC-CC-------------ChHH
Confidence 3 5666788888765431 000000 111222111 10 0000
Q ss_pred hhhcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCch-HHHHHHh-cCCCc----ccceecCC
Q 036525 466 MVFSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSF-VLGILKQ-LGFDE----RKLVVYNS 539 (783)
Q Consensus 466 l~~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~-~~~~l~~-~~~~~----~~~~~~~~ 539 (783)
| .++-+. ++.. .-..+.. ...++.+ .+... .++....+
T Consensus 139 L-----------~gk~I~-----------------------~~~~--~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~ 182 (254)
T TIGR01098 139 L-----------KGKTFA-----------------------FGDP--ASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGS 182 (254)
T ss_pred h-----------cCCEEE-----------------------eeCC--CCccchHhHHHHHHHhcCCChHHhhhheeecCc
Confidence 0 011100 0000 0000001 1222332 22211 24444556
Q ss_pred hhHHHHHHhcCcccCceeEEecchhHHHHHHhhcC---CceEEecccccccceEEEecCC-CC-ChHHHHHHHHhh
Q 036525 540 PEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHC---SKYTMIEPKFKTAGFGFVFPLH-SP-LVHDVSKAILNV 610 (783)
Q Consensus 540 ~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c---~~l~~v~~~~~~~~~~~~~~k~-sp-l~~~in~~il~l 610 (783)
..+..+++..|+ +||.+.+.+.+..+..+.. ..++++.+.....+++++++|+ .+ +++.||++|+.|
T Consensus 183 ~~~~~~al~~G~----~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 183 HDASALAVANGK----VDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred hHHHHHHHHcCC----CCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 788999999999 9999999988877666542 2578887766666789999999 54 999999999764
No 114
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=97.70 E-value=9.1e-05 Score=77.83 Aligned_cols=168 Identities=10% Similarity=0.059 Sum_probs=111.4
Q ss_pred CCChHHHHHHHHcCeecEEEeceeeecccceeeecccccccccccccceeeccCChhHHHHHHHHHHHHHHhhheeeccc
Q 036525 364 SGSYNDLIYQVFLGEFDAVVGDITIVFNRSNYVGFTLPYTESGKRNAWVFLQPLTWDLWVTSGCFFIFIGFVVWVFEHRI 443 (783)
Q Consensus 364 ~~~~~gli~~l~~g~~Di~~~~~~~t~~R~~~vdFs~p~~~s~~~~~~~~l~PF~~~vWl~i~~~~~~~~~~~~~~~~~~ 443 (783)
..++.+++..|.+|++|++++++.++.+|.+.++|+.|+.... ... .++....
T Consensus 50 ~~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~--~~l-------------------------vvvvp~~ 102 (287)
T PRK00489 50 FLRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGK--CRL-------------------------VLAVPED 102 (287)
T ss_pred EECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCc--eEE-------------------------EEEEECC
Confidence 4578999999999999999999999999999999998843221 000 0111110
Q ss_pred CCCCCCCccCccchhHHHHHHHhhhcccccccccchhhhHHHHHHHHHHHHHHhhhhhhheeeccccCCcccCCchHHHH
Q 036525 444 NDDFRGPAKHQVGTSFWFSFSTMVFSQRERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTVQQLQPTITDGSFVLGI 523 (783)
Q Consensus 444 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~~~~~~~i~sgs~~~~~ 523 (783)
. .+.. +.-| .++ +.....+.....+
T Consensus 103 ~-~i~s-------------l~DL-----------~Gk------------------------------~ia~~~~~~~~~~ 127 (287)
T PRK00489 103 S-DWQG-------------VEDL-----------AGK------------------------------RIATSYPNLTRRY 127 (287)
T ss_pred C-CCCC-------------hHHh-----------CCC------------------------------EEEEcCcHHHHHH
Confidence 0 0000 0000 000 0011114556677
Q ss_pred HHhcCCCcccceecCChhHHHHHHhcCcccCceeEEecchhHHHHHHhhcCCceEEecccccccceEEEecC--CCC-Ch
Q 036525 524 LKQLGFDERKLVVYNSPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPL--HSP-LV 600 (783)
Q Consensus 524 l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k--~sp-l~ 600 (783)
+.+.+. ..+++.+.+..+. ++..|. +||+++.......+.++ +++++ +++.....+++.+| ++| .+
T Consensus 128 l~~~gi-~~~iv~~~gs~ea--a~~~G~----aDaivd~~~~~~~l~~~---~L~~v-~~~~~~~~~li~~k~~~~~~~~ 196 (287)
T PRK00489 128 LAEKGI-DAEVVELSGAVEV--APRLGL----ADAIVDVVSTGTTLRAN---GLKIV-EVILRSEAVLIARKGWLDPEKQ 196 (287)
T ss_pred HHHcCC-ceEEEECCCchhh--hhcCCc----ccEEEeeHHHHHHHHHC---CCEEE-EeeeeeeEEEEEcccccChhHH
Confidence 777665 3355666655554 666688 99999877776665553 36777 56667778999999 555 77
Q ss_pred HHHHHHHHhhhcCChHHHHHHHhcCC
Q 036525 601 HDVSKAILNVTEGDKMKEIEDAWFKK 626 (783)
Q Consensus 601 ~~in~~il~l~e~G~~~~~~~kw~~~ 626 (783)
+.+|..+.+| .|.+..+.+|||+.
T Consensus 197 ~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 197 EKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred HHHHHHHHHH--HHHHHhhceEEEEE
Confidence 8899999999 59999999999963
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=97.60 E-value=0.00053 Score=71.16 Aligned_cols=190 Identities=11% Similarity=0.081 Sum_probs=116.1
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..++++||....+.........+.+.++|+|......+ ...+++ ..++...+..++++|...|.++++++..+
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (266)
T cd06282 53 RQRVDGLILTVADAATSPALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGR 125 (266)
T ss_pred hcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEeccc
Confidence 35788888543333333456677888999998764332 123433 46677888899999988899999999732
Q ss_pred ---CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHH-hcc-CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 86 ---NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKL-FTM-QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 86 ---~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l-~~~-~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
.++++...++|.+++++.|+++....... .+..+....+.++ ++. .+++|+. ++...+..+++++++.|+..
T Consensus 126 ~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~ 202 (266)
T cd06282 126 LAASDRARQRYAGYRAAMRAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRV 202 (266)
T ss_pred cccCchHHHHHHHHHHHHHHcCCCCCccccCC--CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCC
Confidence 34677788999999999988654322222 2222333445444 333 4677666 45666778999999999865
Q ss_pred cceEE-EEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 161 KGCVW-IMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 161 ~~~~~-i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
++-+- ++.|... . .....+.+.... ......++.|+.++...++.
T Consensus 203 p~di~v~g~d~~~-~--------~~~~~p~lt~i~-----------~~~~~~g~~a~~~l~~~l~~ 248 (266)
T cd06282 203 PDDLSVVGFDGIA-I--------GRLLTPPLATVA-----------QPNRDIGRQAVQRLLARIAG 248 (266)
T ss_pred CCceEEEeecchH-H--------HhhcCCCceeec-----------CCHHHHHHHHHHHHHHHhcC
Confidence 54443 3333211 0 011111111111 12466788888888888764
No 116
>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=97.48 E-value=0.001 Score=69.43 Aligned_cols=145 Identities=10% Similarity=0.036 Sum_probs=100.5
Q ss_pred CCeEEEEccCCchh-HHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVMLGPEDSMP-TNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp~~S~~-~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+||....+.. .......+.+.++|+|......+ . +.++++.+++...+..++++|... |-++++++.
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 132 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVR 132 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 48999987544432 33455667778999999864321 1 456778888888999999998766 889999997
Q ss_pred Ee--CCcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhccCc--eEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VD--NQYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTMQT--RVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d--~~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~--dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.+ ...+......|++++++.+ +++.... ..+.+.++....+.++.+..+ ++|++.... +..+++.+++.|+
T Consensus 133 ~~~~~~~~~~R~~g~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~ 208 (272)
T cd06300 133 GLAGHPVDEDRYAGAKEVLKEYPGIKIVGEV--YGDWDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGR 208 (272)
T ss_pred CCCCCcchHHHHHHHHHHHHHCCCcEEEeec--CCCCCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCC
Confidence 43 3455677889999999887 7765322 222233455667777765554 655555444 8889999999998
Q ss_pred ccc
Q 036525 159 MNK 161 (783)
Q Consensus 159 ~~~ 161 (783)
..+
T Consensus 209 ~~p 211 (272)
T cd06300 209 DIP 211 (272)
T ss_pred CCc
Confidence 544
No 117
>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=97.34 E-value=0.0031 Score=65.85 Aligned_cols=155 Identities=9% Similarity=0.013 Sum_probs=97.2
Q ss_pred CCeEEE-EccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVM-LGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~ai-IGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+| +.|..+....+....+.+.++|+|......+ ... ...+..++...+..+++++... |.++++++.
T Consensus 56 ~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~---~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 129 (275)
T cd06320 56 KGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLI---PNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAIIE 129 (275)
T ss_pred hCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCC---Ccc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 478875 5665555444556667789999998764321 111 1235667777788899998765 889999997
Q ss_pred EeC--CcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccCceEEE-EEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDN--QYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI-VHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~--~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii-~~~~~~~~~~~~~~a~~~g~~ 159 (783)
... .......+.+.+++++. |+++.... ..+.+..+....+.++.+..+++-. ++.+...+..+++.+++.|+.
T Consensus 130 ~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 130 GKAGAFAAEQRTEGFTEAIKKASGIEVVASQ--PADWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred CCCCCccHHHHHHHHHHHHhhCCCcEEEEec--CCCccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 532 33355568899999998 88875432 1122333445566666655444323 333455566788888999974
Q ss_pred ccceEEEEeCC
Q 036525 160 NKGCVWIMTDG 170 (783)
Q Consensus 160 ~~~~~~i~~~~ 170 (783)
.+...++.++
T Consensus 208 -~di~vig~d~ 217 (275)
T cd06320 208 -GKVLVVGTDG 217 (275)
T ss_pred -CCeEEEecCC
Confidence 3333444443
No 118
>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=97.33 E-value=0.0018 Score=67.34 Aligned_cols=148 Identities=16% Similarity=0.131 Sum_probs=95.4
Q ss_pred CCeEEEE--ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 7 AQVRVML--GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 7 ~~V~aiI--Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
.+|.++| |+..+ ......+.+.++|+|......+. ...+| +..++...+..+++++...|.+++++|..
T Consensus 54 ~~vdgiii~~~~~~---~~~~~~l~~~~iPvv~~~~~~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 124 (268)
T cd06273 54 RGVDGLALIGLDHS---PALLDLLARRGVPYVATWNYSPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFG 124 (268)
T ss_pred cCCCEEEEeCCCCC---HHHHHHHHhCCCCEEEEcCCCCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEec
Confidence 3676654 44322 23344567789999998643221 12333 45677888888999998889999999974
Q ss_pred e---CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 85 D---NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 85 d---~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
. +.++.....+|.+++++.++++.....+..+.+.++....+.++.+ ..+++|+. +....+..+++.+++.|+.
T Consensus 125 ~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~ 203 (268)
T cd06273 125 PTQGNDRARARRAGVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLS 203 (268)
T ss_pred cccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCC
Confidence 3 2346677899999999998765432222222222233455566554 34777775 5566677888999999986
Q ss_pred ccceE
Q 036525 160 NKGCV 164 (783)
Q Consensus 160 ~~~~~ 164 (783)
.++-+
T Consensus 204 ~p~~i 208 (268)
T cd06273 204 VPEDL 208 (268)
T ss_pred CCCce
Confidence 55444
No 119
>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=97.31 E-value=0.0023 Score=66.61 Aligned_cols=160 Identities=14% Similarity=0.109 Sum_probs=100.5
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
++...+|.+||....+.......+.+...++|++......+. ...++ +..++...+..+++++...|.++++++
T Consensus 51 ~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i 124 (270)
T cd01545 51 LLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFI 124 (270)
T ss_pred HHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEE
Confidence 344568999987544433445566677899999988754322 12232 345667777889999988899999999
Q ss_pred EEeCCcC--CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 83 YVDNQYG--EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 83 ~~d~~~G--~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
..+..+. ....++|.+++++.|+.+.............+-...+.++.+ .++++|++ ++...+..+++.+++.|+
T Consensus 125 ~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~~~~~~g~ 203 (270)
T cd01545 125 AGPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIFA-SNDDMAAGVLAVAHRRGL 203 (270)
T ss_pred eCCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 8655443 344688999999888765211111111111122234455543 35677764 455778899999999998
Q ss_pred cccc-eEEEEeC
Q 036525 159 MNKG-CVWIMTD 169 (783)
Q Consensus 159 ~~~~-~~~i~~~ 169 (783)
..++ ...++-+
T Consensus 204 ~~p~~i~vig~d 215 (270)
T cd01545 204 RVPDDLSVVGFD 215 (270)
T ss_pred CCCCceEEEEEC
Confidence 6544 3344444
No 120
>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=97.29 E-value=0.0041 Score=64.97 Aligned_cols=156 Identities=8% Similarity=0.060 Sum_probs=97.1
Q ss_pred CCeEEE-EccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc------CCeEE
Q 036525 7 AQVRVM-LGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF------GWREA 79 (783)
Q Consensus 7 ~~V~ai-IGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------gw~~v 79 (783)
.++.+| ++|..+.......+.+.+.++|+|...... . ...++..+..++..-+..+++++... |.+++
T Consensus 54 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~---~--~~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (277)
T cd06319 54 KGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGA---E--GGDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKV 128 (277)
T ss_pred cCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCC---C--CCceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcE
Confidence 478777 577666555566777888999999875321 1 11234456666666677777776443 67899
Q ss_pred EEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCce--EEEEEcChhhHHHHHHHHHH
Q 036525 80 VPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTR--VFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 80 aii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~d--vii~~~~~~~~~~~~~~a~~ 155 (783)
+++... ...+....+.|++.+++.|+.+.... ...+.+..+-...+.++.+..++ +|+. .....+..+++++++
T Consensus 129 ~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~ 206 (277)
T cd06319 129 GMVAIPQKRKNGQKRTKGFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAIWL-QGSDRYQGALDAIAT 206 (277)
T ss_pred EEEeccCCCccHHHHHHHHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEEEE-CCCccchHHHHHHHH
Confidence 999743 34567778999999999998754221 11122223334455566555554 4443 444456788999999
Q ss_pred cCccccceEEEEeCC
Q 036525 156 IGLMNKGCVWIMTDG 170 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~ 170 (783)
.|+. .+...++-+.
T Consensus 207 ~g~~-~di~vvg~d~ 220 (277)
T cd06319 207 AGKT-GKVLLICFDA 220 (277)
T ss_pred cCCC-CCEEEEEcCC
Confidence 9985 3333444443
No 121
>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=97.27 E-value=0.0034 Score=65.17 Aligned_cols=155 Identities=9% Similarity=0.077 Sum_probs=96.0
Q ss_pred cCCeEE-EEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEE
Q 036525 6 NAQVRV-MLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPI 82 (783)
Q Consensus 6 ~~~V~a-iIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii 82 (783)
+.++.+ |+++..+.........+...++|+|......+ ..+.+-.+..++...+..+++++... |-++++++
T Consensus 53 ~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l 127 (268)
T cd06323 53 TRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVEL 127 (268)
T ss_pred HcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEE
Confidence 346887 55666655445555666778999999865322 11223345566666678899998776 78999999
Q ss_pred EE--eCCcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcC
Q 036525 83 YV--DNQYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 83 ~~--d~~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.. +..++....++|.+++++. |+++...... ..+..+....+.++.+.. +++| ++.+...+..+++++++.|
T Consensus 128 ~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g 204 (268)
T cd06323 128 QGIPGASAARERGKGFHEVVDKYPGLKVVASQPA--DFDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAG 204 (268)
T ss_pred eCCCCCccHHHHHHHHHHHHHhCCCcEEEecccC--CCCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcC
Confidence 85 3446677789999999984 7776432211 122223334455554443 4554 3444455656888999999
Q ss_pred ccccceEEEEeCC
Q 036525 158 LMNKGCVWIMTDG 170 (783)
Q Consensus 158 ~~~~~~~~i~~~~ 170 (783)
+ ++...++.+.
T Consensus 205 ~--~di~iig~d~ 215 (268)
T cd06323 205 K--DDVKVVGFDG 215 (268)
T ss_pred C--CCcEEEEeCC
Confidence 7 3444555443
No 122
>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=97.24 E-value=0.0023 Score=67.03 Aligned_cols=144 Identities=11% Similarity=0.130 Sum_probs=96.1
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCC----CCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLT----SIRSPYFFRGALNDSSQVGAITAIIKAF--GWREA 79 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls----~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~v 79 (783)
+++|.+||+..++. ..... ....++|+|..+...+... ....+..+.+..++...+..+++++... |.+++
T Consensus 58 ~~~vd~iI~~~~~~-~~~~~--~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i 134 (281)
T cd06325 58 ADKPDLIVAIATPA-AQAAA--NATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTV 134 (281)
T ss_pred hcCCCEEEEcCcHH-HHHHH--HcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEE
Confidence 35899999865432 33332 5678999999875443211 1111222334445666778888888775 99999
Q ss_pred EEEEEeC-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 80 VPIYVDN-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 80 aii~~d~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
++++.+. .++....+.+++.+++.|++++... + ....++...+.++.+ ++|+|++... ..+..+++++++.|+
T Consensus 135 ~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~-~---~~~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 135 GVLYNPSEANSVVQVKELKKAAAKLGIEVVEAT-V---SSSNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEe-c---CCHHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 9998654 3777788999999999998876532 1 234567777777764 4688776654 456677888888775
No 123
>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=96.94 E-value=0.008 Score=62.34 Aligned_cols=154 Identities=14% Similarity=0.069 Sum_probs=97.5
Q ss_pred cCCeEEEE--ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVML--GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiI--Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.++++|| ++.. ...+...+.+.++|+|......+ ....+ .+..++...+..++++|...|-++++++.
T Consensus 53 ~~~vdgiii~~~~~---~~~~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~ 123 (268)
T cd06298 53 AKQVDGIIFMGGKI---SEEHREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFIS 123 (268)
T ss_pred HhcCCEEEEeCCCC---cHHHHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEe
Confidence 45787777 4322 23345556678999999865321 11122 35667777788899999888999999998
Q ss_pred Ee---CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC-ceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VD---NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d---~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~-~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+ ..+++...++|++.+++.|+++.....+....+.......+.++.+.. +++|++. ....+..+++.+++.|+.
T Consensus 124 ~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~~-~d~~a~~~~~~l~~~g~~ 202 (268)
T cd06298 124 GPLEDSINGDERLAGYKEALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFVT-DDELAIGILNAAQDAGLK 202 (268)
T ss_pred CCcccccchhHHHHHHHHHHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHcCCC
Confidence 43 336778889999999999876532211111112222334555665544 7887764 445577889999999986
Q ss_pred ccceE-EEEeC
Q 036525 160 NKGCV-WIMTD 169 (783)
Q Consensus 160 ~~~~~-~i~~~ 169 (783)
.++-+ +++-+
T Consensus 203 vp~di~vvg~d 213 (268)
T cd06298 203 VPEDFEIIGFN 213 (268)
T ss_pred CccceEEEeec
Confidence 55443 44444
No 124
>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=96.92 E-value=0.014 Score=60.89 Aligned_cols=159 Identities=13% Similarity=0.068 Sum_probs=92.8
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEe-ecCchhhHHHHHHHHHHc--CCeEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRG-ALNDSSQVGAITAIIKAF--GWREAVP 81 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~-~p~~~~~~~ai~~~l~~~--gw~~vai 81 (783)
..+|.+|| .+..+.........+.+.++|+|......+ ....++++.. ..++...+..+++++... |-+++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 130 (275)
T cd06317 54 AQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVV 130 (275)
T ss_pred HcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEE
Confidence 34788774 454444444555667789999998764322 2233444333 344455677777777554 7789999
Q ss_pred EEEeCCc--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc---cCceEEEEEcChhhHHHHHHHHHHc
Q 036525 82 IYVDNQY--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT---MQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 82 i~~d~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~---~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+..+.++ +....++|++++++.|..+.............+....+.++.+ ..+++|++. +...+..+++++++.
T Consensus 131 l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~a~g~~~~l~~~ 209 (275)
T cd06317 131 IAGQPGNGTAIERQKGFEDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYAG-DDNMARGALNAAKEA 209 (275)
T ss_pred EecCCCCchHHHHHHHHHHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEEC-CCcHHHHHHHHHHhc
Confidence 9854443 3455688999999986443322222111121232333444432 346777754 444577899999999
Q ss_pred CccccceEEEEeC
Q 036525 157 GLMNKGCVWIMTD 169 (783)
Q Consensus 157 g~~~~~~~~i~~~ 169 (783)
|+. .+...++.+
T Consensus 210 g~~-~dv~v~g~d 221 (275)
T cd06317 210 GLA-GGIVIVGAN 221 (275)
T ss_pred CCc-CCcEEEEeC
Confidence 985 333344444
No 125
>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=96.90 E-value=0.012 Score=61.05 Aligned_cols=157 Identities=11% Similarity=0.097 Sum_probs=97.4
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
++.+.+|.+||...+.... .....+.+.++|+|......+ ....+| +..++...+..+++++...|.++++++
T Consensus 54 ~~~~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i 126 (268)
T cd06271 54 LVESGLVDGVIISRTRPDD-PRVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALL 126 (268)
T ss_pred HHHcCCCCEEEEecCCCCC-hHHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEe
Confidence 4555678888864333222 233455678999998864322 122344 445677778888888888899999999
Q ss_pred EEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 83 YVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 83 ~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.... ..+....++|.+++++.|..+.....+....+.......+.++.+. .+++|++.. ...+..+++.+++.|+
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-d~~a~g~~~al~~~g~ 205 (268)
T cd06271 127 NPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSS-ELMALGVLAALAEAGL 205 (268)
T ss_pred cCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcC-cHHHHHHHHHHHHhCC
Confidence 7433 3445667899999999887643222222222222333445555433 467777654 4566778899999998
Q ss_pred cccceEEEE
Q 036525 159 MNKGCVWIM 167 (783)
Q Consensus 159 ~~~~~~~i~ 167 (783)
..++-+-+.
T Consensus 206 ~vp~~i~ii 214 (268)
T cd06271 206 RPGRDVSVV 214 (268)
T ss_pred CCCcceeEE
Confidence 765544443
No 126
>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=96.89 E-value=0.018 Score=59.90 Aligned_cols=158 Identities=9% Similarity=0.040 Sum_probs=96.9
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPI 82 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii 82 (783)
+.+|.++| .|..+.....+...+.+.++|+|......+.. .+.+..+..++...+..++++|... |-++++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i 129 (272)
T cd06301 54 AQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAIL 129 (272)
T ss_pred HcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEE
Confidence 34788775 66555555566666789999999875432211 1334557777778888888988655 55799999
Q ss_pred EEeC--CcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcC
Q 036525 83 YVDN--QYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 83 ~~d~--~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.... .......++|.+++++.| .++... .....+...-...+.++.+. .+++|++ .+...+..+++.+++.|
T Consensus 130 ~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g 206 (272)
T cd06301 130 MGPLGQSAQIDRTKGVEEVLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDAVVA-NNDEMALGAIMALKAAG 206 (272)
T ss_pred ECCCCCccHHHHHHHHHHHHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCEEEE-CCCchHHHHHHHHHHcC
Confidence 7433 334556788999999887 443321 11111222223444554333 4576544 45556677889999999
Q ss_pred ccccceEEEEeCC
Q 036525 158 LMNKGCVWIMTDG 170 (783)
Q Consensus 158 ~~~~~~~~i~~~~ 170 (783)
+.+.+...++-+.
T Consensus 207 ~~~~di~ivg~d~ 219 (272)
T cd06301 207 KSDKDVPVAGIDG 219 (272)
T ss_pred CCCCCcEEEeeCC
Confidence 8643555555544
No 127
>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=96.84 E-value=0.016 Score=59.89 Aligned_cols=150 Identities=9% Similarity=0.078 Sum_probs=99.2
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCC-eEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGW-REAVPIY 83 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw-~~vaii~ 83 (783)
.++.+|| .|..+........-+...+||+|..... .....+....+.+++...+..+++++.. .+- .+++++.
T Consensus 54 ~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~ 129 (257)
T PF13407_consen 54 QGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILS 129 (257)
T ss_dssp TTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEE
T ss_pred hcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEecc
Confidence 4688776 7777777777888899999999997654 1122345566777888899999999854 332 6888886
Q ss_pred EeCC--cCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 84 VDNQ--YGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
.... ..+...+.+.+.+++ .++++..... ..+.+..+....+.++.+.++-..|+++....+..+++..++.|+..
T Consensus 130 ~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~ 208 (257)
T PF13407_consen 130 GSPGNPNTQERLEGFRDALKEYPGVEIVDEYE-YTDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAG 208 (257)
T ss_dssp SSTTSHHHHHHHHHHHHHHHHCTTEEEEEEEE-ECTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTT
T ss_pred CCCCchHHHHHHHHHHHHHhhcceeeeeeeee-ccCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcc
Confidence 4333 334578889999998 4566655322 22334445555566655555423335566677777899999999843
Q ss_pred c
Q 036525 161 K 161 (783)
Q Consensus 161 ~ 161 (783)
.
T Consensus 209 ~ 209 (257)
T PF13407_consen 209 K 209 (257)
T ss_dssp T
T ss_pred c
Confidence 3
No 128
>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=96.82 E-value=0.018 Score=59.95 Aligned_cols=156 Identities=11% Similarity=0.049 Sum_probs=98.8
Q ss_pred CCeEEEEccCCc-hhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCCeEEEEEEE
Q 036525 7 AQVRVMLGPEDS-MPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGWREAVPIYV 84 (783)
Q Consensus 7 ~~V~aiIGp~~S-~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~~vaii~~ 84 (783)
.++.+||....+ .........+.+.++|+|......+... ..+.++.+..++...+..+++++.+ .|.++++++..
T Consensus 56 ~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g 133 (271)
T cd06312 56 AKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIH 133 (271)
T ss_pred hCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 478887763333 3234445556778999999865332221 2345667888888999999999988 89999999974
Q ss_pred --eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 --DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 --d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++..+....+.|.+++++.|+.+... ....+..+....+.++.+. ++++|++.. ...+..+++.+++.|+.
T Consensus 134 ~~~~~~~~~r~~g~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~-d~~a~g~~~al~~~g~~- 208 (271)
T cd06312 134 EPGNVTLEDRCAGFADGLGGAGITEEVI---ETGADPTEVASRIAAYLRANPDVDAVLTLG-APSAAPAAKALKQAGLK- 208 (271)
T ss_pred CCCCccHHHHHHHHHHHHHhcCceeeEe---ecCCCHHHHHHHHHHHHHhCCCccEEEEeC-CccchHHHHHHHhcCCC-
Confidence 33445677899999999888754321 1112222334445555433 456655543 45577788888899975
Q ss_pred cceEEEEeC
Q 036525 161 KGCVWIMTD 169 (783)
Q Consensus 161 ~~~~~i~~~ 169 (783)
.+...++-+
T Consensus 209 ~di~vvg~d 217 (271)
T cd06312 209 GKVKLGGFD 217 (271)
T ss_pred CCeEEEEec
Confidence 333334333
No 129
>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=96.76 E-value=0.012 Score=60.99 Aligned_cols=157 Identities=9% Similarity=0.024 Sum_probs=95.4
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.++|...+..........+...++|+|......+. .... .+..++...+..+++++...|.++|+++..+
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~ 126 (268)
T cd06289 53 EHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGL 126 (268)
T ss_pred HcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCC
Confidence 357888876544333334556677889999998643221 1122 2456666778888888888899999998743
Q ss_pred --CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 --NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 --~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
........++|.+.+++.|..+.....+............+.++.+. .+++|+.. ....+..+++.+++.|+..+
T Consensus 127 ~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~p 205 (268)
T cd06289 127 EDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVCF-NDLVAFGAMSGLRRAGLTPG 205 (268)
T ss_pred ccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCC
Confidence 23556678999999998885432211111111222233444454433 45776644 44456678899999998654
Q ss_pred ce-EEEEeC
Q 036525 162 GC-VWIMTD 169 (783)
Q Consensus 162 ~~-~~i~~~ 169 (783)
+- ..++.+
T Consensus 206 ~di~iig~d 214 (268)
T cd06289 206 RDIAVVGFD 214 (268)
T ss_pred cceEEEeec
Confidence 43 344444
No 130
>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=96.76 E-value=0.016 Score=62.43 Aligned_cols=149 Identities=15% Similarity=0.093 Sum_probs=94.6
Q ss_pred cCCeEEEE--ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVML--GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiI--Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+|.+|| ++.. .......+.+.++|+|......+ ....+ .+..++..-+..++++|...|.++++++.
T Consensus 113 ~~~vdGiIi~~~~~---~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~ 183 (329)
T TIGR01481 113 SKQVDGIIFMGGTI---TEKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVG 183 (329)
T ss_pred hCCCCEEEEeCCCC---ChHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEe
Confidence 45677766 4322 23344455677999998754321 11222 35566667778888888888999999996
Q ss_pred EeC--C-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 84 VDN--Q-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~d~--~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
.+. . .+....++|.+++++.|+.+..........+..+-...+.++.+.+|++|++. +...+..+++.+++.|+..
T Consensus 184 g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~~-~d~~A~g~~~al~~~g~~v 262 (329)
T TIGR01481 184 GPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFVA-SDEMAAGILNAAMDAGIKV 262 (329)
T ss_pred cCcccccchHHHHHHHHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 432 2 34677899999999999875432222111122233345566666678887764 4456778999999999865
Q ss_pred cceE
Q 036525 161 KGCV 164 (783)
Q Consensus 161 ~~~~ 164 (783)
++-+
T Consensus 263 P~dv 266 (329)
T TIGR01481 263 PEDL 266 (329)
T ss_pred CCce
Confidence 5443
No 131
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=96.75 E-value=0.021 Score=62.12 Aligned_cols=180 Identities=11% Similarity=0.109 Sum_probs=114.1
Q ss_pred cccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.++|+..++||.--....++..--. ..||++..+.++..- ..+..+-...+.+.+++..+.++-.-|.+...++.
T Consensus 315 aqq~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlv 390 (604)
T COG3107 315 AQQDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLV 390 (604)
T ss_pred HHhcCCcEEeccccchhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHccccCceEEe
Confidence 34679999999999999888866543 788888876543322 23445555666677899999999999999999999
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHH-----------------------HHhccC-ceEEEE
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELY-----------------------KLFTMQ-TRVFIV 139 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~-----------------------~l~~~~-~dvii~ 139 (783)
+.+++|+..++.|.+++++.|+..+....+- . ..++...+. .+.+.. .|+|++
T Consensus 391 Pr~~lG~Rv~~AF~~~Wq~~gg~~v~~~~fg--~-~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyi 467 (604)
T COG3107 391 PRNDLGDRVANAFNQEWQKLGGGTVLQQKFG--S-TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYI 467 (604)
T ss_pred cchHHHHHHHHHHHHHHHHhcCCchhHhhcC--c-HHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEE
Confidence 9999999999999999999988443333221 0 011111111 112223 788888
Q ss_pred EcChhhHHHHHHHHHHcCccccceEEEEeCCcccccccCChhhhhcccceeEee
Q 036525 140 HKLPSLGSRIFEKANEIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVR 193 (783)
Q Consensus 140 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~ 193 (783)
...+.++..|--...-.+.....- ...++.... ...+++....++|+-...
T Consensus 468 vAtp~el~~IKP~ia~~~~~~~~p-~yaSSr~~~--gT~~P~~~~~m~Giqysd 518 (604)
T COG3107 468 VATPSELALIKPMIAMANGSDSPP-LYASSRSSQ--GTNGPDFRLEMEGIQYSD 518 (604)
T ss_pred EecchhHhHHhhHHHhhcCCCCcc-eeeeccccc--cCCCccHHHhccCccccC
Confidence 888887776655444333211111 222222111 112344456678875543
No 132
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=96.74 E-value=0.018 Score=59.92 Aligned_cols=195 Identities=10% Similarity=0.002 Sum_probs=110.7
Q ss_pred CCeEEEEcc-CCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH--cCCeEEEEEE
Q 036525 7 AQVRVMLGP-EDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA--FGWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp-~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~gw~~vaii~ 83 (783)
.++.+||.. ..+.....+...+.+.++|+|......+. +.+..+..++...+..+++++.. .|.++++++.
T Consensus 54 ~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 127 (273)
T cd06305 54 QKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVN 127 (273)
T ss_pred cCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEE
Confidence 478888764 33333445556677889999998653221 22334667778888888998865 5889999997
Q ss_pred Ee-CCcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhccCc----eEEEEEcChhhHHHHHHHHHHcC
Q 036525 84 VD-NQYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTMQT----RVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 84 ~d-~~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~----dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.. ....+.....|.+.+++.+ +++..........+..+....+.++.+..+ ++|+. .+...+..+++.+++.|
T Consensus 128 ~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g 206 (273)
T cd06305 128 VAGFPPLDRRYDVWQAVLKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWA-AWDEFAKGAKQALDEAG 206 (273)
T ss_pred ccCCchHHHHHHHHHHHHHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEE-cChhhhHHHHHHHHHcC
Confidence 43 2233445668888888877 555432211111122233445555544444 44444 34556777888999999
Q ss_pred ccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 158 LMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
+.. +...++.+........ .....+..-.+. -......+|-|+.++.+.++
T Consensus 207 ~~~-di~iig~d~~~~~~~~-----i~~~~~~~~~tv----------~~~~~~~g~~a~~~l~~~l~ 257 (273)
T cd06305 207 RTD-EIKIYGVDISPEDLQL-----MREPDSPWVATA----------AQDPALIGKVAVRNVARLIA 257 (273)
T ss_pred CCC-CceEEEecCCHHHHHH-----HHccCCceEEEe----------cCCHHHHHHHHHHHHHHHHc
Confidence 753 4444555533211100 011112111111 01235578888888887775
No 133
>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=96.54 E-value=0.0089 Score=63.07 Aligned_cols=81 Identities=20% Similarity=0.146 Sum_probs=57.1
Q ss_pred eecC-ChhHHHHHHhcCcccCceeEEecchhHHHHHHhhcC----CceEEecccccccceEEEecCC-C-CChHHHHHHH
Q 036525 535 VVYN-SPEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHC----SKYTMIEPKFKTAGFGFVFPLH-S-PLVHDVSKAI 607 (783)
Q Consensus 535 ~~~~-~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c----~~l~~v~~~~~~~~~~~~~~k~-s-pl~~~in~~i 607 (783)
+.+. +..+..++|..|+ +||.+.+.+.+..++.+.. ..++++.........+++++++ . .+++.+++.|
T Consensus 171 v~~~~~~~~~~~al~~G~----vDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l 246 (288)
T TIGR03431 171 VTFSGSHEAAILAVANGT----VDAATTNDENLDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAF 246 (288)
T ss_pred heecCchHHHHHHHHcCC----CCeEeccHHHHHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHH
Confidence 3444 6788999999999 9999998877776665321 1244443221222356888998 3 4999999999
Q ss_pred HhhhcCChHHHH
Q 036525 608 LNVTEGDKMKEI 619 (783)
Q Consensus 608 l~l~e~G~~~~~ 619 (783)
.++.+++..+++
T Consensus 247 ~~~~~~~~~~~~ 258 (288)
T TIGR03431 247 LNYHKTDKACFE 258 (288)
T ss_pred HhcCCCcHHHHH
Confidence 999999766543
No 134
>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=96.53 E-value=0.026 Score=58.35 Aligned_cols=157 Identities=11% Similarity=0.087 Sum_probs=94.1
Q ss_pred cccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+.+|++||......... ..... ..++|+|......+ .+.+..+..++...+..+++++...|.++++++.
T Consensus 51 ~~~~~vdgiii~~~~~~~~-~~~~~-~~~ipvv~~~~~~~------~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~ 122 (267)
T cd06284 51 LRRKQADGIILLDGSLPPT-ALTAL-AKLPPIVQACEYIP------GLAVPSVSIDNVAAARLAVDHLISLGHRRIALIT 122 (267)
T ss_pred HHHcCCCEEEEecCCCCHH-HHHHH-hcCCCEEEEecccC------CCCcceEEecccHHHHHHHHHHHHcCCceEEEEc
Confidence 4455888887632221211 22222 45999998753211 1223346677778888899999888999999997
Q ss_pred Ee--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+ +..+....+.|.+++++.|+++........+.+..+-...+.++.+. .+++|+.. +...+..+++++++.|+.
T Consensus 123 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~ 201 (267)
T cd06284 123 GPRDNPLARDRLEGYRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLR 201 (267)
T ss_pred CCccchhHHHHHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCC
Confidence 53 34567778999999999986543221111111222333445554333 46777665 444567888999999986
Q ss_pred ccceE-EEEeC
Q 036525 160 NKGCV-WIMTD 169 (783)
Q Consensus 160 ~~~~~-~i~~~ 169 (783)
.++-+ .++-+
T Consensus 202 ~p~~v~v~g~d 212 (267)
T cd06284 202 VPEDISVVGFD 212 (267)
T ss_pred CccceeEEEeC
Confidence 44433 34433
No 135
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=96.51 E-value=0.07 Score=54.94 Aligned_cols=151 Identities=11% Similarity=0.050 Sum_probs=96.2
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..++.++|...... ...+...+.+.++|+|......+ .+..+..++...+..++++|...|.++++++...
T Consensus 53 ~~~~dgii~~~~~~-~~~~~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~ 123 (259)
T cd01542 53 RQKVDGIILLATTI-TDEHREAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVS 123 (259)
T ss_pred hcCCCEEEEeCCCC-CHHHHHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCC
Confidence 35788887643322 23455566777999999864221 2223667778888999999988899999998632
Q ss_pred -C--CcCCcchHHHHHHHhhCCc-eEeEEEecCCCCChhHHHHHHHHHhccC-ceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 86 -N--QYGEAMIPSLTDALHAIDT-RVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 86 -~--~~G~~~~~~~~~~l~~~g~-~v~~~~~i~~~~~~~d~~~~l~~l~~~~-~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+ ..++...+.|++.+++.|. .+.. .... .+...-...+.++.+.. +++|++.. ...+..+++.+++.|+..
T Consensus 124 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~v 199 (259)
T cd01542 124 ESDIAVGILRKQGYLDALKEHGICPPNI-VETD--FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRI 199 (259)
T ss_pred cccchhHHHHHHHHHHHHHHcCCChHHe-eecc--CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCC
Confidence 2 2345667899999999887 2211 1111 11123334555555444 68776655 456778888999999876
Q ss_pred cceEEEEeC
Q 036525 161 KGCVWIMTD 169 (783)
Q Consensus 161 ~~~~~i~~~ 169 (783)
++-+.+.+-
T Consensus 200 p~di~v~g~ 208 (259)
T cd01542 200 PEDISVAGF 208 (259)
T ss_pred CCceEEEec
Confidence 665655543
No 136
>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=96.47 E-value=0.04 Score=57.37 Aligned_cols=196 Identities=9% Similarity=0.015 Sum_probs=114.5
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.++.+|| .|..+.........+.+.++|+|......+. ....+++.++..++...+..++++|... |-++++++.
T Consensus 54 ~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 131 (273)
T cd06309 54 QGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQ 131 (273)
T ss_pred cCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEe
Confidence 4677764 5544443344555677889999998753221 1113567788888888899999998766 889999997
Q ss_pred EeCC--cCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhHHHHHHHHHHcC
Q 036525 84 VDNQ--YGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.+.. ......++|++++++. +.++... ...+.+..+....+.++.+. .+++|+. .+...+..+++.+++.|
T Consensus 132 ~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~aI~~-~~d~~a~g~~~a~~~~g 208 (273)
T cd06309 132 GTVGSSVAIDRKKGFAEVIKKYPNMKIVAS--QTGDFTRAKGKEVMEALLKAHGDDIDAVYA-HNDEMALGAIQAIKAAG 208 (273)
T ss_pred CCCCCchHHHHHHHHHHHHHHCCCCEEeec--cCCcccHHHHHHHHHHHHHhCCCCccEEEE-CCcHHHHHHHHHHHHcC
Confidence 5432 3345578899999987 4544321 11111222333444554433 3566544 34455667888999999
Q ss_pred ccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 158 LMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
+..++-+.|.+-...... ......+.+..... +. ...+|.|+.++.+.++
T Consensus 209 ~~ip~di~iig~d~~~~~------~~~~~~~~lt~~~~---------~~--~~~g~~a~~~l~~~i~ 258 (273)
T cd06309 209 KKPGKDIKIVSIDGTKDA------FQAMADGKLNATVE---------CN--PLFGPLAFDTLEKYLA 258 (273)
T ss_pred CCCCCCeEEEecCCCHHH------HHHHHcCceEEEEe---------cC--hhHHHHHHHHHHHHhc
Confidence 875554444443322110 01223344433221 11 2358888888887775
No 137
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=96.39 E-value=0.053 Score=57.34 Aligned_cols=154 Identities=11% Similarity=0.108 Sum_probs=91.7
Q ss_pred CCeE-EEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-CCe-EEEEEE
Q 036525 7 AQVR-VMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-GWR-EAVPIY 83 (783)
Q Consensus 7 ~~V~-aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-gw~-~vaii~ 83 (783)
.++. +|++|..+.........+.+.++|+|...... . ....+..+.+++..-+..+++++... |.+ +++++.
T Consensus 81 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~---~--~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~ 155 (295)
T PRK10653 81 RGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGA---T--KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLE 155 (295)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCC---C--CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 3666 44566555554556667778899999986421 1 12234456666666678888888654 543 566655
Q ss_pred Ee--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCc--eEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQT--RVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~--dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+ ....+...++|.+++++.|+++.... ....+..+....+.++.+..+ ++|+. .....+..+++++++.|+
T Consensus 156 ~~~~~~~~~~R~~gf~~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~l~al~~~G~- 231 (295)
T PRK10653 156 GIAGTSAARERGEGFKQAVAAHKFNVLASQ--PADFDRTKGLNVMQNLLTAHPDVQAVFA-QNDEMALGALRALQTAGK- 231 (295)
T ss_pred ccCCCccHHHHHHHHHHHHhhCCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCcCEEEE-CCChhHHHHHHHHHHcCC-
Confidence 32 22345677899999999998764321 112222233445556655544 44333 444456678899999997
Q ss_pred ccceEEEEeCC
Q 036525 160 NKGCVWIMTDG 170 (783)
Q Consensus 160 ~~~~~~i~~~~ 170 (783)
.+...++-+.
T Consensus 232 -~dv~vig~d~ 241 (295)
T PRK10653 232 -SDVMVVGFDG 241 (295)
T ss_pred -CceEEEEeCC
Confidence 3444455443
No 138
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=96.32 E-value=0.043 Score=57.15 Aligned_cols=156 Identities=13% Similarity=0.097 Sum_probs=95.0
Q ss_pred cccCCeEEEE--ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 4 LNNAQVRVML--GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 4 i~~~~V~aiI--Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+.+.++.+|| ++... ......+...+||+|......+. +.+..+.+++...+..+++++...|.+++++
T Consensus 60 l~~~~~dgiii~~~~~~---~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~ 130 (275)
T cd06295 60 LASGRADGVILIGQHDQ---DPLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAF 130 (275)
T ss_pred HHhCCCCEEEEeCCCCC---hHHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEE
Confidence 3345777775 33222 23345567889999988653322 2233466677778888899998889999999
Q ss_pred EEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcC
Q 036525 82 IYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 82 i~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
+..+. ..+....++|.+.+++.|..+.....+..+.+.......+.++.+. .+++|+... ...+..+++.+++.|
T Consensus 131 i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l~~~g 209 (275)
T cd06295 131 LGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRALREAG 209 (275)
T ss_pred EcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHHHHhC
Confidence 97543 3345667889999998886543222222222222333445555444 457766654 455667888888999
Q ss_pred ccccceE-EEEeC
Q 036525 158 LMNKGCV-WIMTD 169 (783)
Q Consensus 158 ~~~~~~~-~i~~~ 169 (783)
+..++-+ .++-+
T Consensus 210 ~~ip~~i~ii~~d 222 (275)
T cd06295 210 RRVPEDVAVVGFD 222 (275)
T ss_pred CCCccceEEEeeC
Confidence 8544333 34444
No 139
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=96.26 E-value=0.051 Score=56.19 Aligned_cols=155 Identities=11% Similarity=0.045 Sum_probs=94.1
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.+||--..... ......+.+.++|+|......+ . +....+..++...+..+++++...|.++++++..+
T Consensus 53 ~~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd01575 53 SRRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGAR 125 (268)
T ss_pred HcCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCC
Confidence 347877764222211 2334445677999998753211 1 12223556777888889999988899999999855
Q ss_pred C--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 N--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 ~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
. .......+.|.+.+++.|.............+.......+.++.+. .+++|+. .+...+..+++.+++.|...+
T Consensus 126 ~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p 204 (268)
T cd01575 126 MDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVP 204 (268)
T ss_pred CCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCC
Confidence 4 3455667889999999886433222222112222333445555433 4677665 445557788999999997655
Q ss_pred ceEEEEe
Q 036525 162 GCVWIMT 168 (783)
Q Consensus 162 ~~~~i~~ 168 (783)
+.+-+++
T Consensus 205 ~di~vig 211 (268)
T cd01575 205 EDIAIAG 211 (268)
T ss_pred cceEEEe
Confidence 5444443
No 140
>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=96.20 E-value=0.14 Score=53.24 Aligned_cols=155 Identities=7% Similarity=-0.049 Sum_probs=91.5
Q ss_pred CCeEEEEccCCc-hhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVMLGPEDS-MPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp~~S-~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.++.++|-..+. .........+...++|+|......+ + ..+ +..+..++...+..+++++... |.++++++.
T Consensus 56 ~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~ 130 (273)
T cd06310 56 RGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSGLN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVIS 130 (273)
T ss_pred hCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCCCC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEe
Confidence 478877753232 2224455555678999999764221 1 011 2224555556678888888766 899999997
Q ss_pred EeCCc--CCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VDNQY--GEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~~~--G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
...++ .....++|++++++. |+.+... .....+..+-...+.++.+.. +++ +++.+...+..+++.+++.|+
T Consensus 131 ~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~-i~~~~d~~a~g~~~~l~~~g~ 207 (273)
T cd06310 131 FVPGSSTTDQREEGFLEGLKEYPGIEIVAT--QYSDSDYAKALDITEDLLTANPDLKG-IFGANEGSAVGAARAVRQAGK 207 (273)
T ss_pred CCCCCccHHHHHHHHHHHHHhCCCcEEEec--ccCCcCHHHHHHHHHHHHHhCCCceE-EEecCchhHHHHHHHHHhcCC
Confidence 44333 344678899999988 8776431 111112123334555554443 444 344455667788999999998
Q ss_pred cccceEEEEeCC
Q 036525 159 MNKGCVWIMTDG 170 (783)
Q Consensus 159 ~~~~~~~i~~~~ 170 (783)
. .+...++.+.
T Consensus 208 ~-~di~vig~d~ 218 (273)
T cd06310 208 A-GKVKVVGFDA 218 (273)
T ss_pred C-CCeEEEEeCC
Confidence 5 4444555443
No 141
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.19 E-value=0.039 Score=57.34 Aligned_cols=154 Identities=8% Similarity=0.032 Sum_probs=92.0
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
.+.+|.+||--.+......+...+.+.++|+|......+ . ..+ .+..++..-+..+++++...|.++++++..
T Consensus 52 ~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~--~--~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~ 124 (269)
T cd06281 52 EQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG--G--GAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGG 124 (269)
T ss_pred HHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC--C--CCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecC
Confidence 345787777422222234455566778999999875432 1 123 245555555677888887789999999974
Q ss_pred e--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 D--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
. ...+.....+|.+++++.|+.+.....+..+. ...-...+.++.+ ..+++|+. .+...+..+++.+++.|+..
T Consensus 125 ~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~i 202 (269)
T cd06281 125 GSNTRPGRERLEGYKAAFAAAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAIIA-GGTQVLVGVLRALREAGLRI 202 (269)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCC
Confidence 3 23344556889999999987652111111111 1222334445433 34688764 45555667889999999865
Q ss_pred cceEEEE
Q 036525 161 KGCVWIM 167 (783)
Q Consensus 161 ~~~~~i~ 167 (783)
++-+-++
T Consensus 203 p~dv~ii 209 (269)
T cd06281 203 PRDLSVI 209 (269)
T ss_pred CcceeEE
Confidence 5444333
No 142
>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=96.16 E-value=0.13 Score=53.53 Aligned_cols=155 Identities=8% Similarity=-0.030 Sum_probs=93.9
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+|| -|..+.........+.+.+||+|......+ ....+.+..+..++...+..++++|... |.++++++.
T Consensus 54 ~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 130 (272)
T cd06313 54 QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQ 130 (272)
T ss_pred cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 4676654 454444444444556677999999865332 1112334446677788889999998766 889999997
Q ss_pred EeCC--cCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VDNQ--YGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.+.. ......+.|.+.+++.+ .++... .....+.......+.++.+. .+++|+. .+...+..+++.+++.|+
T Consensus 131 g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 131 GALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANWDVSKAARIWETWLTKYPQLDGAFC-HNDSMALAAYQIMKAAGR 207 (272)
T ss_pred CCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCCCHHHHHHHHHHHHHhCCCCCEEEE-CCCcHHHHHHHHHHHcCC
Confidence 5433 33456889999999875 555331 11112222333455555443 3566544 455567778889999997
Q ss_pred cccceEEEEeC
Q 036525 159 MNKGCVWIMTD 169 (783)
Q Consensus 159 ~~~~~~~i~~~ 169 (783)
.+...++-+
T Consensus 208 --~di~vvgfd 216 (272)
T cd06313 208 --TKIVIGGVD 216 (272)
T ss_pred --CceEEEeec
Confidence 444444444
No 143
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.15 E-value=0.06 Score=55.79 Aligned_cols=159 Identities=13% Similarity=0.070 Sum_probs=93.3
Q ss_pred cccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+.++.+||-..... .......+.+.++|+|......+. .+.+..+..++...+..+++++...|.++++++.
T Consensus 56 ~~~~~~dgiii~~~~~-~~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~ 129 (270)
T cd06294 56 IQQKRVDGFILLYSRE-DDPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVG 129 (270)
T ss_pred HHHcCcCEEEEecCcC-CcHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEec
Confidence 3344577665422111 223344557789999998643211 0122234556667778888888778999999997
Q ss_pred EeCCc--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQY--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+..+ .....+.|.+.+++.|+.+..........+..+....+.++.+. ++++|+. .+...+..+++.+++.|+.
T Consensus 130 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 208 (270)
T cd06294 130 GDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLK 208 (270)
T ss_pred CCcccHHHHHHHHHHHHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCC
Confidence 54332 34467889999999886432111111112222334455555443 4677666 4556777888999999986
Q ss_pred ccceE-EEEeC
Q 036525 160 NKGCV-WIMTD 169 (783)
Q Consensus 160 ~~~~~-~i~~~ 169 (783)
.++-+ +++-+
T Consensus 209 iP~dv~vig~d 219 (270)
T cd06294 209 VPEDLSIIGFN 219 (270)
T ss_pred CCcceEEEeeC
Confidence 55444 44433
No 144
>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=95.97 E-value=0.12 Score=53.38 Aligned_cols=154 Identities=12% Similarity=0.032 Sum_probs=92.2
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
..+|.+|| -+..... .. ...+...++|+|......+ ....++ +..++...+..+++++...|.++++++..
T Consensus 53 ~~~vdgiii~~~~~~~-~~-~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (264)
T cd06274 53 ARQVDALIVAGSLPPD-DP-YYLCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGG 124 (264)
T ss_pred HcCCCEEEEcCCCCch-HH-HHHHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeC
Confidence 34777766 3322222 22 3345678899999865432 122333 45566666788889888889999999975
Q ss_pred eCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 85 DNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 85 d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+.. ......++|++.+++.|+.+.....+....+...-...+.++.+. .+++|++. +...+..+++.+++.|+.
T Consensus 125 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ 203 (264)
T cd06274 125 LPELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGL 203 (264)
T ss_pred CCcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCC
Confidence 432 345668899999999886532222211111222223344454333 36777655 555677789999999986
Q ss_pred ccceEEEEe
Q 036525 160 NKGCVWIMT 168 (783)
Q Consensus 160 ~~~~~~i~~ 168 (783)
.++-+.|++
T Consensus 204 ip~dv~v~g 212 (264)
T cd06274 204 APSDLRIAT 212 (264)
T ss_pred CCcceEEEE
Confidence 555454443
No 145
>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=95.94 E-value=0.051 Score=56.32 Aligned_cols=155 Identities=12% Similarity=0.004 Sum_probs=93.3
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..++.+||-........ .......++|++......+. .. +..+.+++...+..+++++...|.++++++..+
T Consensus 54 ~~~~dgiii~~~~~~~~--~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~ 125 (269)
T cd06288 54 DHRVDGIIYATMYHREV--TLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGE 125 (269)
T ss_pred HcCCCEEEEecCCCChh--HHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCC
Confidence 34677776543321111 12234578999987643221 11 234667788888999999888899999999854
Q ss_pred CC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 NQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 ~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
.. ..+...++|.+.+++.|+++.....+....+..+....+.++.+. ++++|+. .+...+..+++.+++.|+..+
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp 204 (269)
T cd06288 126 PWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIP 204 (269)
T ss_pred ccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCc
Confidence 32 345668889999999886542111111111222333445555444 4677755 455567778899999998655
Q ss_pred ceEEEEeC
Q 036525 162 GCVWIMTD 169 (783)
Q Consensus 162 ~~~~i~~~ 169 (783)
+-+.+++-
T Consensus 205 ~di~v~g~ 212 (269)
T cd06288 205 QDVSVVGF 212 (269)
T ss_pred ccceEEee
Confidence 55555543
No 146
>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=95.91 E-value=0.069 Score=55.15 Aligned_cols=144 Identities=12% Similarity=0.079 Sum_probs=89.7
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|++||--.+.... .....+.+.++|+|......+. ..+..+..++...+..+++++...|.++++++..+
T Consensus 52 ~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 124 (266)
T cd06278 52 QYRVDGVIVTSGTLSS-ELAEECRRNGIPVVLINRYVDG------PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGP 124 (266)
T ss_pred HcCCCEEEEecCCCCH-HHHHHHhhcCCCEEEECCccCC------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 3578777743232222 3355667789999998643221 22344777888889999999988899999999854
Q ss_pred C--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHc-Ccc
Q 036525 86 N--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEI-GLM 159 (783)
Q Consensus 86 ~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~-g~~ 159 (783)
. ...+...++|.+.+++.|..+.... . ...+..+....+.++.+. .+++|+... ...+..+++.+++. +..
T Consensus 125 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~l~~~~~~~ 200 (266)
T cd06278 125 ADTSTSRERERGFRDALAAAGVPVVVEE-A-GDYSYEGGYEAARRLLASRPRPDAIFCAN-DLLAIGVMDAARQEGGLR 200 (266)
T ss_pred CcccchHHHHHHHHHHHHHcCCChhhhc-c-CCCCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhcCCC
Confidence 3 3455677899999999988753211 1 111222333445555443 467666653 44456677777765 443
No 147
>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=95.88 E-value=0.16 Score=52.69 Aligned_cols=151 Identities=11% Similarity=0.045 Sum_probs=91.6
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.+||--.+... ......+.+.++|+|......+. ...++ +..++...+..+++++...|.+++++|..+
T Consensus 53 ~~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06270 53 ERRCDALILHSKALS-DDELIELAAQVPPLVLINRHIPG---LADRC---IWLDNEQGGYLATEHLIELGHRKIACITGP 125 (268)
T ss_pred HcCCCEEEEecCCCC-HHHHHHHhhCCCCEEEEeccCCC---CCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 347777764222211 12234456789999998643321 11232 557777888899999988899999999754
Q ss_pred CC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 NQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 ~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
.. ......+.|.+.+++.|+++.....+....+..+....+.++.+.+ +++|+.. ....+..+++.+++.|+..+
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~ip 204 (268)
T cd06270 126 LTKEDARLRLQGYRDALAEAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFCA-NDEMAAGAISALREHGISVP 204 (268)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCC
Confidence 32 2345577889999998876522211111222234445555655443 5666544 44566778899999998655
Q ss_pred ceE
Q 036525 162 GCV 164 (783)
Q Consensus 162 ~~~ 164 (783)
+-+
T Consensus 205 ~di 207 (268)
T cd06270 205 QDV 207 (268)
T ss_pred Cce
Confidence 433
No 148
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=95.85 E-value=0.12 Score=55.85 Aligned_cols=148 Identities=8% Similarity=-0.006 Sum_probs=90.9
Q ss_pred cCCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.++.+||= |.. .........+.+.++|+|...... .....++ +..++...+..++++|...|.++++++..
T Consensus 118 ~~~vdgiIi~~~~-~~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g 190 (342)
T PRK10014 118 NQGVDGVVIAGAA-GSSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGG 190 (342)
T ss_pred hCCCCEEEEeCCC-CCcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcC
Confidence 446777762 222 223445556677899999875321 1112232 56677778888899998889999999974
Q ss_pred eCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 DNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+.. ......++|.+++++.|+.+.....+........-...+.++.+. .+++|+. .+...+..+++.+.+.|+..
T Consensus 191 ~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 191 QSSSLTRAERVGGYCATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVVC-YNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCC
Confidence 333 234467889999999997653322221111222223344555433 4577664 45566777888889999865
Q ss_pred c
Q 036525 161 K 161 (783)
Q Consensus 161 ~ 161 (783)
+
T Consensus 270 p 270 (342)
T PRK10014 270 G 270 (342)
T ss_pred C
Confidence 4
No 149
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.85 E-value=0.17 Score=52.43 Aligned_cols=157 Identities=11% Similarity=0.011 Sum_probs=94.2
Q ss_pred cccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+.++.+||--.+......+..+. ..++|+|......+. ... ..+..++...+..++++|...|.++++++.
T Consensus 51 ~~~~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~---~~~---~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~ 123 (269)
T cd06293 51 LDTNHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPG---AKV---PKVFCDNEQGGRLATRHLARAGHRRIAFVG 123 (269)
T ss_pred HHHCCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCC---CCC---CEEEECCHHHHHHHHHHHHHCCCceEEEEe
Confidence 3445788887532221222233332 357999998653321 112 236678888889999999888999999997
Q ss_pred EeCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+.. ......++|.+++++.|..+.....+....+..+-...+.++.+ ..+++|+.. +...+..+++.+++.|..
T Consensus 124 ~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~ 202 (269)
T cd06293 124 GPDALISARERYAGYREALAEAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLS 202 (269)
T ss_pred cCcccccHHHHHHHHHHHHHHcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCC
Confidence 4433 33456789999999988754321111111122233345555543 346876665 455666788999999986
Q ss_pred ccceEEEEe
Q 036525 160 NKGCVWIMT 168 (783)
Q Consensus 160 ~~~~~~i~~ 168 (783)
.++-+-|++
T Consensus 203 vp~di~i~g 211 (269)
T cd06293 203 IPGDMSLVG 211 (269)
T ss_pred CccceEEEe
Confidence 665554443
No 150
>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=95.84 E-value=0.11 Score=53.52 Aligned_cols=154 Identities=11% Similarity=0.078 Sum_probs=92.1
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
.+|.+||=......... ...+...++|+|......+ .. .+..+..++...+..+++++...|.++++++....
T Consensus 54 ~~~dgiii~~~~~~~~~-l~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~ 126 (267)
T cd06283 54 YQVDGLIVNPTGNNKEL-YQRLAKNGKPVVLVDRKIP---EL---GVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPL 126 (267)
T ss_pred cCcCEEEEeCCCCChHH-HHHHhcCCCCEEEEcCCCC---CC---CCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCc
Confidence 46776653212222222 3445678999999865322 11 12334566677788899999888999999997543
Q ss_pred C-c--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 87 Q-Y--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 87 ~-~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
. . .+.....|.+.+++.|+............+..+....+.++.+. .+++|++. +...+..+++.+++.|+..+
T Consensus 127 ~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp 205 (267)
T cd06283 127 DEISPRMERYEGFKEALAEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIP 205 (267)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 2 1 23567889999998885432221111112223445566666544 35766665 34556678889999998655
Q ss_pred ceEEEEe
Q 036525 162 GCVWIMT 168 (783)
Q Consensus 162 ~~~~i~~ 168 (783)
+-+.|++
T Consensus 206 ~di~v~g 212 (267)
T cd06283 206 EDVGLIG 212 (267)
T ss_pred cceEEEE
Confidence 4444443
No 151
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=95.79 E-value=0.096 Score=56.62 Aligned_cols=156 Identities=10% Similarity=0.047 Sum_probs=91.7
Q ss_pred cCCeEEEEccCCchhHHHHHcccCC-CCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNK-SQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~-~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.++.+||=-... ........+.. .++|+|......+. ..... .+..++...+..++++|...|.+++++|..
T Consensus 113 ~~~vdgiii~~~~-~~~~~~~~l~~~~~iPvV~~d~~~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~ 186 (341)
T PRK10703 113 QKRVDGLLVMCSE-YPEPLLAMLEEYRHIPMVVMDWGEAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPG 186 (341)
T ss_pred HcCCCEEEEecCC-CCHHHHHHHHhcCCCCEEEEecccCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeC
Confidence 4467776531111 12223334444 79999987643221 11112 244454556788888887789999999964
Q ss_pred --eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 --DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 --d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
++..++...++|.+++++.|+++........+....+....+.++.+. .+++|+. ++...+..+++.+++.|...
T Consensus 187 ~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~i 265 (341)
T PRK10703 187 PLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRV 265 (341)
T ss_pred CccccchHHHHHHHHHHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCC
Confidence 334556667899999999998764321111111222334455555433 4677665 45556678889999999865
Q ss_pred cceEEEEe
Q 036525 161 KGCVWIMT 168 (783)
Q Consensus 161 ~~~~~i~~ 168 (783)
++-+.|++
T Consensus 266 p~dv~vvg 273 (341)
T PRK10703 266 PQDISVIG 273 (341)
T ss_pred CCceEEEE
Confidence 55444443
No 152
>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=95.74 E-value=0.12 Score=53.44 Aligned_cols=155 Identities=10% Similarity=0.101 Sum_probs=90.2
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.+||=-....... ....+.+.++|+|......+ ....+++ ..++..-+..+++++...|.++++++...
T Consensus 53 ~~~vdgiIi~~~~~~~~-~~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~ 125 (265)
T cd06299 53 SQRVDGIIVVPHEQSAE-QLEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGP 125 (265)
T ss_pred hcCCCEEEEcCCCCChH-HHHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCC
Confidence 45777776322222222 34555678999998875322 1223443 33444555666777777899999999643
Q ss_pred C--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccce
Q 036525 86 N--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 86 ~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~ 163 (783)
. ........+|.+++++.|+++.............+-...+.++.+.++++|+. ++...+..+++.+++.|+..++-
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~d 204 (265)
T cd06299 126 QDTSTGRERLEAFRQACASLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGED 204 (265)
T ss_pred CCcccHHHHHHHHHHHHHHCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcc
Confidence 3 33445568899999998854322111111111123334555555455887655 45556778889999999865544
Q ss_pred EEEEe
Q 036525 164 VWIMT 168 (783)
Q Consensus 164 ~~i~~ 168 (783)
+.|.+
T Consensus 205 v~v~g 209 (265)
T cd06299 205 ISLIG 209 (265)
T ss_pred eeEEE
Confidence 44443
No 153
>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=95.67 E-value=0.27 Score=50.80 Aligned_cols=144 Identities=11% Similarity=0.065 Sum_probs=87.5
Q ss_pred cCCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEE
Q 036525 6 NAQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPI 82 (783)
Q Consensus 6 ~~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii 82 (783)
+.++.++|- |..+.........+.+.++|+|......+ ..+.+..+..++...+..+++++... |.++++++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 127 (267)
T cd06322 53 TKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAII 127 (267)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEE
Confidence 347887764 44433333444556778999999863211 11223446677767778888888665 88899999
Q ss_pred EEeC-CcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 83 YVDN-QYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 83 ~~d~-~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+..+ .......+.|++++++. |+++... ......+.-...+.++.+. ++++|+. .+...+..+++.+++.|+
T Consensus 128 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 128 DYPTVQSVVDRVRGFKEALADYPNIKIVAV---QPGITRAEALTAAQNILQANPDLDGIFA-FGDDAALGAVSAIKAAGR 203 (267)
T ss_pred ecCCCccHHHHHHHHHHHHHhCCCcEEEEe---cCCCChHHHHHHHHHHHHhCCCCCEEEE-cCCcHHHHHHHHHHHCCC
Confidence 7432 23345678899999998 8876422 1111212223334444332 4676554 444566678889999997
No 154
>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=95.64 E-value=0.28 Score=51.33 Aligned_cols=161 Identities=10% Similarity=0.061 Sum_probs=90.2
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeecc-CCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH--cCCeEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSA-TSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA--FGWREAVPI 82 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a-~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~gw~~vaii 82 (783)
+.+|.+||=...+.........+.+.++|.+.... ..+.......+....+..++..-+..++++|.. .|.+++++|
T Consensus 58 ~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l 137 (280)
T cd06303 58 QSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAML 137 (280)
T ss_pred HcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 34777776322222222232333445667666522 222100000122344566777777888898877 799999999
Q ss_pred EEe-CCcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 83 YVD-NQYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 83 ~~d-~~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
... ...+....++|++++++. |+++... +..+.+..+-...+.++.+. ++++|+ +.+...+..+++.+++.|+
T Consensus 138 ~~~~~~~~~~R~~gf~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~ 214 (280)
T cd06303 138 YFSPGYISTARGDTFIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGR 214 (280)
T ss_pred ECCCCcchhHHHHHHHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCC
Confidence 643 233455678899999988 7664322 22222222333455555444 356655 4555667789999999998
Q ss_pred cccceEEEEeCC
Q 036525 159 MNKGCVWIMTDG 170 (783)
Q Consensus 159 ~~~~~~~i~~~~ 170 (783)
. ++...++-+.
T Consensus 215 ~-~dv~vvg~d~ 225 (280)
T cd06303 215 E-DDILINGWGG 225 (280)
T ss_pred C-CCcEEEecCC
Confidence 5 4444454443
No 155
>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=95.60 E-value=0.29 Score=50.86 Aligned_cols=156 Identities=11% Similarity=0.042 Sum_probs=90.2
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+|| .|............+.+.+||+|......+ .. ......+..++...+..+++++... |.++++++.
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~~~---~~-~~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~ 134 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRGLS---SP-GAQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLR 134 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCCCC---CC-cccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 4676665 444433333333445678999999864321 11 0112235666777788888888665 889999997
Q ss_pred EeC-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 84 VDN-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~d~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
... ...+...+.|.+.+++.++++... ...+.+...-...+.++.+. ++++|+.. +...+..++..+++.|+.
T Consensus 135 g~~~~~~~~R~~gf~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~- 210 (274)
T cd06311 135 GIPTPIDNERVDAFDAAIAKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRT- 210 (274)
T ss_pred CCCCcchhHHHHHHHHHHhhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCC-
Confidence 433 233445788999999988766532 21111222223444444333 35665554 344567788888999974
Q ss_pred cceEEEEeCC
Q 036525 161 KGCVWIMTDG 170 (783)
Q Consensus 161 ~~~~~i~~~~ 170 (783)
.+...++.++
T Consensus 211 ~~~~ivg~d~ 220 (274)
T cd06311 211 DIKFVVGGAG 220 (274)
T ss_pred CCceEEEeCC
Confidence 2333444444
No 156
>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=95.59 E-value=0.27 Score=51.17 Aligned_cols=193 Identities=13% Similarity=0.044 Sum_probs=108.3
Q ss_pred CeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-C--CeEEEEEE
Q 036525 8 QVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-G--WREAVPIY 83 (783)
Q Consensus 8 ~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-g--w~~vaii~ 83 (783)
+|.+|| .+..+.........+.+.++|+|......+. .. -+..+..++...+..++++|... | -++++++.
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~--~~---~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~ 132 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSDLPG--SP---RAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLA 132 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCCCCC--Cc---eeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEe
Confidence 677664 4444333233445556689999987643211 11 12234556666677777777654 5 46999987
Q ss_pred EeCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+.. ......++|++++++.+..+.....+..+.+..+-...+.++.+ .++++|+..... +..+++.+++.|+.
T Consensus 133 ~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~ 210 (275)
T cd06307 133 GSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA 210 (275)
T ss_pred cCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC
Confidence 5432 33556788999999887655333222212222233345555433 357788777654 36899999999974
Q ss_pred ccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
.+...++-|...... .....|.+..+. -......+|-|+.++.+.++.
T Consensus 211 -~di~Ivg~d~~~~~~-------~~i~~~~l~~tv----------~~~~~~~g~~a~~~l~~~~~~ 258 (275)
T cd06307 211 -GKVVFVGHELTPETR-------AALRDGTIDAVI----------DQDPGHLARSAVRVLLAACDG 258 (275)
T ss_pred -CCcEEEEecCChHHH-------HHHHcCeeEEEE----------EcCHHHHHHHHHHHHHHHHhc
Confidence 344445544322110 011244442111 012355788888888887764
No 157
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=95.56 E-value=0.13 Score=53.21 Aligned_cols=133 Identities=11% Similarity=-0.003 Sum_probs=81.7
Q ss_pred CCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe--CCcCCcchHHHHHHHhhCCce
Q 036525 29 NKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEAMIPSLTDALHAIDTR 106 (783)
Q Consensus 29 ~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~ 106 (783)
...++|+|......+ ....++ +..++...+..+++++...|.++++++... +.......++|.+.+++.|++
T Consensus 76 ~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~ 149 (269)
T cd06275 76 RYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLP 149 (269)
T ss_pred hcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCC
Confidence 456999998764322 112232 456666777888899888899999999743 333455678899999998877
Q ss_pred EeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccccceEEEEe
Q 036525 107 VPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIMT 168 (783)
Q Consensus 107 v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 168 (783)
+..........+.......+.++.+. .+++|++ .+...+..+++.+++.|...++-+-+++
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~vvg 212 (269)
T cd06275 150 VNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLSIIG 212 (269)
T ss_pred CCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 53211111111222333455565544 4566555 4455666788889999986554444443
No 158
>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=95.52 E-value=0.14 Score=53.03 Aligned_cols=153 Identities=14% Similarity=0.100 Sum_probs=93.4
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
..++.+|| .+... ... ....+...++|++......+ ..++ +..++..-+..++++|...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~-~~~-~~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~ 122 (265)
T cd06285 53 DRRVDGLILGDARS-DDH-FLDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAG 122 (265)
T ss_pred HcCCCEEEEecCCC-ChH-HHHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeC
Confidence 44677665 44332 222 23445668999998864321 1233 45567777888889998889999999985
Q ss_pred eC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 DN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+. ..+....++|.+.+++.|+++.....+....+...-...+.++.+. .+++|+.. +...+..+++.+++.|+..
T Consensus 123 ~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~~ 201 (265)
T cd06285 123 PDYASTARDRLAGFRAALAEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTAIFAV-NDFAAIGVMGAARDRGLRV 201 (265)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 43 3456668899999999987653221111111222223445555433 45765554 5556778999999999864
Q ss_pred cce-EEEEeC
Q 036525 161 KGC-VWIMTD 169 (783)
Q Consensus 161 ~~~-~~i~~~ 169 (783)
++- ..++-+
T Consensus 202 p~di~iig~d 211 (265)
T cd06285 202 PDDVALVGYN 211 (265)
T ss_pred CcceEEEeec
Confidence 443 344444
No 159
>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=95.52 E-value=0.1 Score=54.61 Aligned_cols=159 Identities=10% Similarity=-0.005 Sum_probs=103.4
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeE-EEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWRE-AVP 81 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~-vai 81 (783)
++.+.+|+++|=.........+..+.+. ++|+|......... ...+++ ..++..-+..++++|...|.++ +++
T Consensus 51 ~l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~~~~--~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~ 124 (279)
T PF00532_consen 51 LLLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYIDNP--EGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAF 124 (279)
T ss_dssp HHHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-SCTT--CTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEE
T ss_pred HHHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEeccCCc--ccCCEE---EEcchHHHHHHHHHHHhcccCCeEEE
Confidence 3445678777633222223555556666 99999976542111 123443 3456667778899999999999 999
Q ss_pred EEEeCCc--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCce--EEEEEcChhhHHHHHHHHHHcC
Q 036525 82 IYVDNQY--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTR--VFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 82 i~~d~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~d--vii~~~~~~~~~~~~~~a~~~g 157 (783)
+..+.+. .+...+++++++++.|+++.......-+.+..+-...+.++.+.+|+ +|+ +++...+.-.++.+++.|
T Consensus 125 i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~-~~nd~~A~ga~~~l~~~g 203 (279)
T PF00532_consen 125 IGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIF-CANDMMAIGAIRALRERG 203 (279)
T ss_dssp EEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEE-ESSHHHHHHHHHHHHHTT
T ss_pred EecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEE-EeCHHHHHHHHHHHHHcC
Confidence 9976544 46667889999999999765555443333333444566777777776 554 456667888899999999
Q ss_pred -ccccceEEEEe
Q 036525 158 -LMNKGCVWIMT 168 (783)
Q Consensus 158 -~~~~~~~~i~~ 168 (783)
+..++-+-+..
T Consensus 204 r~~ip~di~~~~ 215 (279)
T PF00532_consen 204 RLKIPEDIVSGF 215 (279)
T ss_dssp -TCTTTEEEECS
T ss_pred CcccChhheeee
Confidence 76665543333
No 160
>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=95.51 E-value=0.27 Score=52.21 Aligned_cols=164 Identities=9% Similarity=0.047 Sum_probs=89.6
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCe-----
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWR----- 77 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~----- 77 (783)
+.+|.+|| .|..+.....+...+...++|+|......+...-....-+..+..++...+..++++|... |-+
T Consensus 55 ~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~ 134 (303)
T cd01539 55 AKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDK 134 (303)
T ss_pred HcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhcccccccc
Confidence 34777654 5545444445555667789999998653221110112223456677777777777877543 221
Q ss_pred ----E--EEEEEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhH
Q 036525 78 ----E--AVPIYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLG 146 (783)
Q Consensus 78 ----~--vaii~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~ 146 (783)
+ ++++..+. .......+.|++++++.|..+..........+.+.-...+.++.+. ++++|+. .....+
T Consensus 135 ~~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a 213 (303)
T cd01539 135 NGDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMA 213 (303)
T ss_pred CCCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEE-CCchHH
Confidence 2 34444332 2234457789999998887653322222222222223345554432 3566555 344455
Q ss_pred HHHHHHHHHcCcccc----ceEEEEeCC
Q 036525 147 SRIFEKANEIGLMNK----GCVWIMTDG 170 (783)
Q Consensus 147 ~~~~~~a~~~g~~~~----~~~~i~~~~ 170 (783)
..+++.+++.|+..+ +...++.+.
T Consensus 214 ~g~~~al~~~g~~~p~~~~di~iig~d~ 241 (303)
T cd01539 214 LGAIEALQKYGYNKGDKSKNIPVVGVDA 241 (303)
T ss_pred HHHHHHHHHcCCCcCCCCCceEEEccCC
Confidence 678888888997654 444555443
No 161
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=95.50 E-value=0.16 Score=54.67 Aligned_cols=150 Identities=10% Similarity=0.068 Sum_probs=102.3
Q ss_pred cccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+.+|.+||=-. ..............++|+|......+ + +-+-.+..++..-+..++++|...|.+++++|.
T Consensus 110 l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~ 182 (333)
T COG1609 110 LLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIG 182 (333)
T ss_pred HHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEe
Confidence 4455787776322 33444555566777999999875443 1 223345677888899999999999999999999
Q ss_pred Ee--CCcCCcchHHHHHHHhhCCceE--eEEEecCCCCChhHHHHHHHHHhccC---ceEEEEEcChhhHHHHHHHHHHc
Q 036525 84 VD--NQYGEAMIPSLTDALHAIDTRV--PYRSVISPLATDDQIEKELYKLFTMQ---TRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 84 ~d--~~~G~~~~~~~~~~l~~~g~~v--~~~~~i~~~~~~~d~~~~l~~l~~~~---~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
.. ...++...+++.+++++.|+.+ .....-.+ +..+-...+.++.... |++|++ ++...+..+++.+++.
T Consensus 183 ~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~--~~~~g~~~~~~ll~~~~~~ptAif~-~nD~~Alg~l~~~~~~ 259 (333)
T COG1609 183 GPLDSSASRERLEGYRAALREAGLPINPEWIVEGDF--SEESGYEAAERLLARGEPRPTAIFC-ANDLMALGALRALREL 259 (333)
T ss_pred CCCccccHhHHHHHHHHHHHHCCCCCCcceEEecCC--ChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHc
Confidence 65 5566888999999999999885 22222121 2334445555555432 777655 4556788899999999
Q ss_pred Cccccce
Q 036525 157 GLMNKGC 163 (783)
Q Consensus 157 g~~~~~~ 163 (783)
|+..++-
T Consensus 260 g~~vP~d 266 (333)
T COG1609 260 GLRVPED 266 (333)
T ss_pred CCCCCCe
Confidence 9876653
No 162
>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=95.49 E-value=0.19 Score=51.80 Aligned_cols=151 Identities=11% Similarity=0.087 Sum_probs=91.5
Q ss_pred cCCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.+|.++|- +.... ...+.. ....++|+|......+ . .+-.+..++...+..+++++...|.++|+++..
T Consensus 54 ~~~vdgiii~~~~~~-~~~~~~-~~~~~ipvv~~~~~~~----~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (264)
T cd01574 54 AQRVDGVIVNAPLDD-ADAALA-AAPADVPVVFVDGSPS----P---RVSTVSVDQEGGARLATEHLLELGHRTIAHVAG 124 (264)
T ss_pred hcCCCEEEEeCCCCC-hHHHHH-HHhcCCCEEEEeccCC----C---CCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEec
Confidence 447888863 32222 223333 3567899999875321 1 123356677778888999998889999999975
Q ss_pred eCCc--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-CceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 85 DNQY--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM-QTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 85 d~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~-~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
+... .....++|.+++++.|+++.... ..+.+.+.-...+.++.+. .+++|+.. +...+..+++.+++.|...+
T Consensus 125 ~~~~~~~~~r~~gf~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~ai~~~-~d~~a~g~~~~~~~~g~~ip 201 (264)
T cd01574 125 PEEWLSARARLAGWRAALEAAGIAPPPVL--EGDWSAESGYRAGRELLREGDPTAVFAA-NDQMALGVLRALHELGLRVP 201 (264)
T ss_pred CCccchHHHHHHHHHHHHHHCCCCcceee--ecCCCHHHHHHHHHHHHhCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 4332 24566789999998887764322 1111222333444455433 36776554 55567778899999997544
Q ss_pred ceEEEEe
Q 036525 162 GCVWIMT 168 (783)
Q Consensus 162 ~~~~i~~ 168 (783)
+-+-|++
T Consensus 202 ~~i~ii~ 208 (264)
T cd01574 202 DDVSVVG 208 (264)
T ss_pred cceEEec
Confidence 4333333
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=95.48 E-value=0.22 Score=52.86 Aligned_cols=195 Identities=12% Similarity=-0.007 Sum_probs=110.3
Q ss_pred CeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCC-----C--C-CCCeEEEeecCchhhHHHHHHHHHHcCCeE
Q 036525 8 QVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLT-----S--I-RSPYFFRGALNDSSQVGAITAIIKAFGWRE 78 (783)
Q Consensus 8 ~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls-----~--~-~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~ 78 (783)
+|.+|| .+... ........+.+.++|+|......+... . . ...++-.+.+++...+..++++|...|.++
T Consensus 58 ~vdgiIi~~~~~-~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~ 136 (305)
T cd06324 58 KPDALIFTNEKS-VAPELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSV 136 (305)
T ss_pred CCCEEEEcCCcc-chHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcc
Confidence 677765 33322 233344566789999999875432211 0 0 112345567788888899999987777663
Q ss_pred --------EEEEEEe--CCcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhh
Q 036525 79 --------AVPIYVD--NQYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSL 145 (783)
Q Consensus 79 --------vaii~~d--~~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~ 145 (783)
++++... +.......++|++++++.| ..+.. .+.......+-...+.++.+. ++|+|+ +.+...
T Consensus 137 ~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~ 213 (305)
T cd06324 137 QAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPDVRLRQ--VVYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQM 213 (305)
T ss_pred cCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCCceEee--eecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchH
Confidence 6666532 2334566788999999987 33322 222122222333455555433 467665 445666
Q ss_pred HHHHHHHHHHcCccccceE-EEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 146 GSRIFEKANEIGLMNKGCV-WIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 146 ~~~~~~~a~~~g~~~~~~~-~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
+..+++.+++.|+..++-+ .++-+..... ......|.+..... + ....++-|+.++.+.++
T Consensus 214 A~g~~~al~~~g~~vp~di~vig~D~~~~~-------~~~~~~~~lttv~~---------~--~~~~g~~a~~~l~~~i~ 275 (305)
T cd06324 214 AFGALRAAKEAGRKPGRDVLFGGVNWSPEA-------LRAIKDGRLSVSAG---------G--HFTEGGWALVLLYDYAH 275 (305)
T ss_pred HHHHHHHHHHcCCCcCCCEEEEecCCCHHH-------HHHHHcCceEEEec---------C--CcccHHHHHHHHHHHHc
Confidence 7789999999998655433 4443432211 11223344443321 1 12357778888777775
No 164
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=95.40 E-value=0.24 Score=53.06 Aligned_cols=153 Identities=10% Similarity=-0.002 Sum_probs=92.3
Q ss_pred cCCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.+|.+||= +....... ....+.+.++|+|......+ ....++ +..++...+..++++|...|.++++++..
T Consensus 115 ~~~vdgiIi~~~~~~~~~-~~~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~ 187 (328)
T PRK11303 115 QRQVDALIVSTSLPPEHP-FYQRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGA 187 (328)
T ss_pred HcCCCEEEEcCCCCCChH-HHHHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 447777763 32221222 23334567999998754321 122232 45667777888888888889999999974
Q ss_pred eC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 DN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
.. ..++...++|.+++++.|+.+.... ..+.+..+-...+.++.+. .+++|++.. ...+..+++.+++.|+..
T Consensus 188 ~~~~~~~~~R~~Gf~~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-d~~A~g~~~al~~~g~~v 264 (328)
T PRK11303 188 LPELSVSFEREQGFRQALKDDPREVHYLY--ANSFEREAGAQLFEKWLETHPMPDALFTTS-YTLLQGVLDVLLERPGEL 264 (328)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCceEEE--eCCCChHHHHHHHHHHHcCCCCCCEEEEcC-cHHHHHHHHHHHHcCCCC
Confidence 33 3445667899999999998653221 1111222223345555433 468776654 445667888889999866
Q ss_pred cceEEEEe
Q 036525 161 KGCVWIMT 168 (783)
Q Consensus 161 ~~~~~i~~ 168 (783)
++-+-|++
T Consensus 265 P~disv~g 272 (328)
T PRK11303 265 PSDLAIAT 272 (328)
T ss_pred CCceEEEE
Confidence 65444443
No 165
>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=95.40 E-value=0.5 Score=49.46 Aligned_cols=164 Identities=9% Similarity=0.015 Sum_probs=92.7
Q ss_pred CCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHH----HcCC--eEE
Q 036525 7 AQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIK----AFGW--REA 79 (783)
Q Consensus 7 ~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~----~~gw--~~v 79 (783)
.+|.+||= +..+.........+.+.+||+|......+....+..+.+..+..++...+..+++++. ..|+ +++
T Consensus 53 ~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i 132 (289)
T cd01540 53 QGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEV 132 (289)
T ss_pred cCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcce
Confidence 46766652 3233344556666788999999975432211100112233355666666666667664 3566 688
Q ss_pred EEEE-E--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCC-hhHHHHHHHHHhccC--ceE-EEEEcChhhHHHHHHH
Q 036525 80 VPIY-V--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLAT-DDQIEKELYKLFTMQ--TRV-FIVHKLPSLGSRIFEK 152 (783)
Q Consensus 80 aii~-~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~-~~d~~~~l~~l~~~~--~dv-ii~~~~~~~~~~~~~~ 152 (783)
++|. . +....+...+++++++++.|+............. .+.-...+.++.+.. ++. .+++++...+..+++.
T Consensus 133 ~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~a 212 (289)
T cd01540 133 GALRITYDELDTAKPRTDGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRA 212 (289)
T ss_pred EEEEecCCCCcchhhHHHHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHH
Confidence 8875 2 2345677789999999988875422211111111 112223445554443 453 4666666678888899
Q ss_pred HHHcCccccceEEEEeCC
Q 036525 153 ANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 153 a~~~g~~~~~~~~i~~~~ 170 (783)
+++.|+...+...++-+.
T Consensus 213 l~~~g~~~~di~vig~d~ 230 (289)
T cd01540 213 TEQSGIAAADVIGVGING 230 (289)
T ss_pred HHHcCCCCcceEEEecCC
Confidence 999998743444444443
No 166
>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=95.37 E-value=0.21 Score=51.88 Aligned_cols=157 Identities=12% Similarity=0.088 Sum_probs=93.0
Q ss_pred cCCeEEEE--ccCCch--hHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEE
Q 036525 6 NAQVRVML--GPEDSM--PTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 6 ~~~V~aiI--Gp~~S~--~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vai 81 (783)
+.+|.++| ++.... ........+.+.++|+|......+. ....+ .+..++...+..++++|...|.+++++
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~ 127 (273)
T cd06292 53 ARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGF 127 (273)
T ss_pred HcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEE
Confidence 34677665 332221 1122233456789999998754322 01123 356678888888999998889999999
Q ss_pred EEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 82 IYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 82 i~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+.... ...+...++|.+++++.|+.......+....+...-...+.++.+.++++|++. +...+..+++.+++.|+.
T Consensus 128 i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~d~~a~g~~~~l~~~g~~ 206 (273)
T cd06292 128 ASGPGRTVPRRRKIAGFRAALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIVAA-SDLMALGAIRAARRRGLR 206 (273)
T ss_pred EeCCcccccHHHHHHHHHHHHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEEEc-CcHHHHHHHHHHHHcCCC
Confidence 87432 334566789999999988643211111111122222334445544458876654 455667788999999986
Q ss_pred ccceEEEEe
Q 036525 160 NKGCVWIMT 168 (783)
Q Consensus 160 ~~~~~~i~~ 168 (783)
.++-+-|.+
T Consensus 207 ip~di~ii~ 215 (273)
T cd06292 207 VPEDVSVVG 215 (273)
T ss_pred CCcceEEEe
Confidence 555444443
No 167
>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=95.36 E-value=0.42 Score=49.52 Aligned_cols=156 Identities=12% Similarity=0.172 Sum_probs=94.3
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.+|.+|| .|............+.+.++|+|......+ + ..+...+..++...+..+++++... |-++++++.
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 129 (270)
T cd06308 55 QGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRKIL---S--DKYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIW 129 (270)
T ss_pred hCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCCCC---C--ccceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 3666554 343333223333445678999999864221 1 1233446677878888888888765 899999997
Q ss_pred EeCCc--CCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VDNQY--GEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~~~--G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.+... .....+.+.+++++. |+++.... ..+....+-...+.++.+ .++++|+. .+...+..+++.+++.|+
T Consensus 130 ~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~ 206 (270)
T cd06308 130 GLEGSSPAIERHDGFKEALSKYPKIKIVAQQ--DGDWLKEKAEEKMEELLQANPDIDLVYA-HNDPMALGAYLAAKRAGR 206 (270)
T ss_pred CCCCCchHHHHHHHHHHHHHHCCCCEEEEec--CCCccHHHHHHHHHHHHHhCCCCcEEEe-CCcHHHHHHHHHHHHcCC
Confidence 43332 344578899999998 87764321 111121222234444433 34676544 455667788999999998
Q ss_pred cccceEEEEeCCc
Q 036525 159 MNKGCVWIMTDGM 171 (783)
Q Consensus 159 ~~~~~~~i~~~~~ 171 (783)
. .+...++-|..
T Consensus 207 ~-~dv~vvg~d~~ 218 (270)
T cd06308 207 E-KEIKFIGIDGL 218 (270)
T ss_pred C-CCcEEEEecCC
Confidence 6 55555665543
No 168
>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=95.35 E-value=0.15 Score=52.72 Aligned_cols=156 Identities=12% Similarity=0.040 Sum_probs=93.7
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.++.+|| .+.... . .....+...++|+|........ ....+ .+..++...+..+++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~~-~-~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~ 125 (270)
T cd06296 53 ARRTDGVILVTPELT-S-AQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITG 125 (270)
T ss_pred HcCCCEEEEecCCCC-h-HHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcC
Confidence 34787775 333322 2 3355567789999998753211 11123 356677778888899888889999999974
Q ss_pred e--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 D--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+ +.......++|.+++++.|+.+..........+.+.....+.++.+. .+++|+.. +...+..+++.+++.|+..
T Consensus 126 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~~l~~~g~~~ 204 (270)
T cd06296 126 PPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFAG-NDLMALGVYEAARERGLRI 204 (270)
T ss_pred CCcchhHHHHHHHHHHHHHHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHhCCCC
Confidence 3 23445667899999998886543211111111222333444454433 45665544 5556777889999999865
Q ss_pred cceE-EEEeC
Q 036525 161 KGCV-WIMTD 169 (783)
Q Consensus 161 ~~~~-~i~~~ 169 (783)
++-+ +++-+
T Consensus 205 p~~i~v~~~d 214 (270)
T cd06296 205 PEDLSVVGFD 214 (270)
T ss_pred CCceEEEEEC
Confidence 4433 44444
No 169
>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=95.35 E-value=0.17 Score=52.21 Aligned_cols=153 Identities=8% Similarity=0.050 Sum_probs=90.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..+|.+||=....... .....+...++|+|......+ ...++ +..++...+..+++++...|.++++++...
T Consensus 49 ~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 120 (261)
T cd06272 49 ENRFDGVIIFGESASD-VEYLYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDL 120 (261)
T ss_pred HcCcCEEEEeCCCCCh-HHHHHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecc
Confidence 3467766522122112 223344578899998764322 11232 556777778889999988899999999754
Q ss_pred CC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 NQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 ~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
.. .......+|.+++++.|+.+..........+.......+.++.+.. +++|+. ++...+..+++.+++.|+..+
T Consensus 121 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp 199 (261)
T cd06272 121 SLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAIIC-GSYDIALGVLSALNKQGISIP 199 (261)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCC
Confidence 33 3345578899999999864432211111112223334455554443 566544 455567778899999998655
Q ss_pred ceEEEE
Q 036525 162 GCVWIM 167 (783)
Q Consensus 162 ~~~~i~ 167 (783)
+-+-+.
T Consensus 200 ~dv~vv 205 (261)
T cd06272 200 EDIEII 205 (261)
T ss_pred CceEEE
Confidence 544444
No 170
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=95.27 E-value=0.47 Score=49.48 Aligned_cols=158 Identities=12% Similarity=0.078 Sum_probs=90.7
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCCe--EEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGWR--EAVP 81 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~--~vai 81 (783)
..++.+|| .+..+.........+.+.++|+|......+ . ..+.+..+..++...+..++++|.. .|-+ ++++
T Consensus 53 ~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~-~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~ 128 (282)
T cd06318 53 TRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSSIN---L-EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIIL 128 (282)
T ss_pred HcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCCCC---C-CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEE
Confidence 34676655 443333323444555678999999864321 1 0123445677777888889998855 6865 8888
Q ss_pred EEEe--CCcCCcchHHHHHHHhhCCce------EeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHH
Q 036525 82 IYVD--NQYGEAMIPSLTDALHAIDTR------VPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFE 151 (783)
Q Consensus 82 i~~d--~~~G~~~~~~~~~~l~~~g~~------v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~ 151 (783)
+..+ ...+....++|++++++.|+. +..........+..+-...+.++... ++++|+. .+...+..+++
T Consensus 129 i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~ 207 (282)
T cd06318 129 LSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMR 207 (282)
T ss_pred EECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHH
Confidence 8743 345667788999999988642 11111011111212223344444333 4566555 34455677889
Q ss_pred HHHHcCccccceEEEEeC
Q 036525 152 KANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~ 169 (783)
.+++.|+. .+...++-+
T Consensus 208 al~~~g~~-~dv~vvg~d 224 (282)
T cd06318 208 VLAEAGKT-DDVKVAAAD 224 (282)
T ss_pred HHHHcCCC-CCeEEEecC
Confidence 99999984 333334333
No 171
>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=95.23 E-value=0.18 Score=52.28 Aligned_cols=154 Identities=14% Similarity=0.026 Sum_probs=89.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.+||-..... ......+.+.++|+|......+ ....++ +..++...+..+++++...|.++++++..+
T Consensus 56 ~~~vdgiii~~~~~--~~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~ 127 (268)
T cd06277 56 DGKVDGIILLGGIS--TEYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDP 127 (268)
T ss_pred HCCCCEEEEeCCCC--hHHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCC
Confidence 45788887422221 2235556778999998764322 112233 445666667777888888899999999755
Q ss_pred CCc--CCcchHHHHHHHhhCCceEeEEEecCCC-CChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 86 NQY--GEAMIPSLTDALHAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 86 ~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~-~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
... .....++|.+++++.|+++.....+... ....++...+.++. ..+++|++. ....+..+++.+++.|+..++
T Consensus 128 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~~~-~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 128 LYSPSFEERYEGYKKALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFFCS-NDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred CCCcchHHHHHHHHHHHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEEEC-CcHHHHHHHHHHHHcCCCCCC
Confidence 442 3456788999999988765332221111 11122333332221 247776555 445567777888899986444
Q ss_pred eE-EEEeC
Q 036525 163 CV-WIMTD 169 (783)
Q Consensus 163 ~~-~i~~~ 169 (783)
-+ .++-+
T Consensus 206 di~vig~d 213 (268)
T cd06277 206 DVSVIGFD 213 (268)
T ss_pred cceEEeec
Confidence 33 44333
No 172
>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=95.23 E-value=0.17 Score=52.92 Aligned_cols=155 Identities=12% Similarity=0.083 Sum_probs=94.5
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
..++.+||--..... ......+...++|+|......+ +..-.+..++...+..++++|...|.++++++..+
T Consensus 54 ~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~ 125 (283)
T cd06279 54 SALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLR 125 (283)
T ss_pred hcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCc
Confidence 457888775332222 2344556778999998864321 11233566777888889999988999999999753
Q ss_pred C-------------------CcCCcchHHHHHHHhhCCceEeEEEecCC-CCChhHHHHHHHHHhcc--CceEEEEEcCh
Q 036525 86 N-------------------QYGEAMIPSLTDALHAIDTRVPYRSVISP-LATDDQIEKELYKLFTM--QTRVFIVHKLP 143 (783)
Q Consensus 86 ~-------------------~~G~~~~~~~~~~l~~~g~~v~~~~~i~~-~~~~~d~~~~l~~l~~~--~~dvii~~~~~ 143 (783)
. .......++|.+++++.|++......+.. ..+.......+.++.+. .+++|+ ++..
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d 204 (283)
T cd06279 126 LGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAIL-CMSD 204 (283)
T ss_pred ccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEE-ECCc
Confidence 2 22345678899999988865422111111 11223344555565444 356655 4455
Q ss_pred hhHHHHHHHHHHcCccccc-eEEEEeC
Q 036525 144 SLGSRIFEKANEIGLMNKG-CVWIMTD 169 (783)
Q Consensus 144 ~~~~~~~~~a~~~g~~~~~-~~~i~~~ 169 (783)
..+..+++.+++.|+..++ ...++-|
T Consensus 205 ~~a~gv~~al~~~g~~ip~di~vig~d 231 (283)
T cd06279 205 VLALGALQVARELGLRVPEDLSVVGFD 231 (283)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEeeeC
Confidence 6677788999999986444 3344444
No 173
>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=95.14 E-value=0.24 Score=51.48 Aligned_cols=187 Identities=14% Similarity=0.082 Sum_probs=109.6
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
..+|.+|| -|.. ........+.+.++|+|......+ ..++ +..++..-+..++++|... .++++++..
T Consensus 53 ~~~vdgvi~~~~~--~~~~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~ 121 (269)
T cd06297 53 AYLTDGLLLASYD--LTERLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITV 121 (269)
T ss_pred hcCCCEEEEecCc--cChHHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeC
Confidence 44676665 3322 123344556678999998865321 1233 3467777888888888766 789998864
Q ss_pred eC--C------cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHH
Q 036525 85 DN--Q------YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 85 d~--~------~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~ 154 (783)
.. . .+....++|++++++.|+++.....+..+.+..+....+.++.+. .+++|++. +...+..+++.++
T Consensus 122 ~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~ 200 (269)
T cd06297 122 EEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAV 200 (269)
T ss_pred ccccccccccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHH
Confidence 32 2 455668999999999988754322222111222334556665543 35666654 4556778889999
Q ss_pred HcCccccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 155 EIGLMNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
+.|...++-+-|++-....... .. +.-.+. ......+|.|+.++...++.
T Consensus 201 ~~g~~vP~di~vvg~d~~~~~~--------~~-~lttv~------------~~~~~~g~~av~~l~~~i~~ 250 (269)
T cd06297 201 ELGLTVGEDVRVVGFDDHPFAR--------EA-GLSTLA------------QPVEAMGARAAQLLLERLEG 250 (269)
T ss_pred HcCCCCCCceEEEEECCchhhc--------cC-Cceeee------------cCHHHHHHHHHHHHHHHhcC
Confidence 9998655554444332221110 01 221121 12456888888888887764
No 174
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=95.08 E-value=0.54 Score=48.75 Aligned_cols=144 Identities=13% Similarity=0.148 Sum_probs=94.9
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC---C-CCCeEEEeecCchhhHHHHHHHHHHc--CCeEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS---I-RSPYFFRGALNDSSQVGAITAIIKAF--GWREAV 80 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~---~-~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~va 80 (783)
++-++|++-. +..+.++..-.. ++|++-.+.+++.=.. . .-|----|..+|..-...-.++++.. +.++++
T Consensus 87 ~~~dviv~i~-tp~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Ig 163 (322)
T COG2984 87 DKPDVIVAIA-TPAAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIG 163 (322)
T ss_pred CCCcEEEecC-CHHHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEE
Confidence 4555666543 334444433222 3999998877655332 1 11222235667766666666777653 899999
Q ss_pred EEEEe-CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh---hHHHHHHHHHHc
Q 036525 81 PIYVD-NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS---LGSRIFEKANEI 156 (783)
Q Consensus 81 ii~~d-~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~---~~~~~~~~a~~~ 156 (783)
++|.- .+......+.+++.+++.|++|+.... + . ..|....+..+. -++|+|++.++.. ....++..+.+.
T Consensus 164 v~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v-~-~--~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ 238 (322)
T COG2984 164 VLYNPGEANSVSLVEELKKEARKAGLEVVEAAV-T-S--VNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKA 238 (322)
T ss_pred EEeCCCCcccHHHHHHHHHHHHHCCCEEEEEec-C-c--ccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHh
Confidence 99954 448889999999999999999975443 2 2 236666666554 8899999988765 466677788877
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
+.
T Consensus 239 ki 240 (322)
T COG2984 239 KI 240 (322)
T ss_pred CC
Confidence 74
No 175
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=95.06 E-value=0.86 Score=49.33 Aligned_cols=189 Identities=9% Similarity=-0.015 Sum_probs=107.1
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-----CCeEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-----GWREAV 80 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-----gw~~va 80 (783)
.+|.+|| .|.......... .+.+.++|+|....... .+. ....+..++...+..++++|... |.++++
T Consensus 103 ~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~ 176 (343)
T PRK10936 103 WGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVA 176 (343)
T ss_pred hCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEE
Confidence 4677665 554443322333 45678999998643211 111 12335677777788888887654 478999
Q ss_pred EEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHc
Q 036525 81 PIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 81 ii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
++..+ ........++|++.+++.|++++... .. +.....-...+.++.+. ++++|+ + ....+..+++.+++.
T Consensus 177 ~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~-~d~~A~ga~~al~~~ 252 (343)
T PRK10936 177 LLPGPEGAGGSKAVEQGFRAAIAGSDVRIVDIA-YG-DNDKELQRNLLQELLERHPDIDYIA-G-SAVAAEAAIGELRGR 252 (343)
T ss_pred EEECCCCCchHHHHHHHHHHHHhcCCCEEEEee-cC-CCcHHHHHHHHHHHHHhCCCccEEE-e-CCHHHHHHHHHHHhc
Confidence 99743 22334567889999998898875422 11 11212223344554433 467776 3 445677788889999
Q ss_pred CccccceEEEEeC-CcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 157 GLMNKGCVWIMTD-GMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 157 g~~~~~~~~i~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
|+. +-+.|++. ..... .....+|.+..+.. ......+|.|+.++...++
T Consensus 253 g~~--~di~Vvg~~~~p~~-------~~~i~~G~i~~tv~----------q~~~~~G~~ai~~l~~~l~ 302 (343)
T PRK10936 253 NLT--DKIKLVSFYLSHQV-------YRGLKRGKVLAAPS----------DQMVLQGRLAIDQAVRQLE 302 (343)
T ss_pred CCC--CCeEEEEeCCCHHH-------HHHHHcCCeEEEEe----------cCHHHHHHHHHHHHHHHHc
Confidence 972 33444432 21111 11223444333221 1134588899998888875
No 176
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.05 E-value=0.25 Score=51.00 Aligned_cols=132 Identities=13% Similarity=0.048 Sum_probs=81.5
Q ss_pred CCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe--CCcCCcchHHHHHHHhhCCceEe
Q 036525 31 SQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEAMIPSLTDALHAIDTRVP 108 (783)
Q Consensus 31 ~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~ 108 (783)
.++|+|......+ ....++ +..++...+..++++|...|.++++++..+ +.......++|.+.+++.|+.+.
T Consensus 76 ~~iPvV~i~~~~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~ 149 (265)
T cd06290 76 EEIPVLAVGRRVP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQ 149 (265)
T ss_pred cCCCEEEECCCcC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCC
Confidence 4899998875322 112233 456777778888888888899999999743 34445667889999988887643
Q ss_pred EEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccccceE-EEEeC
Q 036525 109 YRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCV-WIMTD 169 (783)
Q Consensus 109 ~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~-~i~~~ 169 (783)
....+..+.+...-...+.++.+. .+++|++ ++...+..+++.+++.|+..++-+ .++-+
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii~-~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 150 PDLIVQGDFEEESGLEAVEELLQRGPDFTAIFA-ANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HHHEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 211111111111223345555443 4576664 466667788899999998655433 34433
No 177
>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=95.03 E-value=0.26 Score=50.89 Aligned_cols=148 Identities=14% Similarity=0.101 Sum_probs=88.9
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.++.+|| .+..+. . ..+...++|+|......+ ...+| +..++...+..++++|...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~~-~----~~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 120 (265)
T cd06291 53 QNQVDGIIAGTHNLG-I----EEYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGG 120 (265)
T ss_pred HcCCCEEEEecCCcC-H----HHHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEcc
Confidence 34676665 333222 1 233567999999875432 12232 45666677788889988889999999974
Q ss_pred eC---CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 85 DN---QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 85 d~---~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.. .......++|.+.+++.|+.+.... ...+.+..+-...+.++.+. .+++|+.. ....+..+++.+++.|+.
T Consensus 121 ~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~ 198 (265)
T cd06291 121 PNNTVSPTNLRYEGFLDVLKENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIR 198 (265)
T ss_pred CcccccchHHHHHHHHHHHHHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCC
Confidence 33 3455667899999999887653221 11111211223345554433 34665554 344677888999999986
Q ss_pred ccceEEEE
Q 036525 160 NKGCVWIM 167 (783)
Q Consensus 160 ~~~~~~i~ 167 (783)
.++-+-++
T Consensus 199 vp~di~v~ 206 (265)
T cd06291 199 VPEDLQII 206 (265)
T ss_pred CCcceEEe
Confidence 55444333
No 178
>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=95.02 E-value=0.48 Score=49.13 Aligned_cols=150 Identities=7% Similarity=-0.045 Sum_probs=89.5
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
.+|.++| -+..+. .....+.+.++|++...... .+...+ .+..++...+..+++++...|.++++++...
T Consensus 51 ~~vdgii~~~~~~~---~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~ 121 (270)
T cd01544 51 EDVDGIIAIGKFSQ---EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGE 121 (270)
T ss_pred cCcCEEEEecCCCH---HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCC
Confidence 3566654 222232 33344566789999976432 122233 3566777888889999988899999999854
Q ss_pred CC-------cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc----CceEEEEEcChhhHHHHHHHHH
Q 036525 86 NQ-------YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM----QTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 86 ~~-------~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~----~~dvii~~~~~~~~~~~~~~a~ 154 (783)
.. ..+....+|.+++++.|.. .....+....+..+-...+.++.+. .+++|+. +....+..+++.++
T Consensus 122 ~~~~~~~~~~~~~R~~gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~ 199 (270)
T cd01544 122 EKTTDGHEYIEDPRETAFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMAIGALRALQ 199 (270)
T ss_pred cccccccchhhhHHHHHHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHHHHHHHHHH
Confidence 33 3455688899999998842 1111111111222222344444332 3576555 46667888899999
Q ss_pred HcCccccceEEEE
Q 036525 155 EIGLMNKGCVWIM 167 (783)
Q Consensus 155 ~~g~~~~~~~~i~ 167 (783)
+.|+..++-+.|.
T Consensus 200 ~~g~~vp~di~v~ 212 (270)
T cd01544 200 EAGIKVPEDVSVI 212 (270)
T ss_pred HcCCCCCCceEEE
Confidence 9998655444333
No 179
>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=95.01 E-value=0.33 Score=50.19 Aligned_cols=157 Identities=11% Similarity=0.080 Sum_probs=93.8
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
.+...+|.+||=...+. .....+...++|+|......+. +.+-++..++...+..+++++...|.++++++
T Consensus 45 ~l~~~~vdGiI~~~~~~---~~~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i 115 (265)
T cd01543 45 WLKDWQGDGIIARIDDP---EMAEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFY 115 (265)
T ss_pred hccccccceEEEECCCH---HHHHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 34456888887432222 2224446679999998653221 22334677788888888899988899999998
Q ss_pred EEeCC-cCCcchHHHHHHHhhCCceEeEEEec-CCCC-ChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcC
Q 036525 83 YVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVI-SPLA-TDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 83 ~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i-~~~~-~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
..... ......++|++++++.|+.+...... .... +..+-...+.++.+. .+++|+.. +...+..+++.+++.|
T Consensus 116 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g 194 (265)
T cd01543 116 GLPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFAC-TDARARQLLEACRRAG 194 (265)
T ss_pred cCCCCHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEec-ChHHHHHHHHHHHHhC
Confidence 74333 22345688999999999775211111 1111 111223344454333 46765554 5566777888999999
Q ss_pred cccc-ceEEEEeC
Q 036525 158 LMNK-GCVWIMTD 169 (783)
Q Consensus 158 ~~~~-~~~~i~~~ 169 (783)
+..+ +...++-|
T Consensus 195 ~~vp~di~vigfd 207 (265)
T cd01543 195 IAVPEEVAVLGVD 207 (265)
T ss_pred CCCCCceEEEeeC
Confidence 8544 34444444
No 180
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=94.96 E-value=0.35 Score=51.75 Aligned_cols=131 Identities=9% Similarity=0.019 Sum_probs=80.5
Q ss_pred CCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe--CCcCCcchHHHHHHHhhCCceEe
Q 036525 31 SQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEAMIPSLTDALHAIDTRVP 108 (783)
Q Consensus 31 ~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~ 108 (783)
.++|+|...... ..... ..+..++..-+..++++|...|.+++++|... ....+...++|.+++++.|+++.
T Consensus 135 ~~iPvV~i~~~~---~~~~~---~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~ 208 (327)
T PRK10423 135 PSVPTVMMDWAP---FDGDS---DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIP 208 (327)
T ss_pred CCCCEEEECCcc---CCCCC---CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCC
Confidence 489999875321 11111 12444445557888888988999999999643 33445678899999999997653
Q ss_pred EEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccccceEEEEe
Q 036525 109 YRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIMT 168 (783)
Q Consensus 109 ~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 168 (783)
....+..+.....-...+.++.+. .+++|++. +...+..+++.+++.|+..++-+-|++
T Consensus 209 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 209 DGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFTG-NDAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred cceEEeCCCChHHHHHHHHHHhcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 322221111112222345555433 46766554 555677899999999987665554443
No 181
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=94.94 E-value=0.39 Score=49.79 Aligned_cols=192 Identities=10% Similarity=-0.008 Sum_probs=107.7
Q ss_pred CCeEEE-EccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVM-LGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~ai-IGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.++.+| +.|............+.+.++|+|......+ + . ...+..++...+..+++++... |.++++++.
T Consensus 56 ~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 128 (271)
T cd06321 56 AKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILN 128 (271)
T ss_pred hCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 466655 4453333233344445677999999865322 1 1 1245677778888899998776 999999997
Q ss_pred EeC-CcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDN-QYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~-~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+. .......+++.+.+++. +++..... .....+...-...+.++.+. .+++|++. +...+..+++.+++.|+
T Consensus 129 g~~~~~~~~R~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~- 205 (271)
T cd06321 129 GPPVSAVLDRVAGCKAALAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFAI-NDPTAIGADLAAKQAGR- 205 (271)
T ss_pred CCCCchHHHHHHHHHHHHHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEEC-CchhHHHHHHHHHHcCC-
Confidence 532 23455578888999987 56532211 11111111112344454433 45775554 55566778899999997
Q ss_pred ccceEEEEeCCcccccccCChhhhhcc-cceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 160 NKGCVWIMTDGMTNLLRTLEPSVIDSM-QGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
.+..+++.+........+ +.. ...++... ......+|.|+.++.+.++.
T Consensus 206 -~di~v~g~d~~~~~~~~~-----~~~~~~~~tti~-----------~~~~~~g~~a~~~l~~~l~~ 255 (271)
T cd06321 206 -NDIKITSVDGAPDAEKAI-----LSGNSLIIATAA-----------QDPRAMARKAVEIGYDILNG 255 (271)
T ss_pred -CCcEEEEecCCHHHHHHH-----hccCCcEEEEec-----------CCHHHHHHHHHHHHHHHHcC
Confidence 355555555432111100 000 11222211 12356788888888876653
No 182
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.85 E-value=0.51 Score=49.06 Aligned_cols=156 Identities=10% Similarity=0.075 Sum_probs=93.2
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
...+|.++|=........ ....+.+.++|+|........ ....++ +..++...+..++++|...|.+++++|..
T Consensus 53 ~~~~vdgiIi~~~~~~~~-~~~~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 53 DALDIDGAILVEPMADDP-QVARLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred hccCcCeEEEecCCCCCH-HHHHHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeC
Confidence 345787765211111122 223345679999988643210 112333 34566677788888888889999999963
Q ss_pred e--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 D--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
. .........+|.+++++.|+...... +....+.++-...+.++.+. ++++|++. +...+..+++.+++.|+..
T Consensus 127 ~~~~~~~~~R~~gf~~a~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~gvl~al~~~gl~v 204 (269)
T cd06287 127 SARRNSYLEAEAAYRAFAAEHGMPPVVLR-VDEAGGEEAGYAACAQLLAQHPDLDALCVP-VDAFAVGAVRAATELGRAV 204 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCcceeE-ecCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 2 23445567889999999987643211 11112222323455555433 46776654 5667888999999999976
Q ss_pred cceEEEEe
Q 036525 161 KGCVWIMT 168 (783)
Q Consensus 161 ~~~~~i~~ 168 (783)
++-+-|++
T Consensus 205 P~dvsvig 212 (269)
T cd06287 205 PDQLRVVT 212 (269)
T ss_pred CCceEEEe
Confidence 66554443
No 183
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=94.84 E-value=0.85 Score=49.16 Aligned_cols=145 Identities=3% Similarity=-0.010 Sum_probs=79.7
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-c--CCeEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-F--GWREAVPI 82 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~--gw~~vaii 82 (783)
.+|.+|+ -|..+........-+.+.+||+|+..+..+. . ...+|-...++...+..+++++.+ + +-.+++++
T Consensus 79 ~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~~~~---~-~~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il 154 (336)
T PRK15408 79 QGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSDTKP---E-CRSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFF 154 (336)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCCCCC---c-cceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEE
Confidence 4787775 4555554456666678889999998754321 1 122222222334567666777654 3 45688888
Q ss_pred EEeCC--cCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCce--EEEEEcChhhHHHHHHHHHHc
Q 036525 83 YVDNQ--YGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTR--VFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 83 ~~d~~--~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~d--vii~~~~~~~~~~~~~~a~~~ 156 (783)
..... -.....+.+.+.+++ .+++++... .. +.+...-...+.++.++.|| +|+.. ....+.-.+++.++.
T Consensus 155 ~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv~~~-~~-~~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~ 231 (336)
T PRK15408 155 YSSPTVTDQNQWVKEAKAKIAKEHPGWEIVTTQ-FG-YNDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENL 231 (336)
T ss_pred ECCCCCccHHHHHHHHHHHHHhhCCCCEEEeec-CC-CCcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhC
Confidence 74322 223445777777754 356665332 11 11112223355566555554 55544 333344577788888
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 232 g~ 233 (336)
T PRK15408 232 KR 233 (336)
T ss_pred CC
Confidence 86
No 184
>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=94.71 E-value=0.5 Score=48.98 Aligned_cols=151 Identities=9% Similarity=-0.030 Sum_probs=91.6
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCC-----eEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGW-----REA 79 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw-----~~v 79 (783)
+.+|.+|| -|....... ....+...++|+|......+ + ......+..++...+..++++|.+.+. +++
T Consensus 55 ~~~vdgiI~~~~~~~~~~-~~~~~~~~giPvV~~~~~~~---~--~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i 128 (268)
T cd06306 55 AWGADAILLGAVSPDGLN-EILQQVAASIPVIALVNDIN---S--PDITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKV 128 (268)
T ss_pred HcCCCEEEEcCCChhhHH-HHHHHHHCCCCEEEeccCCC---C--cceeEEecCChHHHHHHHHHHHHHHhhcCCCCceE
Confidence 34777775 333322222 23445778999998753221 1 112234566777778888898877665 899
Q ss_pred EEEEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHH
Q 036525 80 VPIYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 80 aii~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
+++.... ...+...+.|++++++.++++... .....+...-...+.++.+. ++++|+. + ...+..+++.+++
T Consensus 129 ~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~-d~~a~~~~~~l~~ 204 (268)
T cd06306 129 AWFPGPKGAGWVKAVEKGFRDALAGSAIEISAI--KYGDTGKEVQRKLVEEALEAHPDIDYIVG-S-AVAAEAAVGILRQ 204 (268)
T ss_pred EEEeCCCCCchHHHHHHHHHHHHhhcCcEEeee--ccCCccHHHHHHHHHHHHHhCCCcCEEee-c-chhhhHHHHHHHh
Confidence 9997533 345666788999999999877542 11111222333455555433 4677764 3 6667788899999
Q ss_pred cCccccceEEEE
Q 036525 156 IGLMNKGCVWIM 167 (783)
Q Consensus 156 ~g~~~~~~~~i~ 167 (783)
.|+ ..+...++
T Consensus 205 ~g~-p~di~vig 215 (268)
T cd06306 205 RGL-TDQIKIVS 215 (268)
T ss_pred cCC-CCCeEEEe
Confidence 997 33333443
No 185
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=94.64 E-value=0.41 Score=51.74 Aligned_cols=111 Identities=15% Similarity=0.069 Sum_probs=71.0
Q ss_pred eecCchhhHHHHHHHHHHcCCeEEEEEEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-
Q 036525 56 GALNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM- 132 (783)
Q Consensus 56 ~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~- 132 (783)
+..++..-+..++++|...|.+++++|.... ...+...++|++++++.|+.+........+.+..+-...+.++.+.
T Consensus 156 V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 235 (343)
T PRK10727 156 IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRG 235 (343)
T ss_pred EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCC
Confidence 4556666777788888888999999997543 2345667899999999998653221111111111222344555433
Q ss_pred -CceEEEEEcChhhHHHHHHHHHHcCccccceEEEE
Q 036525 133 -QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIM 167 (783)
Q Consensus 133 -~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 167 (783)
.+++|+. .+...+..+++.+++.|+..++-+-|+
T Consensus 236 ~~~~ai~~-~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 236 RNFTAVAC-YNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred CCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 3676655 455667788999999998666544444
No 186
>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=94.63 E-value=0.36 Score=50.07 Aligned_cols=145 Identities=8% Similarity=0.011 Sum_probs=81.4
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCC-CccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKS-QVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~-~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw~~vaii~ 83 (783)
+.+|.+||--. +...........++ ++|++......+.. +.+-++..++..-+..++.++.. .|.++++++.
T Consensus 55 ~~~vdgiI~~~-~~~~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~ 128 (265)
T cd06354 55 DAGYDLIVGVG-FLLADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIG 128 (265)
T ss_pred hCCCCEEEEcC-cchHHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEe
Confidence 45788887532 12233445555554 89999876422110 12223444444444445555554 3999999997
Q ss_pred EeCCcC-CcchHHHHHHHhhCC---ceEeEEEecCCCCC-hhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcC
Q 036525 84 VDNQYG-EAMIPSLTDALHAID---TRVPYRSVISPLAT-DDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 84 ~d~~~G-~~~~~~~~~~l~~~g---~~v~~~~~i~~~~~-~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.+.... ....+.|++.+++.| ..+..........+ ..+-...+.++.+.++|+|+.. ....+..+++.+++.|
T Consensus 129 ~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 129 GMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred cccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 533211 222368899999888 65433222221112 1233345566665668875554 5566778889999988
No 187
>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=94.48 E-value=0.53 Score=48.40 Aligned_cols=151 Identities=11% Similarity=0.036 Sum_probs=89.8
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.+|.+|| -|.... ...+..+.+ .+ |++......+ ...+ .+..++...+..++++|...|.++++++..
T Consensus 53 ~~~vdgiii~~~~~~-~~~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 122 (260)
T cd06286 53 TKQVDGLILCSREND-WEVIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIG 122 (260)
T ss_pred HcCCCEEEEeCCCCC-HHHHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcC
Confidence 44677665 332222 233333333 34 8877653211 1123 356677788888999998889999999975
Q ss_pred e--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCccc
Q 036525 85 D--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLMN 160 (783)
Q Consensus 85 d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~~ 160 (783)
+ +.......++|.+.+++.|+++.....+....+..+-...+.++.+ ..+++|+ +++...+..+++.+++.|+..
T Consensus 123 ~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~i 201 (260)
T cd06286 123 RKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRV 201 (260)
T ss_pred CcccchhHHHHHHHHHHHHHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCC
Confidence 3 3455667889999999998765322111111122233344455543 3567655 556667788999999999865
Q ss_pred cceEEEE
Q 036525 161 KGCVWIM 167 (783)
Q Consensus 161 ~~~~~i~ 167 (783)
++-+-++
T Consensus 202 p~di~v~ 208 (260)
T cd06286 202 PEDLAII 208 (260)
T ss_pred CcceEEE
Confidence 5444333
No 188
>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=94.45 E-value=1.3 Score=46.48 Aligned_cols=159 Identities=8% Similarity=0.007 Sum_probs=91.0
Q ss_pred CCeEEE-EccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEE
Q 036525 7 AQVRVM-LGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIY 83 (783)
Q Consensus 7 ~~V~ai-IGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~ 83 (783)
.++.+| +.|............+...+||+|......+.... ..+++..+..++..-+..++++|... |-++++++.
T Consensus 55 ~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 133 (294)
T cd06316 55 QKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIY 133 (294)
T ss_pred hCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 356655 44533332344445567789999987654322211 12344446666667778888888665 889999997
Q ss_pred EeCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+.+ ......++|.+.+++.+..+........ .........+.++.+. .+++|+.. +...+..+++.+++.|+
T Consensus 134 ~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~- 210 (294)
T cd06316 134 HGADYFVTNQRDQGFKETIKKNYPDITIVAEKGI-DGPSKAEDIANAMLTQNPDLKGIYAV-WDVPAEGVIAALRAAGR- 210 (294)
T ss_pred CCCCcccHHHHHHHHHHHHHHhCCCcEEEeecCC-cchhHHHHHHHHHHHhCCCeeEEEeC-CCchhHHHHHHHHHcCC-
Confidence 5433 3345578888888876543322211111 1111223344554433 45666554 45568889999999997
Q ss_pred ccceEEEEeCC
Q 036525 160 NKGCVWIMTDG 170 (783)
Q Consensus 160 ~~~~~~i~~~~ 170 (783)
.+...++-+.
T Consensus 211 -~di~vvg~d~ 220 (294)
T cd06316 211 -DDIKVTTVDL 220 (294)
T ss_pred -CCceEEEeCC
Confidence 3444555443
No 189
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=94.42 E-value=0.82 Score=47.39 Aligned_cols=192 Identities=11% Similarity=0.067 Sum_probs=102.3
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPI 82 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii 82 (783)
+.+|.++| .|............+.+ ++|+|......+. .+.+.-+..++...+..+++++... +-.+++++
T Consensus 53 ~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~~~~-----~~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~ 126 (271)
T cd06314 53 AEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSDAPD-----SGRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIF 126 (271)
T ss_pred hcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCCCCc-----cceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEE
Confidence 34777765 45433322333333345 9999998643211 1112224566667778888888654 33456666
Q ss_pred EEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 83 YVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 83 ~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.... .......++|++++++.|+++.... . ......+-...+.++.+. .+++|+.. +...+..++..+++.|+
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~ 203 (271)
T cd06314 127 VGSLGADNAKERIQGIKDAIKDSKIEIVDTR-G-DEEDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGK 203 (271)
T ss_pred ecCCCCCCHHHHHHHHHHHHhcCCcEEEEEe-c-CccCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCC
Confidence 6432 3345667889999999998765422 1 111222333455555443 35666544 33445557788888887
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccce-eEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGV-IDVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
. .+...++-+....... ....|. +.... ......++.|+.++.+.++.
T Consensus 204 ~-~di~vig~d~~~~~~~-------~~~~~~~lttv~-----------~~~~~~g~~a~~~l~~~l~~ 252 (271)
T cd06314 204 L-GKVKIVGFDEDPDTLQ-------GVKEGTIQGTVV-----------QRPYQMGYLSVTVLAALLKG 252 (271)
T ss_pred C-CceEEEEeCCCHHHHH-------HHHcCcceEEEe-----------cCHHHHHHHHHHHHHHHhcC
Confidence 5 4444444443221100 011221 22211 12346788888888777754
No 190
>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=94.38 E-value=1.8 Score=45.69 Aligned_cols=145 Identities=8% Similarity=-0.013 Sum_probs=74.5
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeec-CchhhHHHHHHHH-HHc-CCeEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGAL-NDSSQVGAITAII-KAF-GWREAVPI 82 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p-~~~~~~~ai~~~l-~~~-gw~~vaii 82 (783)
.+|.+|| -|..+.........+.+.+||+|......+. . .....+.. ++...+...++.+ +++ +-.+|++|
T Consensus 55 ~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~---~--~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i 129 (302)
T TIGR02637 55 QKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP---E--GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAIL 129 (302)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC---C--ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEE
Confidence 4676654 4444443344445567789999987643211 1 12233333 3333444455554 332 33699998
Q ss_pred EEeCCc--CCcchHHHHHHHhhCC---ceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHH
Q 036525 83 YVDNQY--GEAMIPSLTDALHAID---TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 83 ~~d~~~--G~~~~~~~~~~l~~~g---~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
..+... .+...+.+++.+++.| .+++... ....+.++-...+.++.+. ++++|+.. ....+...++.+++
T Consensus 130 ~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~L~~~~~~~ai~~~-~d~~a~ga~~al~~ 206 (302)
T TIGR02637 130 SAASTATNQNAWIEIMKKELKDPKYPKVKLVATV--YGDDDAQKSYQEAQGLLKSYPNLKGIIAP-TTVGIKAAAQAVSD 206 (302)
T ss_pred ECCCCCccHHHHHHHHHHHHhhccCCCCEEEeee--cCCchHHHHHHHHHHHHHhCCCccEEEeC-CCchHHHHHHHHHh
Confidence 754322 2234577777777653 3443221 1111222233344454444 45566653 34556667778888
Q ss_pred cCcc
Q 036525 156 IGLM 159 (783)
Q Consensus 156 ~g~~ 159 (783)
.|..
T Consensus 207 ~g~~ 210 (302)
T TIGR02637 207 AKLI 210 (302)
T ss_pred cCCC
Confidence 8864
No 191
>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=94.30 E-value=0.14 Score=48.31 Aligned_cols=98 Identities=11% Similarity=0.095 Sum_probs=66.4
Q ss_pred HHHHHHcCCeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHH-HHHhccCceEEEEEcChh
Q 036525 68 TAIIKAFGWREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKEL-YKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 68 ~~~l~~~gw~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l-~~l~~~~~dvii~~~~~~ 144 (783)
+++|...|.+++++|.. ++.+.....++|.+++++.|+........... ...+..... ..+++.+||+||+ ++..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~pdaii~-~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD-DSEDAREAQLLWLRRLRPDAIIC-SNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS-SHHHHHHHHHHHHHTCSSSEEEE-SSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC-cchhHHHHHHHHHhcCCCcEEEE-cCHH
Confidence 46788899999999993 34555677888999999999986554443322 322332222 2344457887666 7778
Q ss_pred hHHHHHHHHHHcCccccceEEEE
Q 036525 145 LGSRIFEKANEIGLMNKGCVWIM 167 (783)
Q Consensus 145 ~~~~~~~~a~~~g~~~~~~~~i~ 167 (783)
.+..+++.+++.|+..++-+-|.
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHcCCcccccccEE
Confidence 89999999999999655433333
No 192
>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=94.29 E-value=0.78 Score=48.15 Aligned_cols=155 Identities=9% Similarity=0.051 Sum_probs=89.9
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc------CCeEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF------GWREA 79 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------gw~~v 79 (783)
.+|.+|| .+..+.........+...++|+|......+. ....+ -+..++...+..+++++... |.+++
T Consensus 54 ~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (288)
T cd01538 54 KGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNI 128 (288)
T ss_pred cCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceE
Confidence 4777665 4433433344555566789999998654321 11222 24456666677777777555 88999
Q ss_pred EEEEEeCC--cCCcchHHHHHHHhhCC----ceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhHHHHH
Q 036525 80 VPIYVDNQ--YGEAMIPSLTDALHAID----TRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLGSRIF 150 (783)
Q Consensus 80 aii~~d~~--~G~~~~~~~~~~l~~~g----~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~~~~~ 150 (783)
+++..+.. ......++|++++++.+ +++.... ...+.+..+-...+.++.+. ++++|+.. +...+..++
T Consensus 129 ~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~~-~d~~a~g~~ 206 (288)
T cd01538 129 ELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIVGEV-ATPDWDPETAQKRMENALTANYNKVDGVLAA-NDGTAGGAI 206 (288)
T ss_pred EEEECCCCCchHHHHHHHHHHHHHhccccCCeeEEecc-ccCCCCHHHHHHHHHHHHHhCCCCccEEEeC-CcHHHHHHH
Confidence 99975433 33445788899999887 5443221 11111222223344454433 35665554 455677788
Q ss_pred HHHHHcCccccceEEEEeC
Q 036525 151 EKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~ 169 (783)
..+++.|+.. +...++.+
T Consensus 207 ~al~~~g~~~-dv~vvg~d 224 (288)
T cd01538 207 AALKAAGLAG-KPPVTGQD 224 (288)
T ss_pred HHHHHcCCCC-CceEEecC
Confidence 8999999865 33334433
No 193
>PRK09701 D-allose transporter subunit; Provisional
Probab=94.23 E-value=0.8 Score=48.78 Aligned_cols=196 Identities=10% Similarity=0.032 Sum_probs=109.5
Q ss_pred CCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCC--CCCCCCCeEEEeecCchhhHHHHHHHHHH-cCC--eEEE
Q 036525 7 AQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPS--LTSIRSPYFFRGALNDSSQVGAITAIIKA-FGW--REAV 80 (783)
Q Consensus 7 ~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~--ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw--~~va 80 (783)
.+|.+||= +..+.........+.+.+||++......+. +.........-+..++...+..+++++.. .|. ++++
T Consensus 81 ~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~ 160 (311)
T PRK09701 81 KNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVA 160 (311)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEE
Confidence 46777653 333332222233345789999998754321 11111122334667777888889998854 464 7999
Q ss_pred EEEEeC--CcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHH
Q 036525 81 PIYVDN--QYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 81 ii~~d~--~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
++..+. .......+.|.+.+++.| +++.... .......+-...+.++.+. .+++|+ +.+...+..++..+++
T Consensus 161 ~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~I~-~~~d~~A~g~~~al~~ 237 (311)
T PRK09701 161 IIEGKAGNASGEARRNGATEAFKKASQIKLVASQ--PADWDRIKALDVATNVLQRNPNIKAIY-CANDTMAMGVAQAVAN 237 (311)
T ss_pred EEECCCCCccHHHHHHHHHHHHHhCCCcEEEEec--CCCCCHHHHHHHHHHHHHhCCCCCEEE-ECCcchHHHHHHHHHH
Confidence 886433 334566788999998887 6654321 1111222223444555433 456544 5556677788899999
Q ss_pred cCccccceEEEEeCCcccccccCChhhhhcc-ccee-EeeeCCCCCCcccccchHHHHHHHHHHHHHHHHHH
Q 036525 156 IGLMNKGCVWIMTDGMTNLLRTLEPSVIDSM-QGVI-DVRPYENPSLFDAELNIIGLLAYDATRALAEAVEK 225 (783)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~-~g~~-~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~~ 225 (783)
.|.. .+...++-+..... .... .|.+ .... ......+|.|+.++.+.++.
T Consensus 238 ~G~~-~dv~vvg~d~~~~~--------~~~~~~~~i~ttv~-----------~~~~~~G~~a~~~l~~~i~~ 289 (311)
T PRK09701 238 AGKT-GKVLVVGTDGIPEA--------RKMVEAGQMTATVA-----------QNPADIGATGLKLMVDAEKS 289 (311)
T ss_pred cCCC-CCEEEEEeCCCHHH--------HHHHHcCCceEEEe-----------cCHHHHHHHHHHHHHHHHhC
Confidence 9974 33444444432211 1111 2332 2211 12356789999988888764
No 194
>PRK09492 treR trehalose repressor; Provisional
Probab=94.21 E-value=0.52 Score=50.15 Aligned_cols=139 Identities=12% Similarity=-0.012 Sum_probs=85.4
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
.+.+|.++|--..+.... ......++|++...... +.+-.+..++..-+..++++|...|.++++++..
T Consensus 115 ~~~~vdgiIi~~~~~~~~---~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~ 183 (315)
T PRK09492 115 KRRNVDGVILFGFTGITE---EMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGV 183 (315)
T ss_pred HhcCCCEEEEeCCCcccH---HHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcC
Confidence 345788777532221111 12233456777654211 1123456677777788889998889999999963
Q ss_pred e---CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 85 D---NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 85 d---~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
. ...+....++|.+++++.|+++... .. ..+...-...+.++.+.++++|++.. ...+..+++.+++.|+
T Consensus 184 ~~~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 184 DHSDVTTGKRRHQAYLAFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVCAT-DTLALGASKYLQEQGR 256 (315)
T ss_pred CcccchhHHHHHHHHHHHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEEcC-cHHHHHHHHHHHHcCC
Confidence 2 2345677889999999999875431 11 11111222344555556789887554 5667788899999997
No 195
>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=94.16 E-value=0.55 Score=50.33 Aligned_cols=151 Identities=9% Similarity=0.014 Sum_probs=90.2
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.+|.+|| -|..... ......+...++|++......+. ...++ +..++..-+..++++|...|.++++++..
T Consensus 114 ~~~vdgiIi~~~~~~~-~~~~~~l~~~~iPvV~~~~~~~~---~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~ 186 (327)
T TIGR02417 114 ARQVDALIVASCMPPE-DAYYQKLQNEGLPVVALDRSLDD---EHFCS---VISDDVDAAAELIERLLSQHADEFWYLGA 186 (327)
T ss_pred HcCCCEEEEeCCCCCC-hHHHHHHHhcCCCEEEEccccCC---CCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 45777765 3332212 22233445679999987643221 12232 45566666777888888889999999974
Q ss_pred eCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 85 DNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 85 d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
... .++...++|++++++.|+.+.... ....+.++-...+.++.+. .+++|++. +...+..+++.+++.| .
T Consensus 187 ~~~~~~~~~R~~Gf~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~ 262 (327)
T TIGR02417 187 QPELSVSRDRLAGFRQALKQATLEVEWVY--GGNYSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-L 262 (327)
T ss_pred cccchhHHHHHHHHHHHHHHcCCChHhEE--eCCCChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-C
Confidence 432 345667889999999987642211 1111112223445555433 36877665 4455778889999999 6
Q ss_pred ccceEEEE
Q 036525 160 NKGCVWIM 167 (783)
Q Consensus 160 ~~~~~~i~ 167 (783)
.++-+-|+
T Consensus 263 vP~dvsvi 270 (327)
T TIGR02417 263 LDSQLHLA 270 (327)
T ss_pred CCCcceEE
Confidence 65444333
No 196
>PRK09526 lacI lac repressor; Reviewed
Probab=94.08 E-value=0.78 Score=49.45 Aligned_cols=150 Identities=9% Similarity=0.079 Sum_probs=89.7
Q ss_pred cCCeEEEE--ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVML--GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiI--Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.+|++|| +|..+.....+. ....++|++..... + ... +..+..++..-+..++++|...|.++++++.
T Consensus 118 ~~~vdGiii~~~~~~~~~~~~~--~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~ 188 (342)
T PRK09526 118 AQRVSGVIINVPLEDADAEKIV--ADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLA 188 (342)
T ss_pred hcCCCEEEEecCCCcchHHHHH--hhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEe
Confidence 45777766 344332222221 12358999987532 1 111 2235667777778889999888999999997
Q ss_pred EeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 036525 84 VDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 84 ~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
.+. ...+....+|.+++++.|+++.... ..+.+..+-...+.++.+. .+++|+. .+...+..+++.+++.|+.
T Consensus 189 g~~~~~~~~~R~~Gf~~al~~~gi~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~ 265 (342)
T PRK09526 189 GPESSVSARLRLAGWLEYLTDYQLQPIAVR--EGDWSAMSGYQQTLQMLREGPVPSAILV-ANDQMALGVLRALHESGLR 265 (342)
T ss_pred CCCccccHHHHHHHHHHHHHHcCCCcceEE--eCCCchHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 432 2334567889999999998653321 1111212222344454433 4676664 4556677889999999987
Q ss_pred ccceEEEE
Q 036525 160 NKGCVWIM 167 (783)
Q Consensus 160 ~~~~~~i~ 167 (783)
.++-+-|+
T Consensus 266 vP~disvi 273 (342)
T PRK09526 266 VPGQISVI 273 (342)
T ss_pred CCCceEEE
Confidence 65544333
No 197
>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=94.01 E-value=0.53 Score=48.79 Aligned_cols=155 Identities=12% Similarity=0.175 Sum_probs=92.8
Q ss_pred CCeEEEE-ccCCch---hHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 7 AQVRVML-GPEDSM---PTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~---~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
.+|.+|| -|..+. ........+...++|+|......+. . -+..+..++...+..+++++...|.++++++
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l 127 (273)
T cd01541 54 QGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINASYEE---L---NFPSLVLDDEKGGYKATEYLIELGHRKIAGI 127 (273)
T ss_pred cCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecCCCC---C---CCCEEEECcHHHHHHHHHHHHHcCCcCEEEe
Confidence 4787775 343221 1223334456779999998654221 1 1234667777788888999988899999988
Q ss_pred EEe-CCcCCcchHHHHHHHhhCCceEeEEE--ecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcC
Q 036525 83 YVD-NQYGEAMIPSLTDALHAIDTRVPYRS--VISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 83 ~~d-~~~G~~~~~~~~~~l~~~g~~v~~~~--~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
... +..+....+.|.+.+++.|.++.... ....+.........+.++.+. .+++|+. .+...+..+++.+++.|
T Consensus 128 ~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~-~~d~~a~g~~~al~~~g 206 (273)
T cd01541 128 FKADDLQGVKRMKGFIKAYREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIVC-YNDEIALRVIDLLKELG 206 (273)
T ss_pred cCCCcccHHHHHHHHHHHHHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcC
Confidence 743 22345567889999998887542211 111111112334455555433 4676654 45556777888999999
Q ss_pred ccccceEEEEe
Q 036525 158 LMNKGCVWIMT 168 (783)
Q Consensus 158 ~~~~~~~~i~~ 168 (783)
+..++-+-|++
T Consensus 207 ~~~p~dv~vvg 217 (273)
T cd01541 207 LKIPEDISVVG 217 (273)
T ss_pred CCCCCcEEEEE
Confidence 86555444443
No 198
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=93.89 E-value=0.88 Score=49.22 Aligned_cols=111 Identities=11% Similarity=0.027 Sum_probs=71.7
Q ss_pred eecCchhhHHHHHHHHHHcCCeEEEEEEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-
Q 036525 56 GALNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM- 132 (783)
Q Consensus 56 ~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~- 132 (783)
+..++..-+..++++|...|.+++++|.... ..+....++|++++++.|+.+..............-...+.++.+.
T Consensus 156 V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 235 (346)
T PRK10401 156 VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRN 235 (346)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCC
Confidence 4556666677788888888999999997433 3456678999999999997653221111111111222344454433
Q ss_pred -CceEEEEEcChhhHHHHHHHHHHcCccccceEEEE
Q 036525 133 -QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIM 167 (783)
Q Consensus 133 -~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 167 (783)
.+++|++ .+...+..+++.+++.|+..|+-+-|+
T Consensus 236 ~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 236 LQLTAVFA-YNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred CCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 4687665 456667789999999998766544444
No 199
>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=93.83 E-value=0.49 Score=48.01 Aligned_cols=134 Identities=11% Similarity=0.074 Sum_probs=93.5
Q ss_pred HHHHHcccCCCCccEEeeccCCCCCCCCCCCeE------EEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchH
Q 036525 21 TNFIIQPGNKSQVPILSFSATSPSLTSIRSPYF------FRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIP 94 (783)
Q Consensus 21 ~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~------fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~ 94 (783)
..+++.+....++=.|.+++++.++-.. ..-+ =+....-..-+.|+.+-++++|.+|++++. .|-....+
T Consensus 60 ~~aa~~ll~~a~~dvi~~~cTsgs~~~G-~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvT---PY~~~v~~ 135 (239)
T TIGR02990 60 TEAAALILPDEELDVVAYSCTSASVVIG-DDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLT---PYTPETSR 135 (239)
T ss_pred HHHHHHhcCCCCCCEEEEccchhheecC-HHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEEC---CCcHHHHH
Confidence 3444555555678889999888766210 0000 012223444578889999999999999997 58889999
Q ss_pred HHHHHHhhCCceEeEEEecCCC-------CChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH-cCc
Q 036525 95 SLTDALHAIDTRVPYRSVISPL-------ATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE-IGL 158 (783)
Q Consensus 95 ~~~~~l~~~g~~v~~~~~i~~~-------~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~-~g~ 158 (783)
.+.+.+++.|++|+....+... .+.+.+...+.++...++|+|++.|..-....++.++.+ +|.
T Consensus 136 ~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 136 PMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred HHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHHHHCC
Confidence 9999999999999876544321 123345556666667899999999988888888888754 563
No 200
>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=93.58 E-value=2.8 Score=44.08 Aligned_cols=189 Identities=10% Similarity=0.024 Sum_probs=103.3
Q ss_pred cCCeEEEE-ccCCchh-HHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-----CCeE
Q 036525 6 NAQVRVML-GPEDSMP-TNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-----GWRE 78 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~-~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-----gw~~ 78 (783)
+.+|.+|| .|..... ...+.. +. .++|+|....... . ...+..+..++..-+..++++|... |-++
T Consensus 55 ~~~vDgiIi~~~~~~~~~~~l~~-~~-~~iPvV~~~~~~~---~--~~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~ 127 (295)
T TIGR02955 55 SWGADAILLGTVSPEALNHDLAQ-LT-KSIPVFALVNQID---S--NQVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTT 127 (295)
T ss_pred HcCCCEEEEecCChhhhhHHHHH-Hh-cCCCEEEEecCCC---c--cceeEEEeecHHHHHHHHHHHHHHhcccCCCCee
Confidence 35787775 3432222 223333 33 4899998642211 1 1123345666667778888887652 1346
Q ss_pred EEEEEEeC--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHH
Q 036525 79 AVPIYVDN--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 79 vaii~~d~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~ 154 (783)
++++.... ...+...++|++++++.|+++... ...+.+..+-...+.++.+. .+|+| ++....+..+++.++
T Consensus 128 I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~ 203 (295)
T TIGR02955 128 LAWLPGPKNRGGTKPVTQGFRAALEGSDVEISAI--LWADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELR 203 (295)
T ss_pred EEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEEE--ecCCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHH
Confidence 99997433 345667889999999999877532 21112222223345555433 45764 445556778888888
Q ss_pred HcCccccceEEEEeCCcccccccCChhhh-hcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 155 EIGLMNKGCVWIMTDGMTNLLRTLEPSVI-DSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~-~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
+.|+ ++-+.+.+.... +... ...+|.+...+ .......++-|+.++.+.++
T Consensus 204 ~~g~--~~dv~vvg~~~~-------p~~~~~l~~g~i~~~~----------~q~~~~~G~~av~~l~~~l~ 255 (295)
T TIGR02955 204 SLHM--TQQIKLVSTYLS-------HGVYRGLKRGKVLFAP----------TDQMVLQGKLAIDQAVRYLE 255 (295)
T ss_pred hhCc--cCCeEEEEecCC-------HHHHHHHHcCceeeec----------chhHHHHHHHHHHHHHHHHc
Confidence 8886 333444432111 1111 12244443322 12235568888888888777
No 201
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=93.57 E-value=2.3 Score=45.41 Aligned_cols=158 Identities=12% Similarity=0.111 Sum_probs=96.2
Q ss_pred CCeEEE-EccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH-cCC-eEEEEEE
Q 036525 7 AQVRVM-LGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA-FGW-REAVPIY 83 (783)
Q Consensus 7 ~~V~ai-IGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~gw-~~vaii~ 83 (783)
.++.+| |.|..+.....+..-+...+||+|...+..+.- ......+..++...+...++++.+ ++- -+++++.
T Consensus 90 ~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~ 165 (322)
T COG1879 90 QGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLV 165 (322)
T ss_pred cCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEe
Confidence 477666 589999999999999999999999987543322 223333334566666666777743 432 3466666
Q ss_pred E--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHHHcCccc
Q 036525 84 V--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKANEIGLMN 160 (783)
Q Consensus 84 ~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~~~g~~~ 160 (783)
. .........+.+++.+++.+..+........+.+.+.-......+.+..||+-.+++.... +.-..+.+++.|...
T Consensus 166 g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 166 GSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred cCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 3 3444566789999999998753222222222222223335666777788886666555443 334446666788644
Q ss_pred cceEEEE-eCC
Q 036525 161 KGCVWIM-TDG 170 (783)
Q Consensus 161 ~~~~~i~-~~~ 170 (783)
.+.++ .|+
T Consensus 246 --~v~v~g~D~ 254 (322)
T COG1879 246 --DVVVVGFDG 254 (322)
T ss_pred --ceEEEEecC
Confidence 34444 444
No 202
>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=93.55 E-value=2.5 Score=44.61 Aligned_cols=195 Identities=9% Similarity=-0.030 Sum_probs=104.9
Q ss_pred CCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-CC-eEEEEEE
Q 036525 7 AQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-GW-REAVPIY 83 (783)
Q Consensus 7 ~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-gw-~~vaii~ 83 (783)
.++.+||= +..+.........+.+.++|+|......+. . ...++....++...+..++++|... +- ++++++.
T Consensus 55 ~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~~~~---~-~~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~ 130 (298)
T cd06302 55 QGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSDVQP---D-NRDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFV 130 (298)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCCCCC---C-cceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEe
Confidence 36776653 333333344444567789999998643211 0 1123445667778888889998766 43 6999987
Q ss_pred EeCC--cCCcchHHHHHHHhhCCce-EeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 84 VDNQ--YGEAMIPSLTDALHAIDTR-VPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~~--~G~~~~~~~~~~l~~~g~~-v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
.+.. ......+.|++++++.|.. +.....+....+...-...+.++.+. .+++|+.. ....+..+++.+++.|+
T Consensus 131 g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~D~~A~g~~~al~~~g~ 209 (298)
T cd06302 131 GSLTATNQNAWIDAAKAYQKEKYYPMLELVDRQYGDDDADKSYQTAQELLKAYPDLKGIIGP-TSVGIPGAARAVEEAGL 209 (298)
T ss_pred CCCCCcchHHHHHHHHHHHhhcCCCCeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEEEEC-CCcchhHHHHHHHhcCC
Confidence 4332 3344568899999998721 21111111111212222334444333 45655554 45567788899999998
Q ss_pred cccceEEEEeCCcccccccCChhhhhcccceeEeeeCCCCCCcccccchHHHHHHHHHHHHHHHHH
Q 036525 159 MNKGCVWIMTDGMTNLLRTLEPSVIDSMQGVIDVRPYENPSLFDAELNIIGLLAYDATRALAEAVE 224 (783)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~aYDAv~~la~Al~ 224 (783)
. .....++-+...... .....|.+..... ......+|.|+.++...++
T Consensus 210 ~-~dv~vvG~D~~~~~~-------~~~~~g~i~~tv~----------~~~~~~g~~a~~~l~~~l~ 257 (298)
T cd06302 210 K-GKVAVTGLGLPNQMA-------PYVKSGAVKEFAL----------WNPADLGYAAVYVAKALLE 257 (298)
T ss_pred C-CCEEEEEeCCCHHHH-------HHHhCCeeEEEEe----------cCHHHHHHHHHHHHHHHhc
Confidence 5 333344444322111 0112244422110 1124577888877777665
No 203
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=93.40 E-value=1.6 Score=46.93 Aligned_cols=150 Identities=11% Similarity=0.061 Sum_probs=80.9
Q ss_pred CCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-----------
Q 036525 7 AQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF----------- 74 (783)
Q Consensus 7 ~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~----------- 74 (783)
.+|.+||= +..+.........+...++|+|......+.-.-...+-...+..++...+..+++++...
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~ 159 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNK 159 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCC
Confidence 46776652 323333344445567789999998753211000011212335556666666666655432
Q ss_pred -CCeEEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCC-ChhHHHHHHHHHhcc----CceEEEEEcChhhH
Q 036525 75 -GWREAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLA-TDDQIEKELYKLFTM----QTRVFIVHKLPSLG 146 (783)
Q Consensus 75 -gw~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~-~~~d~~~~l~~l~~~----~~dvii~~~~~~~~ 146 (783)
|-.++++|... ..........+++++++.|+.+.... +..+. +..+-...+.++.+. ++++|+ +++...+
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A 237 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTAMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMA 237 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeee-cccCCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHH
Confidence 33344555432 23344567889999999987754322 21111 112222344555432 356655 4455667
Q ss_pred HHHHHHHHHcCc
Q 036525 147 SRIFEKANEIGL 158 (783)
Q Consensus 147 ~~~~~~a~~~g~ 158 (783)
..+++.+++.|+
T Consensus 238 ~gvl~al~~~Gl 249 (330)
T PRK15395 238 MGAVEALKAHNK 249 (330)
T ss_pred HHHHHHHHhcCC
Confidence 788899999997
No 204
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=93.39 E-value=0.86 Score=48.92 Aligned_cols=154 Identities=9% Similarity=-0.006 Sum_probs=90.3
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
+.+|.+||=.... ........+.+.++|+|...... .+. ... .+..++..-+..++++|...|.++++++...
T Consensus 117 ~~~vdgiI~~~~~-~~~~~~~~l~~~~iPvV~~~~~~---~~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~ 189 (331)
T PRK14987 117 SWNIDGLILTERT-HTPRTLKMIEVAGIPVVELMDSQ---SPC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGAR 189 (331)
T ss_pred hcCCCEEEEcCCC-CCHHHHHHHHhCCCCEEEEecCC---CCC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 4577777632111 12233344567899999853211 011 111 2667777778888999988999999999643
Q ss_pred C-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccccc
Q 036525 86 N-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNKG 162 (783)
Q Consensus 86 ~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~~ 162 (783)
. ........+|++++++.|+... ...+....+...-...+.++.+. .+++|+. .+...+..+++.+++.|+..|+
T Consensus 190 ~~~~~~~R~~Gf~~al~~~g~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP~ 267 (331)
T PRK14987 190 LDERTIIKQKGYEQAMLDAGLVPY-SVMVEQSSSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVPD 267 (331)
T ss_pred CcccHHHHHHHHHHHHHHcCCCcc-ceeecCCCChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 2 2233457889999999986321 11111111111222344555443 4677665 4556677788999999987665
Q ss_pred eEEEEe
Q 036525 163 CVWIMT 168 (783)
Q Consensus 163 ~~~i~~ 168 (783)
-+-|.+
T Consensus 268 disvig 273 (331)
T PRK14987 268 DMAIAG 273 (331)
T ss_pred ccEEEe
Confidence 554443
No 205
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=92.99 E-value=0.77 Score=50.43 Aligned_cols=89 Identities=11% Similarity=0.029 Sum_probs=68.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.+.++.+|.+++.+++...-...+..+.+.+.|++.|+++..-..+.++++.+++...+..+++.++|+||-.+.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGG 98 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGG 98 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 45577888899999999888554444567889999999999887555455667777888899999999999999977655
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 99 S~iD~AK~ia~ 109 (383)
T PRK09860 99 SPHDCAKGIAL 109 (383)
T ss_pred hHHHHHHHHHH
Confidence 4 66666654
No 206
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=92.98 E-value=1.4 Score=46.67 Aligned_cols=112 Identities=13% Similarity=0.098 Sum_probs=72.6
Q ss_pred eecCchhhHHHHHHHHHHcCCeEEEEEEEeCC--cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-
Q 036525 56 GALNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM- 132 (783)
Q Consensus 56 ~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~--~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~- 132 (783)
+..++...+..++++|...|.+++++|..... ......++|++.+++.|+++.....+..+.+.......+.++.+.
T Consensus 132 V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 211 (309)
T PRK11041 132 VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLP 211 (309)
T ss_pred EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCC
Confidence 55677778888889888889999999974433 334568899999999988753221111111222333455566543
Q ss_pred -CceEEEEEcChhhHHHHHHHHHHcCccccceEEEEe
Q 036525 133 -QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIMT 168 (783)
Q Consensus 133 -~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 168 (783)
.+++|++. ....+..+++.+++.|+..++-+.|++
T Consensus 212 ~~~~ai~~~-~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 212 QPPTAVFCH-SDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred CCCCEEEEc-CcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 46877764 555566788889999986554444444
No 207
>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=92.58 E-value=1.6 Score=45.02 Aligned_cols=145 Identities=6% Similarity=-0.001 Sum_probs=80.8
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCC-CccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc-CCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKS-QVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF-GWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~-~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-gw~~vaii~ 83 (783)
..+|.+||=...+ ....+....++. ++|++......+. +...+ .+..++..-+..++.++... |.+++++|.
T Consensus 54 ~~~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~ 127 (260)
T cd06304 54 AQGYDLIFGVGFG-FMDAVEKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVG 127 (260)
T ss_pred HcCCCEEEECCcc-hhHHHHHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEe
Confidence 3467766532122 223444555443 7898887543211 01111 23334444444445555544 999999997
Q ss_pred EeC-CcCCcchHHHHHHHhhCCceEeEEEecCCCCC-hhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcC
Q 036525 84 VDN-QYGEAMIPSLTDALHAIDTRVPYRSVISPLAT-DDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 84 ~d~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~-~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
.+. .......+.|.+.+++.|..+..........+ .++-...+.++.+.++++| ++.+...+..+++.+++.|
T Consensus 128 ~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 128 GMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred ccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 532 23345578899999998865433222211111 1233345666666678876 5566667777889999988
No 208
>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=92.51 E-value=1.7 Score=46.24 Aligned_cols=118 Identities=10% Similarity=0.016 Sum_probs=76.4
Q ss_pred CCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE-e--CCcCCcchHHHHHHHhhCCc
Q 036525 29 NKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV-D--NQYGEAMIPSLTDALHAIDT 105 (783)
Q Consensus 29 ~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~-d--~~~G~~~~~~~~~~l~~~g~ 105 (783)
...++|++...... .. +-.+..++..-+..++++|...|.+++++|.. . ...+....++|.+++++.|+
T Consensus 133 ~~~~~p~V~i~~~~-----~~---~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi 204 (311)
T TIGR02405 133 ESWNHKAVVIARDT-----GG---FSSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYLAYCESANL 204 (311)
T ss_pred HhcCCCEEEEecCC-----CC---ccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHHHHHHHcCC
Confidence 34567887765311 11 22356677777888889998899999999973 2 23456678899999999998
Q ss_pred eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 106 RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 106 ~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+... . ....+..+-...+.++.+.++++|| +.+...+..+++.+++.|+
T Consensus 205 ~~~~-~--~~~~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 205 EPIY-Q--TGQLSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred Ccee-e--eCCCCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 6322 1 1111222222344454445688775 5556667788899999995
No 209
>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=92.36 E-value=0.46 Score=38.96 Aligned_cols=55 Identities=22% Similarity=0.317 Sum_probs=46.1
Q ss_pred cCccchhHHHHHHHhhhcc-c-ccccccchhhhHHHHHHHHHHHHHHhhhhhhheee
Q 036525 452 KHQVGTSFWFSFSTMVFSQ-R-ERVISNLARFVVIVWCFVVLILTQSYTASLTSLLT 506 (783)
Q Consensus 452 ~~~~~~~~~~~~~~l~~~~-~-~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt 506 (783)
..++.+++|+++.++...| + -.|.+..+|++.+++.+.++.+.....+.+.+.++
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 4578999999999999777 3 36788889999999999999999999998887664
No 210
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=92.33 E-value=1.1 Score=48.38 Aligned_cols=93 Identities=13% Similarity=0.066 Sum_probs=76.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.+.++.+|++++.|+.+......+..+.+.+.|++.|+++.....+.++++.+.....+..+++.++|.||..+.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGG 96 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGG 96 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45567777889999999999777777889999999999999888777777888888888999999999999999987765
Q ss_pred h--hHHHHHHHHHHc
Q 036525 144 S--LGSRIFEKANEI 156 (783)
Q Consensus 144 ~--~~~~~~~~a~~~ 156 (783)
. |++..+.-..+.
T Consensus 97 S~~D~AK~i~~~~~~ 111 (377)
T COG1454 97 SVIDAAKAIALLAEN 111 (377)
T ss_pred cHHHHHHHHHHHhhC
Confidence 5 666666655554
No 211
>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=92.18 E-value=1.6 Score=45.00 Aligned_cols=130 Identities=14% Similarity=0.167 Sum_probs=82.4
Q ss_pred CCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe-CCcCCcchHHHHHHHhhCCceE
Q 036525 29 NKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD-NQYGEAMIPSLTDALHAIDTRV 107 (783)
Q Consensus 29 ~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d-~~~G~~~~~~~~~~l~~~g~~v 107 (783)
...++|+|......+ ....++ +..++..-+..++++|...|.++++++..+ .........+|++++++.|+..
T Consensus 74 ~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~ 147 (263)
T cd06280 74 LRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAP 147 (263)
T ss_pred HhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCC
Confidence 466899998865432 122344 345677778888899988899999998743 2233456788999999988765
Q ss_pred eEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHHHHcCccccceEEEEe
Q 036525 108 PYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIMT 168 (783)
Q Consensus 108 ~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 168 (783)
.... +.. +..+-...+.++.+. .+++|++ .+...+..+++.+++.|+..++-+.|.+
T Consensus 148 ~~~~-~~~--~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 148 DARF-VAP--TAEAAEAALAAWLAAPERPEALVA-SNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred Chhh-ccc--CHHHHHHHHHHHhcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 3221 121 222323344554433 4676544 5555677899999999986555444443
No 212
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=92.15 E-value=1.1 Score=49.43 Aligned_cols=90 Identities=10% Similarity=-0.045 Sum_probs=68.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.++....-...+..+.+.+.|++.|+++.....+.++++.+++...+...++.++|+||-.|.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGG 116 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGG 116 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCCh
Confidence 45577888889988888776554455677889999999999987655455666777788888899999999999988776
Q ss_pred h--hHHHHHHHH
Q 036525 144 S--LGSRIFEKA 153 (783)
Q Consensus 144 ~--~~~~~~~~a 153 (783)
. |+.+.+...
T Consensus 117 S~iD~AKaia~~ 128 (395)
T PRK15454 117 SVLDAAKAVALL 128 (395)
T ss_pred HHHHHHHHHHHH
Confidence 6 666555443
No 213
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=91.95 E-value=2.2 Score=45.71 Aligned_cols=152 Identities=9% Similarity=-0.028 Sum_probs=87.9
Q ss_pred CCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEe
Q 036525 7 AQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVD 85 (783)
Q Consensus 7 ~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d 85 (783)
.+|+++|= |..+. .....+.+.++|++......+ ....+ .+..++..-+..++++|...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 45666653 22222 233445667899988753221 11223 2556666677888899888899999999643
Q ss_pred C--CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc--cCceEEEEEcChhhHHHHHHHHHHcCcccc
Q 036525 86 N--QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFIVHKLPSLGSRIFEKANEIGLMNK 161 (783)
Q Consensus 86 ~--~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~--~~~dvii~~~~~~~~~~~~~~a~~~g~~~~ 161 (783)
. .........|.+++++.|+ +.....+..+.+.++-...+.++.+ ..+++|++. +...+..+++.+++.|+..+
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~D~~A~g~~~al~~~g~~vP 261 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQV-VREEDIWRGGFSSSSGYELAKQMLAREDYPKALFVA-SDSIAIGVLRAIHERGLNIP 261 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCC-CChhheeecCcChhHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHcCCCCC
Confidence 3 2344556788888888886 2111111111111222334455443 246765554 55667789999999998655
Q ss_pred ceE-EEEeC
Q 036525 162 GCV-WIMTD 169 (783)
Q Consensus 162 ~~~-~i~~~ 169 (783)
+-+ .++-|
T Consensus 262 ~di~vigfD 270 (327)
T PRK10339 262 QDISLISVN 270 (327)
T ss_pred CceEEEeeC
Confidence 433 34444
No 214
>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=91.36 E-value=1.6 Score=47.82 Aligned_cols=91 Identities=10% Similarity=0.027 Sum_probs=68.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+|.+++.++.....+-.+..+.+.+.|++.|+++.....+..+++.+++...+...++.++|+||-.+.+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 91 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGG 91 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44577788889999998888655554557888999999999887544445666777788888889999999999977655
Q ss_pred h--hHHHHHHHHH
Q 036525 144 S--LGSRIFEKAN 154 (783)
Q Consensus 144 ~--~~~~~~~~a~ 154 (783)
. |+..++....
T Consensus 92 SviD~aK~ia~~~ 104 (370)
T cd08192 92 SALDLAKAVALMA 104 (370)
T ss_pred hHHHHHHHHHHHH
Confidence 4 6776665543
No 215
>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=91.07 E-value=1.6 Score=48.45 Aligned_cols=89 Identities=13% Similarity=0.040 Sum_probs=68.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.++.....+-.+..+.+.+.|++.|+++..-..+..+++.+.+...+..+++.++|+||-.+.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGG 90 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45577788889999999998766665567889999999999887654445566677788888888999999999988766
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 91 SviD~AKaia~ 101 (414)
T cd08190 91 SVIDTAKAANL 101 (414)
T ss_pred cHHHHHHHHHH
Confidence 5 56555543
No 216
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=91.05 E-value=1.8 Score=47.53 Aligned_cols=89 Identities=16% Similarity=0.142 Sum_probs=66.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+|.+++.++....-+-.+..+.+.+.|++.|+++.....+..+++.+++...+..+++.++|+||-.|.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 45577888889999998888655554557888999999999877544445556666778888888999999999977655
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 98 S~iD~aK~ia~ 108 (382)
T PRK10624 98 SPQDTCKAIGI 108 (382)
T ss_pred HHHHHHHHHHH
Confidence 4 66655543
No 217
>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=90.99 E-value=1.8 Score=47.49 Aligned_cols=92 Identities=11% Similarity=0.082 Sum_probs=69.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.+.++.+|.+++.+++....+..+..+.+.+.|++.|+++.....+..+++.+++...+..+++.++|+||..|.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45577788888989998888655554556788999999999877655455666777788888899999999999977655
Q ss_pred h--hHHHHHHHHHH
Q 036525 144 S--LGSRIFEKANE 155 (783)
Q Consensus 144 ~--~~~~~~~~a~~ 155 (783)
. |+..++.....
T Consensus 94 S~~D~aK~ia~~~~ 107 (374)
T cd08189 94 SVIDCAKAIAARAA 107 (374)
T ss_pred cHHHHHHHHHHHHh
Confidence 4 67766655443
No 218
>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=90.73 E-value=1.9 Score=47.21 Aligned_cols=90 Identities=11% Similarity=0.066 Sum_probs=68.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.++....-.-.+..+.+.+.|++.|+++.....+..+++.+++...+..+++.++|+||-.|.+
T Consensus 14 l~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 93 (376)
T cd08193 14 LARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGG 93 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 35577778888989998888655444557888999999999887654445566777788888999999999999988766
Q ss_pred h--hHHHHHHHH
Q 036525 144 S--LGSRIFEKA 153 (783)
Q Consensus 144 ~--~~~~~~~~a 153 (783)
. |+..++...
T Consensus 94 s~iD~aK~ia~~ 105 (376)
T cd08193 94 SSMDVAKLVAVL 105 (376)
T ss_pred hHHHHHHHHHHH
Confidence 5 666666544
No 219
>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=90.54 E-value=2 Score=46.96 Aligned_cols=91 Identities=13% Similarity=0.070 Sum_probs=68.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.+++....+-....+.+.+.|++.|+++.....+....+.+++...+..+++.++|+||..|.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 90 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGG 90 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45677788888999999888655544577888999999998877544445556677788889999999999999977665
Q ss_pred h--hHHHHHHHHH
Q 036525 144 S--LGSRIFEKAN 154 (783)
Q Consensus 144 ~--~~~~~~~~a~ 154 (783)
. |+.+++....
T Consensus 91 s~~D~AK~va~~~ 103 (370)
T cd08551 91 SVLDTAKAIALLA 103 (370)
T ss_pred hHHHHHHHHHHHH
Confidence 4 6666665443
No 220
>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=90.36 E-value=4.3 Score=42.91 Aligned_cols=146 Identities=7% Similarity=0.030 Sum_probs=84.4
Q ss_pred CCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCe-EEEEEEE
Q 036525 7 AQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWR-EAVPIYV 84 (783)
Q Consensus 7 ~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~-~vaii~~ 84 (783)
.+|.+|| -|..+.........+.+.++|+|......+ ..+....+..++...+..++++|...|-+ +++++..
T Consensus 53 ~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~-----~~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g 127 (302)
T TIGR02634 53 RGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN-----DADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGG 127 (302)
T ss_pred cCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC-----CCCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeC
Confidence 4676654 343333334555556778999999864321 11223345667778888889998777655 7888764
Q ss_pred eC--CcCCcchHHHHHHHhhC----CceEeEEEecCCCCChhHHHHHHHHHhc---cCceEEEEEcChhhHHHHHHHHHH
Q 036525 85 DN--QYGEAMIPSLTDALHAI----DTRVPYRSVISPLATDDQIEKELYKLFT---MQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 85 d~--~~G~~~~~~~~~~l~~~----g~~v~~~~~i~~~~~~~d~~~~l~~l~~---~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
+. .......+.+++.+++. ++.+.... ........+-...+.++.. ..+++|++. ....+.-+++.+++
T Consensus 128 ~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~~-~D~~A~g~~~al~~ 205 (302)
T TIGR02634 128 SPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQ-WVDGWLPENALRIMENALTANDNKVDAVVAS-NDATAGGAIQALTA 205 (302)
T ss_pred CCCCcchHHHHHHHHHHHhhhccCCCeEEecCc-CCCCCCHHHHHHHHHHHHHhCCCCccEEEEC-CCchHHHHHHHHHH
Confidence 32 22334467788888764 35543221 1111122233455555543 246776654 44446678889999
Q ss_pred cCcc
Q 036525 156 IGLM 159 (783)
Q Consensus 156 ~g~~ 159 (783)
.|+.
T Consensus 206 ~g~~ 209 (302)
T TIGR02634 206 QGLA 209 (302)
T ss_pred CCCC
Confidence 9973
No 221
>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=90.01 E-value=2.4 Score=46.57 Aligned_cols=90 Identities=12% Similarity=0.070 Sum_probs=66.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.+.++.+|.+++.+++...-.-.+..+.+.+.|++.|+++..-..+..+++.+++...+..+++.++|+||..+.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGG 96 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGG 96 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 45577788889999998888655444457888999999999887554445556666778888888999999999987765
Q ss_pred h--hHHHHHHHH
Q 036525 144 S--LGSRIFEKA 153 (783)
Q Consensus 144 ~--~~~~~~~~a 153 (783)
. |+.+.+...
T Consensus 97 SviD~aKaia~~ 108 (379)
T TIGR02638 97 SPIDTAKAIGII 108 (379)
T ss_pred HHHHHHHHHHHH
Confidence 4 566555443
No 222
>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=89.97 E-value=2.5 Score=46.33 Aligned_cols=89 Identities=15% Similarity=0.090 Sum_probs=68.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.++.+++.+++....+-.+..+.+.+.|++.|+++.....+..+++.+++...+..+++.++|+||-.+.+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGG 90 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44567778878889999998655554557888999999999887655556667777788888999999999999987765
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 91 S~~D~AKaia~ 101 (375)
T cd08194 91 SPIDTAKAIAV 101 (375)
T ss_pred hHHHHHHHHHH
Confidence 4 66665543
No 223
>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=89.74 E-value=5 Score=38.50 Aligned_cols=102 Identities=11% Similarity=0.003 Sum_probs=70.2
Q ss_pred hhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhC--CceEeEEEecCCCCChhHHHHHHHHHhccCceEEE
Q 036525 61 SSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI 138 (783)
Q Consensus 61 ~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~--g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii 138 (783)
......+.+.+...++ +++++....+. ++.+.+.+++. |+.++....-+ .+..+....+..|++++||+|+
T Consensus 34 ~dl~~~l~~~~~~~~~-~ifllG~~~~~----~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~ 106 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGK-RIFLLGGSEEV----LEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVF 106 (172)
T ss_pred HHHHHHHHHHHHHcCC-eEEEEeCCHHH----HHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEE
Confidence 3456666666666665 88888866644 55555566655 66666544322 2445778889999999999999
Q ss_pred EEcChhhHHHHHHHHHHcCccccceEEEEeCCcc
Q 036525 139 VHKLPSLGSRIFEKANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 139 ~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 172 (783)
+.+..+....++...++.. ... +|+..++.-
T Consensus 107 vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~~~ 137 (172)
T PF03808_consen 107 VGLGAPKQERWIARHRQRL--PAG-VIIGVGGAF 137 (172)
T ss_pred EECCCCHHHHHHHHHHHHC--CCC-EEEEECchh
Confidence 9999998888888877654 222 677776544
No 224
>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=89.22 E-value=1.6 Score=47.68 Aligned_cols=89 Identities=11% Similarity=0.087 Sum_probs=70.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+.+.+.++.+| ++.+|+.......+..+.+.+.|++.|+++.....+...++..++...+..+++.++|+||..|.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 44667777787 8888886644444578999999999999997777677778888999999999999999999988776
Q ss_pred --hHHHHHHHHHH
Q 036525 145 --LGSRIFEKANE 155 (783)
Q Consensus 145 --~~~~~~~~a~~ 155 (783)
|+.+.+.....
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 67777766655
No 225
>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=88.59 E-value=5 Score=42.26 Aligned_cols=130 Identities=10% Similarity=0.126 Sum_probs=74.7
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCC----CCC--CeEEEeecCchhhHHHHHHHHHHc--CCe
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTS----IRS--PYFFRGALNDSSQVGAITAIIKAF--GWR 77 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~----~~~--~~~fr~~p~~~~~~~ai~~~l~~~--gw~ 77 (783)
+++++.|+-- ++..+.++....... +|++-.+.++|.-.. ... +++.-+. +........++++++ +.+
T Consensus 57 ~~~~DlIi~~-gt~aa~~~~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k 132 (294)
T PF04392_consen 57 AQKPDLIIAI-GTPAAQALAKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAK 132 (294)
T ss_dssp CTS-SEEEEE-SHHHHHHHHHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--
T ss_pred cCCCCEEEEe-CcHHHHHHHHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCC
Confidence 3466666533 344566666655444 999988876665432 122 3554444 444556667777664 579
Q ss_pred EEEEEEEeCCc-CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 78 EAVPIYVDNQY-GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 78 ~vaii~~d~~~-G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+++++|.+++- +....+.+++.+++.|+++..... + +..++...+..+. .+.|++++..+..
T Consensus 133 ~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v-~---~~~~~~~~~~~l~-~~~da~~~~~~~~ 195 (294)
T PF04392_consen 133 RIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPV-P---SSEDLEQALEALA-EKVDALYLLPDNL 195 (294)
T ss_dssp EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEE-S---SGGGHHHHHHHHC-TT-SEEEE-S-HH
T ss_pred EEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEec-C---cHhHHHHHHHHhh-ccCCEEEEECCcc
Confidence 99999976543 456788889999999999875543 2 3457888887774 5678888876543
No 226
>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=88.43 E-value=3.4 Score=45.37 Aligned_cols=89 Identities=8% Similarity=-0.015 Sum_probs=66.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
...+.++++.+| +++.||+.... ...+..+.+.+.|++.|+++..-..+.++++.+++...+..+++.++|+||-.|.
T Consensus 14 l~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGG 92 (380)
T cd08185 14 LNELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGG 92 (380)
T ss_pred HHHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 345677777788 89888885544 2567788999999999988765445566777778888888999999999997665
Q ss_pred hh--hHHHHHHHH
Q 036525 143 PS--LGSRIFEKA 153 (783)
Q Consensus 143 ~~--~~~~~~~~a 153 (783)
+. |+.+.+...
T Consensus 93 GS~iD~aK~ia~~ 105 (380)
T cd08185 93 GSSMDTAKAIAFM 105 (380)
T ss_pred ccHHHHHHHHHHH
Confidence 54 666666544
No 227
>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=88.12 E-value=4.2 Score=44.59 Aligned_cols=89 Identities=10% Similarity=0.026 Sum_probs=65.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.++......-.+..+.+.+.|++.|+.+.....+..+++..++...+..+++.++|+||..|.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 95 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGG 95 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45577778888989999888654444456788999999989877544445556666678888888999999999987766
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 96 sviD~AK~ia~ 106 (377)
T cd08188 96 SPIDCAKGIGI 106 (377)
T ss_pred hHHHHHHHHHH
Confidence 5 66655543
No 228
>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=87.79 E-value=3.8 Score=44.97 Aligned_cols=89 Identities=13% Similarity=0.097 Sum_probs=65.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.+.++.+|.+++.++.....+-....+.+.+.|++.|+++.....+..+++.+.+...+..+++.++|+||..+.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 95 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGG 95 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45577788888888888887544433367888999999999877554445556677778888888999999999987765
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+.+.+..
T Consensus 96 S~iD~aK~ia~ 106 (377)
T cd08176 96 SPHDCAKAIGI 106 (377)
T ss_pred HHHHHHHHHHH
Confidence 5 66665543
No 229
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=87.66 E-value=7.1 Score=41.90 Aligned_cols=147 Identities=8% Similarity=0.035 Sum_probs=85.0
Q ss_pred cCCeEEEE-ccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 6 NAQVRVML-GPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 6 ~~~V~aiI-Gp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
+.+|.+|| -+............+.+.++|+|...... ... +..+.+..++...+..++++|...|.++++++..
T Consensus 79 ~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~~---~~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~ 153 (330)
T PRK10355 79 NRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRMI---NNA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMG 153 (330)
T ss_pred HcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCCC---CCC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 34777765 34332222344455678899999985421 111 2223577788888999999998878888766543
Q ss_pred eC---CcCCcchHHHHHHHhhC---C-ceEeEEEecCCCCChhHHHHHHHHHh-c--cCceEEEEEcChhhHHHHHHHHH
Q 036525 85 DN---QYGEAMIPSLTDALHAI---D-TRVPYRSVISPLATDDQIEKELYKLF-T--MQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 85 d~---~~G~~~~~~~~~~l~~~---g-~~v~~~~~i~~~~~~~d~~~~l~~l~-~--~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
.. ..+....+.+++.+++. | +++....... ..+..+-...+.++. + ..+++|+. .+...+..+++.++
T Consensus 154 g~~~~~~~~~R~~gf~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~aI~~-~nD~~A~g~l~al~ 231 (330)
T PRK10355 154 GSPVDNNAKLFRAGQMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDAVVA-SNDATAGGAIQALS 231 (330)
T ss_pred CCCCCccHHHHHHHHHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHH
Confidence 22 23345577788888764 4 4432221111 111122233444443 2 34676554 45556667889999
Q ss_pred HcCcc
Q 036525 155 EIGLM 159 (783)
Q Consensus 155 ~~g~~ 159 (783)
+.|+.
T Consensus 232 ~~g~~ 236 (330)
T PRK10355 232 AQGLS 236 (330)
T ss_pred HCCCC
Confidence 99985
No 230
>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=87.65 E-value=4.6 Score=44.41 Aligned_cols=89 Identities=15% Similarity=0.054 Sum_probs=63.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+.+.++++.+| +++.+++....+..+..+.+.+.|++.|+++.....+.+..+..+....+...++.++|+||-.+.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS 90 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGS 90 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 45677788888 88888884444434778889999999998875444344344556677777788889999999877665
Q ss_pred --hHHHHHHHHH
Q 036525 145 --LGSRIFEKAN 154 (783)
Q Consensus 145 --~~~~~~~~a~ 154 (783)
|+..++....
T Consensus 91 ~iD~aK~ia~~~ 102 (386)
T cd08191 91 CIDLAKIAGLLL 102 (386)
T ss_pred HHHHHHHHHHHH
Confidence 6666665443
No 231
>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=87.64 E-value=4.6 Score=43.88 Aligned_cols=88 Identities=11% Similarity=0.047 Sum_probs=64.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcC-CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYG-EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G-~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.+.+.++++.+| +++.++.....+- .+..+.+.+.|++.|+++.....+..+++.+++...+..+++.++|+||..+.
T Consensus 14 l~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGG 92 (357)
T cd08181 14 VEKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGG 92 (357)
T ss_pred HHHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 344667778888 8888887544433 34668899999999988765444566677778888889999999999998876
Q ss_pred hh--hHHHHHHH
Q 036525 143 PS--LGSRIFEK 152 (783)
Q Consensus 143 ~~--~~~~~~~~ 152 (783)
+. |+.+.+..
T Consensus 93 GSviD~aK~ia~ 104 (357)
T cd08181 93 GSPLDAAKAIAV 104 (357)
T ss_pred chHHHHHHHHHH
Confidence 65 66665543
No 232
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=87.02 E-value=4.3 Score=42.25 Aligned_cols=97 Identities=14% Similarity=0.026 Sum_probs=78.6
Q ss_pred CCCCeEEEeecCchhhHHH----HHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHH
Q 036525 48 IRSPYFFRGALNDSSQVGA----ITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIE 123 (783)
Q Consensus 48 ~~~~~~fr~~p~~~~~~~a----i~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~ 123 (783)
+..+|-|-+.++....++. ++..++.+|.|++.++.+-+---....+...+.|++.|+++..-..+.+.++...+.
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~ 117 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVT 117 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHH
Confidence 3457777777877665444 455678899999999998777777888999999999999998777777788888999
Q ss_pred HHHHHHhccCceEEEEEcChh
Q 036525 124 KELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 124 ~~l~~l~~~~~dvii~~~~~~ 144 (783)
..+.-.|..+.|.++..+.+.
T Consensus 118 ~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHhcccceEEEEcCcc
Confidence 999999989999888776654
No 233
>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=86.72 E-value=5 Score=43.81 Aligned_cols=87 Identities=13% Similarity=0.152 Sum_probs=64.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+|.+++.+|+....+ ..+.+.+.+++.|+++.....+..+++.+.+...+..+++.++|+||..|.+
T Consensus 11 l~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 87 (367)
T cd08182 11 IAKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGG 87 (367)
T ss_pred HHHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCc
Confidence 3456777888898999988855544 5577888888888776554455556666778888888888999999977665
Q ss_pred h--hHHHHHHHH
Q 036525 144 S--LGSRIFEKA 153 (783)
Q Consensus 144 ~--~~~~~~~~a 153 (783)
. |+..++...
T Consensus 88 s~~D~aK~ia~~ 99 (367)
T cd08182 88 SVLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHHH
Confidence 4 677666554
No 234
>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=86.08 E-value=3.2 Score=45.06 Aligned_cols=86 Identities=13% Similarity=0.060 Sum_probs=64.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
..+.++++.++ +++.+++....+. ...+.+.+.|++.|+.+.+. .+..+++.+++...+..+++.++|+||..|.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 44667777776 8888888544443 78888999999999987644 455667777888888889999999999887665
Q ss_pred --hHHHHHHHH
Q 036525 145 --LGSRIFEKA 153 (783)
Q Consensus 145 --~~~~~~~~a 153 (783)
|+.+++...
T Consensus 89 ~iD~aK~ia~~ 99 (351)
T cd08170 89 TLDTAKAVADY 99 (351)
T ss_pred hhHHHHHHHHH
Confidence 666665443
No 235
>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=85.78 E-value=5.5 Score=42.81 Aligned_cols=100 Identities=15% Similarity=0.116 Sum_probs=68.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+.+.+.++.+|.+++.+++....+- ...+.+.+.+++. +++.....+..+.+.+++...+..+++.++|+||..|.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 89 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGS 89 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCch
Confidence 3466777788889999888544433 7778888889876 6654443344445667788888889989999999776654
Q ss_pred --hHHHHHHHHHHcCccccceEEEEeC
Q 036525 145 --LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 145 --~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
|...++......|+ .++-|-|.
T Consensus 90 ~~D~aK~ia~~~~~~~---p~i~iPTt 113 (332)
T cd07766 90 TLDTAKAVAALLNRGL---PIIIVPTT 113 (332)
T ss_pred HHHHHHHHHHHhcCCC---CEEEEeCC
Confidence 67767655544343 34445544
No 236
>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=85.03 E-value=6.5 Score=43.19 Aligned_cols=90 Identities=14% Similarity=0.107 Sum_probs=65.0
Q ss_pred HHHHHHHHHHc---CCeEEEEEEEeCCcC-CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEE
Q 036525 64 VGAITAIIKAF---GWREAVPIYVDNQYG-EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIV 139 (783)
Q Consensus 64 ~~ai~~~l~~~---gw~~vaii~~d~~~G-~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~ 139 (783)
.+.+.++++.+ |.+++.++.....+. .+..+.+.+.|++.|+++..-..+.++++.+++...+..+++.++|+||.
T Consensus 11 ~~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 90 (383)
T cd08186 11 IEKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIA 90 (383)
T ss_pred HHHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence 34566777776 778988888544333 35578899999999987755444556667778888888999999999997
Q ss_pred EcChh--hHHHHHHHH
Q 036525 140 HKLPS--LGSRIFEKA 153 (783)
Q Consensus 140 ~~~~~--~~~~~~~~a 153 (783)
.+.+. |...++...
T Consensus 91 iGGGS~iD~aK~ia~~ 106 (383)
T cd08186 91 IGGGSPIDSAKSAAIL 106 (383)
T ss_pred eCCccHHHHHHHHHHH
Confidence 76554 666666544
No 237
>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=84.95 E-value=5.2 Score=43.97 Aligned_cols=88 Identities=8% Similarity=0.103 Sum_probs=64.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCc-CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQY-GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~-G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.+.+.+.++.++ +++.++.....+ ..+..+.+.+.|++.|+++.....+..+++.++....+..+++.++|+||-.+.
T Consensus 17 ~~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 95 (382)
T cd08187 17 ESELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGG 95 (382)
T ss_pred HHHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 345677777775 888888754333 245678899999999988765545556667778888889999999999998776
Q ss_pred hh--hHHHHHHH
Q 036525 143 PS--LGSRIFEK 152 (783)
Q Consensus 143 ~~--~~~~~~~~ 152 (783)
+. |+.+++..
T Consensus 96 GS~iD~aK~ia~ 107 (382)
T cd08187 96 GSVIDSAKAIAA 107 (382)
T ss_pred hHHHHHHHHHHh
Confidence 55 66665544
No 238
>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=83.96 E-value=16 Score=37.95 Aligned_cols=154 Identities=10% Similarity=0.039 Sum_probs=77.4
Q ss_pred cCCeEEEEc-cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCC-eEEEeecCchhhHHHHHHHHHHc--CCeEEEE
Q 036525 6 NAQVRVMLG-PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSP-YFFRGALNDSSQVGAITAIIKAF--GWREAVP 81 (783)
Q Consensus 6 ~~~V~aiIG-p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~-~~fr~~p~~~~~~~ai~~~l~~~--gw~~vai 81 (783)
+.+|.+||= +............+.+.++|+|........ .....+ .+-.+..++...+..++++|... |.+++++
T Consensus 54 ~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~ 132 (280)
T cd06315 54 ALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVI 132 (280)
T ss_pred HcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEE
Confidence 346766652 222121122333455689999998653111 000011 13346667777788899998766 8899998
Q ss_pred EEEeCC-cCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEEEEcChhhHHHHHHHHHHc
Q 036525 82 IYVDNQ-YGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 82 i~~d~~-~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+..... ......+.+...++.. +..+..................+.++.+. .+++|+. .+...+..+++.+++.
T Consensus 133 i~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~D~~A~g~~~~l~~~ 211 (280)
T cd06315 133 FTDSRFSIAKAKANAMKEIIEACKGCTVLSIEDVPISRTATRMPALTARLLQRYGDKWTHSLA-INDLYFDYMAPPLASA 211 (280)
T ss_pred EeCCCCccHHHHHHHHHHHHHhCCCCEEEEecccCcchhhhhhHHHHHHHHHhcCcccceecc-cchhhhHHhHHHHHHh
Confidence 863321 1111123444444443 33332111111111111111344444332 3676544 4555677788899999
Q ss_pred Ccccc
Q 036525 157 GLMNK 161 (783)
Q Consensus 157 g~~~~ 161 (783)
|+..+
T Consensus 212 g~~~p 216 (280)
T cd06315 212 GRKAD 216 (280)
T ss_pred cccCC
Confidence 98644
No 239
>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=83.87 E-value=2.3 Score=43.53 Aligned_cols=78 Identities=17% Similarity=0.186 Sum_probs=59.4
Q ss_pred EEEEE--EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc-ChhhHHHHHHHHHH
Q 036525 79 AVPIY--VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK-LPSLGSRIFEKANE 155 (783)
Q Consensus 79 vaii~--~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~-~~~~~~~~~~~a~~ 155 (783)
|++|. .++.|.....+.+++++++.|.++... .+...+.......+.++.+.++|.|++.. .......+++++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~ 78 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKA 78 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhh
Confidence 35555 356688889999999999999998765 22333445666788888889999888874 44567899999999
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 996
No 240
>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=83.02 E-value=5.7 Score=42.99 Aligned_cols=88 Identities=10% Similarity=0.055 Sum_probs=62.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+| +|+.+|+....+ ....+.+.+.+++.|+++.....+..+++.+++.......++.++|+||-.|.+
T Consensus 11 ~~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGG 88 (345)
T cd08171 11 YKKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGG 88 (345)
T ss_pred HHHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCc
Confidence 345667777777 888888754444 445778888899889877544445556666677777788888899999987766
Q ss_pred h--hHHHHHHHH
Q 036525 144 S--LGSRIFEKA 153 (783)
Q Consensus 144 ~--~~~~~~~~a 153 (783)
. |+..++...
T Consensus 89 s~~D~aK~ia~~ 100 (345)
T cd08171 89 KAIDTVKVLADK 100 (345)
T ss_pred HHHHHHHHHHHH
Confidence 5 666666544
No 241
>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=82.49 E-value=18 Score=34.68 Aligned_cols=101 Identities=10% Similarity=-0.010 Sum_probs=66.1
Q ss_pred chhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhC--CceEeEEEecCCCCChhHHHHHHHHHhccCceEE
Q 036525 60 DSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVF 137 (783)
Q Consensus 60 ~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~--g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvi 137 (783)
.......+.+.+...+ .+|+++....+. ++.+.+.+++. |+.++....-+. ...+-...+.+|++++||+|
T Consensus 31 g~dl~~~ll~~~~~~~-~~v~llG~~~~~----~~~~~~~l~~~yp~l~i~g~~~g~~--~~~~~~~i~~~I~~~~pdiv 103 (171)
T cd06533 31 GSDLMPALLELAAQKG-LRVFLLGAKPEV----LEKAAERLRARYPGLKIVGYHHGYF--GPEEEEEIIERINASGADIL 103 (171)
T ss_pred cHHHHHHHHHHHHHcC-CeEEEECCCHHH----HHHHHHHHHHHCCCcEEEEecCCCC--ChhhHHHHHHHHHHcCCCEE
Confidence 3445666666666555 588888766554 44444445543 677776433222 22344457899999999999
Q ss_pred EEEcChhhHHHHHHHHHHcCccccceEEEEeCC
Q 036525 138 IVHKLPSLGSRIFEKANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 138 i~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 170 (783)
++.+..+....++...++.. +.-++++.++
T Consensus 104 ~vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 104 FVGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EEECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 99999998888888877754 3334666554
No 242
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=81.78 E-value=6.8 Score=42.78 Aligned_cols=86 Identities=13% Similarity=0.105 Sum_probs=62.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.+. .+..+++.+.+...+..+++.++|+||..|.+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGG 94 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGECSDNEIDRLVAIAEENGCDVVIGIGGG 94 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEecCh
Confidence 445677788888 888888854444 347788888899999887544 35556666678888888888999999987766
Q ss_pred h--hHHHHHHH
Q 036525 144 S--LGSRIFEK 152 (783)
Q Consensus 144 ~--~~~~~~~~ 152 (783)
. |+..++..
T Consensus 95 sv~D~aK~iA~ 105 (366)
T PRK09423 95 KTLDTAKAVAD 105 (366)
T ss_pred HHHHHHHHHHH
Confidence 5 66666653
No 243
>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=81.73 E-value=10 Score=41.54 Aligned_cols=84 Identities=13% Similarity=0.095 Sum_probs=61.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
..+.++++.++ +++.|+...... ..+.+.+.|++.|+++.... +..+++.+++...+..+++.++|+||..|.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 45667777775 888888754443 67788899999998875443 34466666788888888999999999887665
Q ss_pred --hHHHHHHHH
Q 036525 145 --LGSRIFEKA 153 (783)
Q Consensus 145 --~~~~~~~~a 153 (783)
|+..++...
T Consensus 87 ~~D~aK~ia~~ 97 (374)
T cd08183 87 VIDAGKAIAAL 97 (374)
T ss_pred HHHHHHHHHHH
Confidence 666666543
No 244
>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=80.11 E-value=23 Score=36.05 Aligned_cols=125 Identities=8% Similarity=0.007 Sum_probs=80.6
Q ss_pred HHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHH--cCCeEEEEEEEeC-CcCCcchHHHHHHH
Q 036525 24 IIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKA--FGWREAVPIYVDN-QYGEAMIPSLTDAL 100 (783)
Q Consensus 24 v~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~gw~~vaii~~d~-~~G~~~~~~~~~~l 100 (783)
.....++.++|++......+. ....+ .+..++..-+..+++++.. .|.+++++|.... ..++...+++++++
T Consensus 68 ~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~~~R~~gf~~~l 142 (247)
T cd06276 68 YFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIPKEIKRGFERFC 142 (247)
T ss_pred HHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhHHHHHHHHHHHH
Confidence 334455578898887643211 11122 3566777778888888888 8999999997433 45567789999999
Q ss_pred hhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCccccceEEEE
Q 036525 101 HAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGLMNKGCVWIM 167 (783)
Q Consensus 101 ~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 167 (783)
++.|+++.. .. ... + ... .++++ |++.+...+..+++.+++.|+..++-+=|.
T Consensus 143 ~~~g~~~~~---~~-~~~--~------~~~-~~~~a-i~~~~d~~A~g~~~~l~~~g~~iP~disvi 195 (247)
T cd06276 143 KDYNIETEI---IN-DYE--N------REI-EKGDL-YIILSDTDLVFLIKKARESGLLLGKDIGII 195 (247)
T ss_pred HHcCCCccc---cc-ccc--h------hhc-cCCcE-EEEeCHHHHHHHHHHHHHcCCcCCceeEEE
Confidence 999986532 11 001 1 000 23465 455577778889999999998766544333
No 245
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=79.78 E-value=47 Score=32.43 Aligned_cols=134 Identities=14% Similarity=0.069 Sum_probs=85.5
Q ss_pred HHHHHcccCCCCccEEeeccCCCCCCCC-CCCe--E-----EEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcc
Q 036525 21 TNFIIQPGNKSQVPILSFSATSPSLTSI-RSPY--F-----FRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAM 92 (783)
Q Consensus 21 ~~av~~~~~~~~vP~Is~~a~s~~ls~~-~~~~--~-----fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~ 92 (783)
+...+......++=+|.|++++.++... +|.- - -.-.| -..-+.|.++-|+.+|.+++.++. .|-...
T Consensus 56 t~~aAl~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~-vvTts~Avv~aL~al~a~ri~vlT---PY~~ev 131 (238)
T COG3473 56 TERAALELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVP-VVTTSTAVVEALNALGAQRISVLT---PYIDEV 131 (238)
T ss_pred HHHHHHhcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCc-eeechHHHHHHHHhhCcceEEEec---cchhhh
Confidence 3445556677889999999998887531 2210 0 00001 111245677778999999999997 566678
Q ss_pred hHHHHHHHhhCCceEeEEEecCCCCC-------hhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH-cCc
Q 036525 93 IPSLTDALHAIDTRVPYRSVISPLAT-------DDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE-IGL 158 (783)
Q Consensus 93 ~~~~~~~l~~~g~~v~~~~~i~~~~~-------~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~-~g~ 158 (783)
-+...+.++++|.+|+.....-...+ ....-....++..-++|.|++.|..-....++....+ .|.
T Consensus 132 n~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 132 NQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred hhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHHHHhCC
Confidence 88888999999999987654322111 0112233345567789999998877666666655543 553
No 246
>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=79.66 E-value=17 Score=34.99 Aligned_cols=99 Identities=10% Similarity=0.013 Sum_probs=63.6
Q ss_pred hhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhC--CceEeEEEecCCCCChhHHHHHHHHHhccCceEEE
Q 036525 61 SSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI 138 (783)
Q Consensus 61 ~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~--g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii 138 (783)
......+.+.....+ .+|.++....+ .++.+.+.+++. |++++.. -.+- +..+-...+.+|++++||+++
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~--~g~f-~~~~~~~i~~~I~~s~~dil~ 105 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA--FGPL-EPEERKAALAKIARSGAGIVF 105 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE--CCCC-ChHHHHHHHHHHHHcCCCEEE
Confidence 345566666666666 47888875554 455555555543 6777764 2222 233556788999999999999
Q ss_pred EEcChhhHHHHHHHHHHcCccccceEEEEeCC
Q 036525 139 VHKLPSLGSRIFEKANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 139 ~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 170 (783)
+.+..+-...++.+.++.- +.-++|+.++
T Consensus 106 VglG~PkQE~~~~~~~~~~---~~~v~~gvGg 134 (177)
T TIGR00696 106 VGLGCPKQEIWMRNHRHLK---PDAVMIGVGG 134 (177)
T ss_pred EEcCCcHhHHHHHHhHHhC---CCcEEEEece
Confidence 9999888888887665432 2234555443
No 247
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=79.53 E-value=9.5 Score=38.96 Aligned_cols=100 Identities=17% Similarity=0.164 Sum_probs=59.2
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh
Q 036525 66 AITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL 145 (783)
Q Consensus 66 ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~ 145 (783)
.+..+++.++.+++.++...+.| ....+.+.+.++..|+++..........+..+......+++..++|+|+-.+.+.-
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~i 87 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGTI 87 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcHH
Confidence 35677877888999988866654 34567888899999998874332222334445556666676778999999888874
Q ss_pred HHHHHHHHHHcCccccceEEEEeC
Q 036525 146 GSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 146 ~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
.-.-=..|.+.| .+|+-+-|.
T Consensus 88 ~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 88 IDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp HHHHHHHHHHHT-----EEEEES-
T ss_pred HHHHHHHHHhcC---CCEEEeccc
Confidence 444444556666 355556554
No 248
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=79.06 E-value=2.6 Score=46.51 Aligned_cols=88 Identities=14% Similarity=0.232 Sum_probs=66.8
Q ss_pred hHHHHHHHHHHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhcc--cccccccchhhhHHHHHHHHHHHHHHh
Q 036525 420 DLWVTSGCFFIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFSQ--RERVISNLARFVVIVWCFVVLILTQSY 497 (783)
Q Consensus 420 ~vWl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~Y 497 (783)
+.|..-++.+++.++++++.|+....+-........-+++|+...++...| ...|.++.+|++..++-++++-+.+.=
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 468888888999999999999874332222223468899999999998766 457899999999998888887777766
Q ss_pred hhhhhheeec
Q 036525 498 TASLTSLLTV 507 (783)
Q Consensus 498 ta~L~s~Lt~ 507 (783)
.+-|-|-+++
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 6667666654
No 249
>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=77.19 E-value=7.7 Score=39.39 Aligned_cols=76 Identities=13% Similarity=0.118 Sum_probs=56.0
Q ss_pred EEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
++++.++ +.|.....+.+++++++.|+.+.... .+.+.......+.++.+.++|+|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCN---SDEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEc---CCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5666644 88999999999999999998876532 2222334566777888889999998776655555 7778888
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 85
No 250
>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=77.14 E-value=12 Score=41.41 Aligned_cols=79 Identities=14% Similarity=0.051 Sum_probs=59.1
Q ss_pred cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh--hHHHHHH
Q 036525 74 FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS--LGSRIFE 151 (783)
Q Consensus 74 ~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~--~~~~~~~ 151 (783)
.+.+++.+|+...-...+..+.+.+.|++.|+++.....+..+++.+.+...+..+++.++|+||..+.+. |+..++.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~iA 98 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIMW 98 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 46689888875444445578889999999998876554566667777888888889999999999776554 6666665
Q ss_pred H
Q 036525 152 K 152 (783)
Q Consensus 152 ~ 152 (783)
.
T Consensus 99 ~ 99 (398)
T cd08178 99 L 99 (398)
T ss_pred H
Confidence 4
No 251
>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=76.43 E-value=10 Score=38.90 Aligned_cols=78 Identities=8% Similarity=0.143 Sum_probs=55.3
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC-hhhHHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL-PSLGSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~-~~~~~~~~~~a~ 154 (783)
+|+++.. ++.|.......+.+++++.|.++.... ...+.......+..+.+.++|.||+... .......++.+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~ 77 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYD---AGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRAL 77 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEEC---CCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHH
Confidence 3566665 577888899999999999999886532 1222334456777777789999998653 334566778888
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 78 ~~~i 81 (273)
T cd06305 78 DAGI 81 (273)
T ss_pred HcCC
Confidence 8885
No 252
>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=76.10 E-value=8.3 Score=39.09 Aligned_cols=78 Identities=14% Similarity=0.133 Sum_probs=55.6
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
+++++.+. +.|+......+++++++.|+++..... ..+.+.....+.++.+.++|.+|+..........+..+.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~ 77 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARK 77 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhh
Confidence 36777754 778899999999999999988765432 2233456677788888899998887655444335677777
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 78 ~~i 80 (264)
T cd01537 78 AGI 80 (264)
T ss_pred cCC
Confidence 774
No 253
>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=75.64 E-value=13 Score=40.16 Aligned_cols=85 Identities=15% Similarity=0.105 Sum_probs=58.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+| +++.+++....+ +...+.+.+.|++.|+.+.... +....+.+.+...+..+++.++|+||..+.+
T Consensus 11 ~~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGG 87 (349)
T cd08550 11 IKEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGG 87 (349)
T ss_pred HHHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCc
Confidence 345677788888 788777743333 3556788888988887653332 4434455677777888888999999977765
Q ss_pred h--hHHHHHH
Q 036525 144 S--LGSRIFE 151 (783)
Q Consensus 144 ~--~~~~~~~ 151 (783)
. |...++.
T Consensus 88 s~~D~aK~ia 97 (349)
T cd08550 88 KTLDTAKAVA 97 (349)
T ss_pred HHHHHHHHHH
Confidence 5 6666654
No 254
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=75.03 E-value=20 Score=36.42 Aligned_cols=89 Identities=8% Similarity=0.020 Sum_probs=57.8
Q ss_pred hhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEE
Q 036525 61 SSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIV 139 (783)
Q Consensus 61 ~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~ 139 (783)
......+.+.....| .+|+++..+.+- ++.+.+.+++ .|+.++.... .+- +.++-...+.+|.+++||++++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~~~v----~~~a~~~l~~~y~l~i~g~~~-Gyf-~~~e~~~i~~~I~~s~~dil~V 163 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGKPEV----LAQTEAKLRTQWNVNIVGSQD-GYF-TPEQRQALFERIHASGAKIVTV 163 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCCHHH----HHHHHHHHHHHhCCEEEEEeC-CCC-CHHHHHHHHHHHHhcCCCEEEE
Confidence 344555555555566 578888765543 4444444433 3777765432 222 2335567889999999999999
Q ss_pred EcChhhHHHHHHHHHHc
Q 036525 140 HKLPSLGSRIFEKANEI 156 (783)
Q Consensus 140 ~~~~~~~~~~~~~a~~~ 156 (783)
.+..+-...++...++.
T Consensus 164 glG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 164 AMGSPKQEIFMRDCRLV 180 (243)
T ss_pred ECCCcHHHHHHHHHHHh
Confidence 99988888888776554
No 255
>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=73.79 E-value=16 Score=37.58 Aligned_cols=85 Identities=16% Similarity=0.187 Sum_probs=56.8
Q ss_pred EEEEEEE----eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 78 EAVPIYV----DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~----d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
||+++++ |..|.....+.+++..++.|+++.+.+..+ +..++...+.++.+.++|+||..+. .....+.+.|
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~---~~~~~~~~i~~~~~~g~dlIi~~g~-~~~~~~~~vA 76 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVP---EGADAERVLRELAAQGYDLIFGTSF-GFMDAALKVA 76 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCC---chHhHHHHHHHHHHcCCCEEEECch-hhhHHHHHHH
Confidence 4777874 455666667888888888899887776432 3458999999999899999988432 2333444555
Q ss_pred HHcCccccceEEEEeCC
Q 036525 154 NEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 154 ~~~g~~~~~~~~i~~~~ 170 (783)
++. +.-.|+..++
T Consensus 77 ~~~----p~~~F~~~d~ 89 (258)
T cd06353 77 KEY----PDVKFEHCSG 89 (258)
T ss_pred HHC----CCCEEEECCC
Confidence 554 3334555443
No 256
>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=73.70 E-value=15 Score=39.72 Aligned_cols=87 Identities=16% Similarity=0.182 Sum_probs=57.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCC--CChhHHHHHHHHHhccCceEEEEEc
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPL--ATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~--~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
.+.+.++++.+|.+++.++.....+-. ..+.+.+.+++.|+++......... .+.+.+...+..+++ ++|+||..+
T Consensus 11 l~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIG 88 (348)
T cd08175 11 LERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVG 88 (348)
T ss_pred HHHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEEC
Confidence 345677788888889888874333322 2577888999999876443333332 455566677777777 999999876
Q ss_pred Chh--hHHHHHHH
Q 036525 142 LPS--LGSRIFEK 152 (783)
Q Consensus 142 ~~~--~~~~~~~~ 152 (783)
.+. |+..++..
T Consensus 89 GGs~~D~aK~vA~ 101 (348)
T cd08175 89 SGTINDITKYVSY 101 (348)
T ss_pred CcHHHHHHHHHHH
Confidence 654 66666653
No 257
>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=73.30 E-value=11 Score=38.64 Aligned_cols=78 Identities=8% Similarity=0.110 Sum_probs=56.4
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a 153 (783)
+|+++.++ +.|...+...+.+++++ .|.++..... ..+.......+.++.+.++|.+++..... ....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 46777754 77888899999999999 8988866432 22334556777888888999998865443 345677888
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 88775
No 258
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=72.69 E-value=41 Score=38.17 Aligned_cols=138 Identities=12% Similarity=0.165 Sum_probs=79.9
Q ss_pred EEccCCchhHHHHHcccC-CCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHH---HHcCCeEEEEEEEeCC
Q 036525 12 MLGPEDSMPTNFIIQPGN-KSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAII---KAFGWREAVPIYVDNQ 87 (783)
Q Consensus 12 iIGp~~S~~~~av~~~~~-~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l---~~~gw~~vaii~~d~~ 87 (783)
|+||++.....++..+.+ ...+=+|.++ +.-++|..+ .+.+..|+ +...-++|.|+| .+.
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~----------HG~i~r~~~-----~~~l~~Y~~~~~~~~~~kv~IvY-~S~ 261 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATS----------HGVVWRDNP-----TQIVELYLKWAADYQEDRITIFY-DTM 261 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECC----------CCceEeCCH-----HHHHHHHHHHhhccCcCcEEEEE-ECC
Confidence 677777665566666554 2344455543 223466321 33344444 332457899888 455
Q ss_pred cC--CcchHHHHHHHhhC--CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh------hhHHHHHHHHHHcC
Q 036525 88 YG--EAMIPSLTDALHAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP------SLGSRIFEKANEIG 157 (783)
Q Consensus 88 ~G--~~~~~~~~~~l~~~--g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~------~~~~~~~~~a~~~g 157 (783)
|| +.+++.+.+.+++. |++|.... +. .. +....+..+ ..+|.|++.++. +....++.......
T Consensus 262 ~GnTe~mA~~ia~gl~~~g~gv~v~~~~-v~--~~--~~~~i~~~~--~~ad~vilGspT~~~~~~p~~~~fl~~l~~~~ 334 (479)
T PRK05452 262 SNNTRMMADAIAQGIAEVDPRVAVKIFN-VA--RS--DKNEILTNV--FRSKGVLVGSSTMNNVMMPKIAGLLEEITGLR 334 (479)
T ss_pred ccHHHHHHHHHHHHHHhhCCCceEEEEE-CC--CC--CHHHHHhHH--hhCCEEEEECCccCCcchHHHHHHHHHhhccC
Confidence 55 67788888999876 44544332 22 12 333334444 356777776644 24666777777777
Q ss_pred ccccceEEEEeCCcc
Q 036525 158 LMNKGCVWIMTDGMT 172 (783)
Q Consensus 158 ~~~~~~~~i~~~~~~ 172 (783)
+..+....+++.+|.
T Consensus 335 l~gK~~~vFGSygw~ 349 (479)
T PRK05452 335 FRNKRASAFGSHGWS 349 (479)
T ss_pred cCCCEEEEEECCCcC
Confidence 666666677787775
No 259
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=72.63 E-value=37 Score=29.83 Aligned_cols=84 Identities=15% Similarity=0.148 Sum_probs=44.2
Q ss_pred HHHHcCCeEEEEEEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHH
Q 036525 70 IIKAFGWREAVPIYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSR 148 (783)
Q Consensus 70 ~l~~~gw~~vaii~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~ 148 (783)
-++..|.+.|.-+-.|.+ -++...+.+.+.+++.|+..+..-+.....+..++......+.+..--|++-|.++..+..
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~ 101 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASA 101 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHH
Confidence 355689999988887755 4566777788999999999866544333444455555544455443345555556665555
Q ss_pred HHHHH
Q 036525 149 IFEKA 153 (783)
Q Consensus 149 ~~~~a 153 (783)
+...+
T Consensus 102 l~~l~ 106 (110)
T PF04273_consen 102 LWALA 106 (110)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 54433
No 260
>TIGR00035 asp_race aspartate racemase.
Probab=72.60 E-value=8.2 Score=39.01 Aligned_cols=41 Identities=7% Similarity=-0.012 Sum_probs=24.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEe
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVP 108 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~ 108 (783)
++.++.++..|.++|+++...... ....+++.+++.|++++
T Consensus 106 ~~~~~~~~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 106 EETAEAVKEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHHHHHHHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 344445555678888888644322 23446777777786653
No 261
>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=72.48 E-value=12 Score=38.45 Aligned_cols=79 Identities=10% Similarity=0.085 Sum_probs=55.4
Q ss_pred EEEEEEE---eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHH
Q 036525 78 EAVPIYV---DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~---d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a 153 (783)
||+++.. ++.|.....+.+.+++++.|..+..... ...+.......+.++...++|.+++.....+ ....++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP--ETFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC--CCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 4677774 3578889999999999999988865432 1113334556777888889999888764433 45567788
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
++.|+
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 88774
No 262
>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=72.28 E-value=17 Score=39.85 Aligned_cols=81 Identities=10% Similarity=0.005 Sum_probs=57.7
Q ss_pred HHcCCeEEEEEEEeCCcC-CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh--hHHH
Q 036525 72 KAFGWREAVPIYVDNQYG-EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS--LGSR 148 (783)
Q Consensus 72 ~~~gw~~vaii~~d~~~G-~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~--~~~~ 148 (783)
..++.+++.++.....+- .+..+.+.+.|++.|+++..-..+..+++.+.+...+..+++.++|+||..|.+. |+.+
T Consensus 19 ~~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK 98 (375)
T cd08179 19 KTLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAK 98 (375)
T ss_pred HHhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHH
Confidence 334457888887543332 3566888999999998876544455567777788888999999999999877665 6666
Q ss_pred HHHH
Q 036525 149 IFEK 152 (783)
Q Consensus 149 ~~~~ 152 (783)
.+..
T Consensus 99 ~ia~ 102 (375)
T cd08179 99 AMWI 102 (375)
T ss_pred HHHH
Confidence 6543
No 263
>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=71.88 E-value=38 Score=36.76 Aligned_cols=101 Identities=11% Similarity=-0.013 Sum_probs=65.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEE--ecCCCCChhHHHHHHHHHhccCce---EEEE
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRS--VISPLATDDQIEKELYKLFTMQTR---VFIV 139 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~--~i~~~~~~~d~~~~l~~l~~~~~d---vii~ 139 (783)
..+.++++.++.+++.+++..+.+ ....+.+.+.+++.|.++.... ....+.+.+.+...+..+++.++| +||.
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIA 90 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVA 90 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 345667777788898888865544 3466788899998887653222 122233445677888888888888 8887
Q ss_pred EcChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 140 HKLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 140 ~~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
.+.+. |+..++......| ..++.|-|.
T Consensus 91 vGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 91 LGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred ECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 76554 6776665544344 345555554
No 264
>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=71.54 E-value=12 Score=38.76 Aligned_cols=81 Identities=15% Similarity=0.137 Sum_probs=53.6
Q ss_pred EEEEEEEe---CCcCCcchHHHHHHHhhCCceEeEEEecCCC-CChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 78 EAVPIYVD---NQYGEAMIPSLTDALHAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~d---~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~-~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
|+++|..+ ++|.....+.+.+++++.|..+......+.. .+.......+..+.+.++|.||+..........++.+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 47788864 4677888999999999999877654321111 1223445667788889999998875433334556666
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.+.
T Consensus 81 ~~~~~ 85 (280)
T cd06303 81 LASGK 85 (280)
T ss_pred HhCCC
Confidence 66653
No 265
>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=71.10 E-value=20 Score=36.70 Aligned_cols=75 Identities=12% Similarity=0.033 Sum_probs=51.7
Q ss_pred EEEEEEe-----CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 79 AVPIYVD-----NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 79 vaii~~d-----~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
|+++.++ +.|...+.+.+++++++.|.++..... . .........+..+.+.++|.|++.....+. .+..+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-S--DEDEEEFELPSFLEDGKVDGIILLGGISTE--YIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-C--CChHHHHHHHHHHHHCCCCEEEEeCCCChH--HHHHH
Confidence 6677766 778888999999999999988765432 2 222233445566777899999987644332 37777
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 77774
No 266
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=70.31 E-value=29 Score=37.71 Aligned_cols=93 Identities=10% Similarity=0.011 Sum_probs=61.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEE--ecCCCCChhHHHHHHHHHhccCc---eEEE
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRS--VISPLATDDQIEKELYKLFTMQT---RVFI 138 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~--~i~~~~~~~d~~~~l~~l~~~~~---dvii 138 (783)
.+.+.++++.++.+++.+++.... .....+.+.+.+++.|+.+.... ....+.+.+.+...+..+++.++ |+||
T Consensus 19 ~~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~II 97 (358)
T PRK00002 19 LSELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLI 97 (358)
T ss_pred HHHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEE
Confidence 345667777778889988885444 44677888888998888765321 22233455677777788877665 9888
Q ss_pred EEcChh--hHHHHHHHHHHcC
Q 036525 139 VHKLPS--LGSRIFEKANEIG 157 (783)
Q Consensus 139 ~~~~~~--~~~~~~~~a~~~g 157 (783)
..|.+. |+..++......|
T Consensus 98 avGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 98 ALGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EEcCcHHHHHHHHHHHHhcCC
Confidence 877654 6776665444445
No 267
>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=70.18 E-value=32 Score=37.19 Aligned_cols=136 Identities=13% Similarity=0.103 Sum_probs=74.8
Q ss_pred cccccCCeEEEEccCCchhHHHHHc------------------------ccCCCCccEEeeccCCCCCCCCCCCeEEEee
Q 036525 2 DLLNNAQVRVMLGPEDSMPTNFIIQ------------------------PGNKSQVPILSFSATSPSLTSIRSPYFFRGA 57 (783)
Q Consensus 2 ~Li~~~~V~aiIGp~~S~~~~av~~------------------------~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~ 57 (783)
+|++..+|+.|+|.+-++.++++.. .+.+.+||+|+-++.
T Consensus 17 ~l~~~g~~d~l~~d~LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg---------------- 80 (362)
T PF07287_consen 17 RLARGGDVDYLVGDYLAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGG---------------- 80 (362)
T ss_pred HHHhcCCCCEEEEecHHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCC----------------
Confidence 5677778999999988887766655 333445665553321
Q ss_pred cCchhhHHHHHHHHHHcCC-eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecC-CC-----CC----hhHHHHHH
Q 036525 58 LNDSSQVGAITAIIKAFGW-REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVIS-PL-----AT----DDQIEKEL 126 (783)
Q Consensus 58 p~~~~~~~ai~~~l~~~gw-~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~-~~-----~~----~~d~~~~l 126 (783)
.+....++.+.+++++.|. -||++|+.|+. .+.+.+.++ .|..+..-..-+ .. .. .--..+++
T Consensus 81 ~np~~~a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~-~g~~~~~l~~~~~l~~~~~~~~~a~aylGa~pI~ 154 (362)
T PF07287_consen 81 LNPAGCADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLA-EGETIRPLDTGPPLSEWDDRIVSANAYLGAEPIV 154 (362)
T ss_pred CCHHHHHHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHh-CCCCCccCCCCCCcchhccccceEEEecChHHHH
Confidence 1333467778888888776 48999986654 444444443 221111000000 00 00 00123444
Q ss_pred HHHhccCceEEEEEcChhhHHHHHHH-HHHcCcccc
Q 036525 127 YKLFTMQTRVFIVHKLPSLGSRIFEK-ANEIGLMNK 161 (783)
Q Consensus 127 ~~l~~~~~dvii~~~~~~~~~~~~~~-a~~~g~~~~ 161 (783)
..| +.++|||| ++...|.+.++-- +.+.|+...
T Consensus 155 ~AL-~~GADIVI-~GR~~D~Al~~a~~~~~~GW~~~ 188 (362)
T PF07287_consen 155 EAL-EAGADIVI-TGRVADPALFAAPAIHEFGWSED 188 (362)
T ss_pred HHH-HcCCCEEE-eCcccchHHHHhHHHHHcCCCcc
Confidence 444 47899655 5666666666644 446776443
No 268
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=70.03 E-value=20 Score=38.55 Aligned_cols=82 Identities=10% Similarity=0.011 Sum_probs=59.1
Q ss_pred CCeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHH
Q 036525 75 GWREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFE 151 (783)
Q Consensus 75 gw~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~ 151 (783)
.-.+++++.. ++.|.......+++++++.|.++.... +...+...-...+..+.+.++|.|++.... ......++
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~ 99 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALK 99 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHH
Confidence 3457888874 678888899999999999998886532 222222233466778888999999886533 34578889
Q ss_pred HHHHcCc
Q 036525 152 KANEIGL 158 (783)
Q Consensus 152 ~a~~~g~ 158 (783)
++++.|+
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 9999885
No 269
>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=69.93 E-value=17 Score=39.08 Aligned_cols=99 Identities=11% Similarity=-0.002 Sum_probs=65.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.+.+.++++.+|.+++.++.....+-. ..+.+.+.+++.+..+ + ..+...++.+.+...+..+++.++|.||..|.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 87 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMHTPVEVTEAAVAAAREAGADGIVAIGGG 87 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 455778888999999988875444433 6667778887765432 2 233445566677888888888999999987765
Q ss_pred h--hHHHHHHHHHHcCccccceEEEEeCC
Q 036525 144 S--LGSRIFEKANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 144 ~--~~~~~~~~a~~~g~~~~~~~~i~~~~ 170 (783)
. |...++.... + ..++-|-|..
T Consensus 88 s~iD~aK~ia~~~--~---~p~i~IPTta 111 (337)
T cd08177 88 STIDLAKAIALRT--G---LPIIAIPTTL 111 (337)
T ss_pred HHHHHHHHHHHHh--c---CCEEEEcCCc
Confidence 5 6666665433 3 3444555443
No 270
>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=69.80 E-value=15 Score=37.80 Aligned_cols=80 Identities=5% Similarity=0.027 Sum_probs=54.2
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
++++++. ++.|...+...+.+++++.|.++.....-. ..+..+....+..+.+.++|.|++.....+....++++++
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 4677775 367888889999999999998886542111 1122344467777788899999887654433225677877
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 775
No 271
>cd08184 Fe-ADH3 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 is belonged to the iron-containing 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 or zinc ions. Members of this family are mainly found in bacteria.
Probab=69.53 E-value=40 Score=36.40 Aligned_cols=86 Identities=10% Similarity=0.008 Sum_probs=57.6
Q ss_pred HHHHHHHHHHcCC--eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc---CceEEE
Q 036525 64 VGAITAIIKAFGW--REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFI 138 (783)
Q Consensus 64 ~~ai~~~l~~~gw--~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~---~~dvii 138 (783)
...+.++++.+|. +++.++. |...-+ +.+.+.|++.|+++.....+..+++.+++...+...++. ++|+||
T Consensus 11 l~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~II 86 (347)
T cd08184 11 FDQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIV 86 (347)
T ss_pred HHHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEE
Confidence 3456677777763 5566656 332211 567788888888765544566677777788888888877 899999
Q ss_pred EEcChh--hHHHHHHHH
Q 036525 139 VHKLPS--LGSRIFEKA 153 (783)
Q Consensus 139 ~~~~~~--~~~~~~~~a 153 (783)
-.+.+. |+.+.+...
T Consensus 87 aiGGGS~iD~AKaia~~ 103 (347)
T cd08184 87 GIGGGSTLDVAKAVSNM 103 (347)
T ss_pred EeCCcHHHHHHHHHHHH
Confidence 877654 666665443
No 272
>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=68.12 E-value=18 Score=36.34 Aligned_cols=78 Identities=13% Similarity=0.091 Sum_probs=55.8
Q ss_pred EEEEEEEe---CCcCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHH
Q 036525 78 EAVPIYVD---NQYGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEK 152 (783)
Q Consensus 78 ~vaii~~d---~~~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~ 152 (783)
+|++|.++ +.|+....+.+.+++++ .++++..... ..+..+....+.++...++|+|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 46777753 57888889999999999 7777654432 2233356677788888899999988776655557777
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+.+.|+
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777774
No 273
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.94 E-value=1.7e+02 Score=31.73 Aligned_cols=105 Identities=9% Similarity=0.118 Sum_probs=65.0
Q ss_pred hhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 62 SQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 62 ~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
..+..+|-+.++.||+ ++++. -|.|-.+..+.++..+.+.++.+... +.......-...-+.+.|+.+.|+||+.+
T Consensus 116 Ttc~KlA~y~kkkG~K-~~Lvc-aDTFRagAfDQLkqnA~k~~iP~ygs--yte~dpv~ia~egv~~fKke~fdvIIvDT 191 (483)
T KOG0780|consen 116 TTCTKLAYYYKKKGYK-VALVC-ADTFRAGAFDQLKQNATKARVPFYGS--YTEADPVKIASEGVDRFKKENFDVIIVDT 191 (483)
T ss_pred eeHHHHHHHHHhcCCc-eeEEe-ecccccchHHHHHHHhHhhCCeeEec--ccccchHHHHHHHHHHHHhcCCcEEEEeC
Confidence 3466678888888984 56666 45677778888888888888776542 11111111234567788999999999998
Q ss_pred Chh--hHHHHHHHHHHc-CccccceEEEEeCC
Q 036525 142 LPS--LGSRIFEKANEI-GLMNKGCVWIMTDG 170 (783)
Q Consensus 142 ~~~--~~~~~~~~a~~~-g~~~~~~~~i~~~~ 170 (783)
++. .-..++.++++. .-..|.-+.++-|+
T Consensus 192 SGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 192 SGRHKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred CCchhhhHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 886 233444444431 11235555555443
No 274
>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=67.72 E-value=19 Score=36.65 Aligned_cols=77 Identities=12% Similarity=0.126 Sum_probs=53.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
++++.. .+.|.....+.+++++++.|.++.... ...+...-...+.++.+.++|.|++..........++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~---~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLAN---SGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEec---CCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 566664 467778889999999999998875331 122223445677788888999988876544444477788887
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 75
No 275
>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=67.62 E-value=20 Score=36.48 Aligned_cols=78 Identities=14% Similarity=0.122 Sum_probs=54.1
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~ 154 (783)
+|++|.++ +.|...+.+.+.+++++.|+++..... ..+.......+.++...++|.||+..... .....+..++
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDA---QNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46778864 678888999999999999988765432 22333445677777778999888865443 3344667777
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 7663
No 276
>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=67.27 E-value=21 Score=38.42 Aligned_cols=81 Identities=15% Similarity=0.126 Sum_probs=55.2
Q ss_pred HHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh--hHHH
Q 036525 71 IKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS--LGSR 148 (783)
Q Consensus 71 l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~--~~~~ 148 (783)
++.++.+++.+++...-+-.+..+.+.+.+++. +.+..-..+..+++.+.+...+..+++.++|+||..|.+. |+..
T Consensus 17 l~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~aK 95 (332)
T cd08180 17 LKELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAAK 95 (332)
T ss_pred HHHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHHHHHH
Confidence 344556898888854444445778888888876 5554333344556666778888889999999999776554 6666
Q ss_pred HHHH
Q 036525 149 IFEK 152 (783)
Q Consensus 149 ~~~~ 152 (783)
.+..
T Consensus 96 a~a~ 99 (332)
T cd08180 96 AIIY 99 (332)
T ss_pred HHHH
Confidence 5533
No 277
>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=66.63 E-value=22 Score=36.17 Aligned_cols=77 Identities=6% Similarity=0.015 Sum_probs=53.3
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|.....+.+.+++++.|..+..... ..+.......+.++.+.++|.||+..........+..+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 456664 4567788899999999999998866432 22233455677788888999998864333333477888888
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 75
No 278
>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=65.99 E-value=1e+02 Score=31.63 Aligned_cols=153 Identities=10% Similarity=0.077 Sum_probs=87.5
Q ss_pred ccccCCeEEEEccC-CchhHHHHHcccCC-CCccEEeeccCC-CCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEE
Q 036525 3 LLNNAQVRVMLGPE-DSMPTNFIIQPGNK-SQVPILSFSATS-PSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREA 79 (783)
Q Consensus 3 Li~~~~V~aiIGp~-~S~~~~av~~~~~~-~~vP~Is~~a~s-~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~v 79 (783)
|..+..|-|||=.. -++.+.|.-.+=++ -.|..|+..... |.+-.+..... ..+.....+..++..++.+|.+++
T Consensus 57 lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~--~~~D~~~~G~~i~~~Ak~mGAktF 134 (275)
T PF12683_consen 57 LADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIV--VNPDEISRGYTIVWAAKKMGAKTF 134 (275)
T ss_dssp GGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEE--EE--HHHHHHHHHHHHHHTT-S-E
T ss_pred hccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeE--eccchhhccHHHHHHHHHcCCceE
Confidence 45567788877432 35566666666433 467777654321 11111112333 446777889999999999999999
Q ss_pred EEEEEeCCcCCcc----hHHHHHHHhhCCceEeEEEecCCCCChhHHH--------HHHHHHhccCceEEEEEcChhhHH
Q 036525 80 VPIYVDNQYGEAM----IPSLTDALHAIDTRVPYRSVISPLATDDQIE--------KELYKLFTMQTRVFIVHKLPSLGS 147 (783)
Q Consensus 80 aii~~d~~~G~~~----~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~--------~~l~~l~~~~~dvii~~~~~~~~~ 147 (783)
+-+.-.-+-.... .+.++++.++.|++.+....=.+ .++.+.. ..-.++++-+.++-+.+++.....
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 VHYSFPRHMSYELLARRRDIMEEACKDLGIKFVEVTAPDP-TSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTE 213 (275)
T ss_dssp EEEEETTGGGSHHHHHHHHHHHHHHHHCT--EEEEEE----SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHH
T ss_pred EEEechhhcchHHHHHHHHHHHHHHHHcCCeEEEEeCCCC-CCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccH
Confidence 8886554444333 46677788899999987654222 1222211 223567788999999999999999
Q ss_pred HHHHHHHHcCc
Q 036525 148 RIFEKANEIGL 158 (783)
Q Consensus 148 ~~~~~a~~~g~ 158 (783)
.+++++.+.|.
T Consensus 214 pllk~~~~~g~ 224 (275)
T PF12683_consen 214 PLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHH--
T ss_pred HHHHHHHHcCC
Confidence 99999999873
No 279
>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=65.28 E-value=25 Score=36.63 Aligned_cols=77 Identities=12% Similarity=0.108 Sum_probs=55.6
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC-hhhHHHHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL-PSLGSRIFEKANE 155 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~-~~~~~~~~~~a~~ 155 (783)
|+++.. ++.|...+.+.+.+++++.|.++..... ..+.......+..+.+.++|.|++... .......++++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---NGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 567775 4677888899999999999998865432 223334557777888889998888754 3345677888888
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 774
No 280
>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=64.52 E-value=25 Score=35.88 Aligned_cols=77 Identities=6% Similarity=0.056 Sum_probs=53.6
Q ss_pred EEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHHH
Q 036525 79 AVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKANE 155 (783)
Q Consensus 79 vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~~ 155 (783)
|+++..+ +.|...+.+.+.+++++.|.++.... ...+.......+.++.+.++|.+++..... .....+.++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~---~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI---ANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec---CCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4556644 67788889999999999998885432 122233455677778888999998865433 34566788888
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 774
No 281
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=64.23 E-value=86 Score=33.03 Aligned_cols=73 Identities=12% Similarity=0.074 Sum_probs=53.8
Q ss_pred ecCC-hhHHHHHHhcCcccCceeEEecchhHHHHHHhhcC----CceEEecccccccceEEEecCCC--CChHHHHHHHH
Q 036525 536 VYNS-PEDCHELFQKGSANGGIAAALDEIPYMKLLIGQHC----SKYTMIEPKFKTAGFGFVFPLHS--PLVHDVSKAIL 608 (783)
Q Consensus 536 ~~~~-~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~c----~~l~~v~~~~~~~~~~~~~~k~s--pl~~~in~~il 608 (783)
.+.. .+.++.++.+|+ +|+................ ++++++...-...+..++++++- .+++++-.+++
T Consensus 181 ~~~G~H~~a~~aV~nG~----vDva~~~~~~~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~ 256 (299)
T COG3221 181 IFSGGHDAAVLAVANGQ----VDVAAVNSSARGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFL 256 (299)
T ss_pred eccChHHHHHHHHHcCC----ceEEeccHHHHhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHH
Confidence 4444 888999999999 8988877766665554432 36778765545555567888874 49999999999
Q ss_pred hhhc
Q 036525 609 NVTE 612 (783)
Q Consensus 609 ~l~e 612 (783)
.+.+
T Consensus 257 ~l~~ 260 (299)
T COG3221 257 DLAK 260 (299)
T ss_pred hcCc
Confidence 9987
No 282
>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=64.08 E-value=23 Score=36.61 Aligned_cols=78 Identities=10% Similarity=0.048 Sum_probs=53.9
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~ 154 (783)
+|+++.. .+.|.......+.+++++.|.++.... ...+...-...+..+...++|.|++.....+ ....++.+.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~ 77 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTD---AQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAK 77 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEc---CCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHH
Confidence 3566664 467778889999999999998875432 1222334456778888899999998654332 345678888
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 78 ~~~i 81 (282)
T cd06318 78 AAGV 81 (282)
T ss_pred HCCC
Confidence 8774
No 283
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=64.03 E-value=1.1e+02 Score=33.27 Aligned_cols=141 Identities=14% Similarity=0.131 Sum_probs=83.1
Q ss_pred EEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcC--
Q 036525 12 MLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYG-- 89 (783)
Q Consensus 12 iIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G-- 89 (783)
++||..-....+ .......+|=+|.|+ .-=+||-.| .....+..++.+..--++|.++| ++.||
T Consensus 195 lm~p~~~~v~~~-l~~~~~l~i~~IaP~----------HG~i~~~~~--~~i~~~Y~~W~~~~~~~~V~l~Y-~smyg~T 260 (388)
T COG0426 195 LMAPNARLVLWA-LKKIKLLKIEMIAPS----------HGPIWRGNP--KEIVEAYRDWAEGQPKGKVDLIY-DSMYGNT 260 (388)
T ss_pred hhcccHHHHHHH-HhhhcccCccEEEcC----------CCceeeCCH--HHHHHHHHHHHccCCcceEEEEE-ecccCCH
Confidence 455544333333 333444677777764 233566544 34555666666655445899999 44554
Q ss_pred CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh------hhHHHHHHHHHHcCccccce
Q 036525 90 EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP------SLGSRIFEKANEIGLMNKGC 163 (783)
Q Consensus 90 ~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~------~~~~~~~~~a~~~g~~~~~~ 163 (783)
...++.+.+-+.+.|..|..... . ..|....+..+.+ ++.+++.+++ +....++-.........+.-
T Consensus 261 ~~ma~aiaegl~~~gv~v~~~~~---~--~~~~~eI~~~i~~--a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~~ 333 (388)
T COG0426 261 EKMAQAIAEGLMKEGVDVEVINL---E--DADPSEIVEEILD--AKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKLA 333 (388)
T ss_pred HHHHHHHHHHhhhcCCceEEEEc---c--cCCHHHHHHHHhh--cceEEEecCcccCCCCchHHHHHHHHHhccCcCceE
Confidence 66788899999999998865432 1 2255555555543 4556665543 23555555555555444555
Q ss_pred EEEEeCCccc
Q 036525 164 VWIMTDGMTN 173 (783)
Q Consensus 164 ~~i~~~~~~~ 173 (783)
..+++.+|..
T Consensus 334 ~vfgS~GW~g 343 (388)
T COG0426 334 GVFGSYGWSG 343 (388)
T ss_pred EEEeccCCCC
Confidence 6677778874
No 284
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=63.49 E-value=35 Score=36.51 Aligned_cols=79 Identities=16% Similarity=0.134 Sum_probs=55.7
Q ss_pred eEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHH
Q 036525 77 REAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 77 ~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
+.++++.. ++.|...+...+.+++++.|..+.... ...+.+.....+..+.+.++|.||+..........+..++
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~ 141 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ---GGKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAE 141 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe---CCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHh
Confidence 47888886 367888889999999999998765432 1223334566777888889999998754433456677777
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 142 ~~~i 145 (342)
T PRK10014 142 EKGI 145 (342)
T ss_pred hcCC
Confidence 7774
No 285
>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=63.26 E-value=36 Score=36.62 Aligned_cols=83 Identities=11% Similarity=-0.035 Sum_probs=57.4
Q ss_pred HHHHHHHHH-cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 65 GAITAIIKA-FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 65 ~ai~~~l~~-~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
+.+.++++. .+.+++.++..... .+...+.+.+.+++.| .+... +..+.+.+.+...+..+++.++|+||..+.+
T Consensus 13 ~~l~~~l~~~~~~~~~liv~d~~~-~~~~~~~v~~~l~~~~-~~~~~--~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGG 88 (339)
T cd08173 13 EKIPNVLRDLLLGGRVLVVTGPTT-KSIAGKKVEALLEDEG-EVDVV--IVEDATYEEVEKVESSARDIGADFVIGVGGG 88 (339)
T ss_pred HHHHHHHHHhCCCCeEEEEECCch-HHHHHHHHHHHHHhcC-CeEEE--EeCCCCHHHHHHHHHHhhhcCCCEEEEeCCc
Confidence 345666763 56789888884443 3366778888898888 54332 3345566778888888888899999987765
Q ss_pred h--hHHHHHH
Q 036525 144 S--LGSRIFE 151 (783)
Q Consensus 144 ~--~~~~~~~ 151 (783)
. |...++.
T Consensus 89 s~~D~aK~~a 98 (339)
T cd08173 89 RVIDVAKVAA 98 (339)
T ss_pred hHHHHHHHHH
Confidence 4 6666664
No 286
>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=63.11 E-value=43 Score=34.43 Aligned_cols=141 Identities=10% Similarity=0.019 Sum_probs=71.2
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCC-CccEEeeccCCCCCCCCCCCeEEEeecCch---hhHHHHHHHHHHcCCeEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKS-QVPILSFSATSPSLTSIRSPYFFRGALNDS---SQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~-~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~---~~~~ai~~~l~~~gw~~vai 81 (783)
++++.+||+. +.....++..++.++ ++.++...+. .. .|++........ ..+-.++..+. +-.+|++
T Consensus 55 ~~g~dlIi~~-g~~~~~~~~~vA~~~p~~~F~~~d~~---~~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~ 125 (258)
T cd06353 55 AQGYDLIFGT-SFGFMDAALKVAKEYPDVKFEHCSGY---KT---APNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGY 125 (258)
T ss_pred HcCCCEEEEC-chhhhHHHHHHHHHCCCCEEEECCCC---CC---CCCeeeEechhhHHHHHHHHHHHHhh--cCCcEEE
Confidence 3488899984 444555666666554 3444443221 11 133322222211 22222333332 3358999
Q ss_pred EEEeC-CcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHH-HHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 82 IYVDN-QYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQI-EKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 82 i~~d~-~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~-~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
|...+ .........|.+-++..+-.+.....+.-+-.+.+- ......+.+.++|+|+..+ .....+.++++.|.
T Consensus 126 I~g~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 126 VAAFPIPEVVRGINAFALGARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKGV 201 (258)
T ss_pred EcCcccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhCC
Confidence 98432 222344566666665443333222222211122222 3444566678999888887 23457788888773
No 287
>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=62.72 E-value=25 Score=36.11 Aligned_cols=80 Identities=9% Similarity=0.079 Sum_probs=53.7
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~ 154 (783)
||++|.++ +.|-..+...+++++++.|.++.....-. ..+.......+.++...++|.+|+.....+ ....+..+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~ 79 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAK 79 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHH
Confidence 57777754 66778889999999999998876543111 112234456677777889998888654333 245677777
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 7664
No 288
>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=62.29 E-value=34 Score=34.81 Aligned_cols=76 Identities=16% Similarity=0.102 Sum_probs=54.1
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|-..+...+.+++++.|..+..... ..+.......+..+.+.++|.||+....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---DENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566765 4678788899999999999988765432 2223345567788888999998887644333 347888887
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 74
No 289
>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=61.99 E-value=36 Score=36.52 Aligned_cols=85 Identities=13% Similarity=0.078 Sum_probs=56.0
Q ss_pred HHHHHHHHHcCC-eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEE-ecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 65 GAITAIIKAFGW-REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRS-VISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 65 ~ai~~~l~~~gw-~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~-~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
..+.++++.++. +++.+|.....+-. ..+.+.+.|++.|+++.... ....+++.+.+...+..+++ ++|+||..+.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 446667777775 78888875544333 24778888988887654321 22233455667777778877 9999998776
Q ss_pred hh--hHHHHHH
Q 036525 143 PS--LGSRIFE 151 (783)
Q Consensus 143 ~~--~~~~~~~ 151 (783)
+. |+..++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 54 6666665
No 290
>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=61.73 E-value=70 Score=34.51 Aligned_cols=101 Identities=6% Similarity=-0.020 Sum_probs=62.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccC---ceEEEEE
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQ---TRVFIVH 140 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~---~dvii~~ 140 (783)
..+.++++.++.+++.++.+..-+ +...+.+.+.+++ .++++..-.......+.+.+...+..+++.+ .|+||..
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIai 90 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEYKTFETVTRILERAIALGANRRTAIVAV 90 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 445667777788888888754433 3567778888876 5665533222333445556777777777544 8999877
Q ss_pred cChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 141 KLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 141 ~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
+.+. |...++......|+ .++-|-|.
T Consensus 91 GGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 91 GGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred CCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 6654 66666655544453 44445454
No 291
>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=61.42 E-value=34 Score=34.99 Aligned_cols=77 Identities=10% Similarity=0.044 Sum_probs=53.2
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|-..+...+.+++++.|..+..... ..+.+.-...+..+.+.+.|.|++.....+...+++++++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 566664 4677788899999999999998765432 12223455677778888999888865443445567777776
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 64
No 292
>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=61.31 E-value=39 Score=34.94 Aligned_cols=79 Identities=11% Similarity=0.085 Sum_probs=54.7
Q ss_pred eEEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHH
Q 036525 77 REAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKA 153 (783)
Q Consensus 77 ~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a 153 (783)
|+|+++..+ +.|-..+.+.+.+++++.|..+.... ...+.+.....+..+.+.++|.||+.....+ ....++.+
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~---~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~ 77 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILD---GRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELA 77 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEEC---CCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence 467888754 66777889999999999998876542 1223334557788888899999998754333 24555667
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 77664
No 293
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=60.77 E-value=14 Score=45.16 Aligned_cols=53 Identities=17% Similarity=0.268 Sum_probs=45.1
Q ss_pred cchhHHHHHHHhhhcc--cccccccchhhhHHHHHHHHHHHHHHhhhhhhheeec
Q 036525 455 VGTSFWFSFSTMVFSQ--RERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTV 507 (783)
Q Consensus 455 ~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~ 507 (783)
...++|+++.++...| ...|.+...|++.++|+++++++.++..+++++++..
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 4458999999998766 3368999999999999999999999999999987643
No 294
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=60.37 E-value=44 Score=35.45 Aligned_cols=80 Identities=14% Similarity=0.047 Sum_probs=53.0
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
-+.|+++.. ++.|...+...+.+++++.|..+..... ......-...+..+.+.++|.||+..........++++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 137 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS---DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRL 137 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHH
Confidence 357888875 3567778889999999999988865432 11222334566677788999988865432223456677
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 77774
No 295
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=60.28 E-value=57 Score=32.53 Aligned_cols=75 Identities=8% Similarity=0.034 Sum_probs=57.1
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc--ChhhHHHHHHHH
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK--LPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~--~~~~~~~~~~~a 153 (783)
-.++++|.+..+- .+...+.++..+..+.+...-|+..+..++...-.+|++.++|+|++.| +....+.+++++
T Consensus 125 ~~~vGVivP~~eQ----~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~ 200 (221)
T PF07302_consen 125 GHQVGVIVPLPEQ----IAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRA 200 (221)
T ss_pred CCeEEEEecCHHH----HHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHH
Confidence 3799999977643 4445566777777787777767766777899999999999999999976 455677777666
Q ss_pred H
Q 036525 154 N 154 (783)
Q Consensus 154 ~ 154 (783)
.
T Consensus 201 ~ 201 (221)
T PF07302_consen 201 L 201 (221)
T ss_pred h
Confidence 3
No 296
>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=60.21 E-value=31 Score=34.55 Aligned_cols=93 Identities=13% Similarity=0.125 Sum_probs=61.8
Q ss_pred ecCchhhHHHHHHHHHH-cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCce
Q 036525 57 ALNDSSQVGAITAIIKA-FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTR 135 (783)
Q Consensus 57 ~p~~~~~~~ai~~~l~~-~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~d 135 (783)
.|.....++.+++.+.. ..-++|.++. |....+.+.+.|++.|.+|.....|.. .....-......+...+.|
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~-----g~~~~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~ 170 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILR-----GEGGRPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEID 170 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEE-----SSSSCHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTS
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEc-----CCCccHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCC
Confidence 56556667888888874 4447877766 445577889999999999987777664 2222333444556666777
Q ss_pred EEEEEcChhhHHHHHHHHHHc
Q 036525 136 VFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 136 vii~~~~~~~~~~~~~~a~~~ 156 (783)
+|+ +.++..+..+++...+.
T Consensus 171 ~v~-ftS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 171 AVV-FTSPSAVRAFLELLKKN 190 (231)
T ss_dssp EEE-ESSHHHHHHHHHHSSGH
T ss_pred EEE-ECCHHHHHHHHHHhHhh
Confidence 654 45667777777776653
No 297
>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=60.11 E-value=34 Score=35.82 Aligned_cols=78 Identities=14% Similarity=0.087 Sum_probs=54.0
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKANE 155 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~~ 155 (783)
|+++.. ++.|-..+...+.+++++.|.++.... +...+.......+..+.+.++|.||+..... .....++++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~--~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVG--PTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEEC--CCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 555553 567778889999999999998875321 1222333556777777788999988865433 34677788888
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 775
No 298
>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=60.06 E-value=33 Score=34.96 Aligned_cols=78 Identities=14% Similarity=0.092 Sum_probs=51.6
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|...+...+.+++++.|.++..... . ..........+..+.+.+.|.|++..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~-~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPC-D-SGSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeC-C-CCchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 566664 4778899999999999999988765432 1 11212344555567778899888764433334566777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 74
No 299
>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=59.65 E-value=41 Score=34.52 Aligned_cols=77 Identities=13% Similarity=0.047 Sum_probs=50.4
Q ss_pred CeEEEEEEE---------eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhH
Q 036525 76 WREAVPIYV---------DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLG 146 (783)
Q Consensus 76 w~~vaii~~---------d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~ 146 (783)
.+.|++|.+ ++.|.....+.+.+++++.|..+..... +.. +.......+.+.++|.|++......
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~---~~~--~~~~~~~~l~~~~~dgiii~~~~~~- 76 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV---SSP--DRDWLARYLASGRADGVILIGQHDQ- 76 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC---Cch--hHHHHHHHHHhCCCCEEEEeCCCCC-
Confidence 467888885 3446777888899999999988765421 111 2333444556678998888654322
Q ss_pred HHHHHHHHHcCc
Q 036525 147 SRIFEKANEIGL 158 (783)
Q Consensus 147 ~~~~~~a~~~g~ 158 (783)
...++.+.+.|.
T Consensus 77 ~~~~~~~~~~~i 88 (275)
T cd06295 77 DPLPERLAETGL 88 (275)
T ss_pred hHHHHHHHhCCC
Confidence 244677877775
No 300
>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=59.61 E-value=28 Score=36.04 Aligned_cols=77 Identities=13% Similarity=0.071 Sum_probs=54.1
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a~ 154 (783)
+|++|.. .+.|.....+.+.+++++.|..+.... .. +.......+.++.+.++|.||+.... ......++++.
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~ 76 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKID---VP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAK 76 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEcc---CC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHH
Confidence 3566664 356778889999999999998875432 22 23344567777888999988886543 34566788888
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 77 ~~~i 80 (289)
T cd01540 77 AYNM 80 (289)
T ss_pred hCCC
Confidence 8875
No 301
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=59.53 E-value=46 Score=36.04 Aligned_cols=84 Identities=14% Similarity=0.030 Sum_probs=58.0
Q ss_pred HHHHHHHHHHcCC-eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGW-REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw-~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
...+.++++.++. +++.+|.....+- ...+.+.+.+++.| .+.. .+....+.+.+...+..+++.++|+||..+.
T Consensus 21 l~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~--~~~~~~t~~~v~~~~~~~~~~~~d~IIaiGG 96 (350)
T PRK00843 21 LDDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEV--VIVDEATMEEVEKVEEKAKDVNAGFLIGVGG 96 (350)
T ss_pred HHHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeE--EeCCCCCHHHHHHHHHHhhccCCCEEEEeCC
Confidence 3456677777775 7888887555443 24567888888887 5432 2344566667888888888889999997766
Q ss_pred hh--hHHHHHH
Q 036525 143 PS--LGSRIFE 151 (783)
Q Consensus 143 ~~--~~~~~~~ 151 (783)
+. |...++.
T Consensus 97 Gsv~D~ak~vA 107 (350)
T PRK00843 97 GKVIDVAKLAA 107 (350)
T ss_pred chHHHHHHHHH
Confidence 54 6666664
No 302
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=59.51 E-value=52 Score=33.97 Aligned_cols=98 Identities=13% Similarity=0.072 Sum_probs=70.7
Q ss_pred CCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHH
Q 036525 50 SPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKL 129 (783)
Q Consensus 50 ~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l 129 (783)
.+++.+-.. ++..+++..++.+.+|.+.+.++.+.+ -.+.+.+.|+..|.+-+..+.-- .+.++. -.+.
T Consensus 161 GD~vIQNga-nS~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel---~~~~~~--k~~~ 229 (354)
T KOG0025|consen 161 GDSVIQNGA-NSGVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEEL---RDRKMK--KFKG 229 (354)
T ss_pred CCeeeecCc-ccHHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHh---cchhhh--hhhc
Confidence 457777765 467799999999999999999998544 47899999999998776544211 111221 1222
Q ss_pred hccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 130 FTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 130 ~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
...+++.-+-|..+..+..+.+.+.+-|.
T Consensus 230 ~~~~prLalNcVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 230 DNPRPRLALNCVGGKSATEIARYLERGGT 258 (354)
T ss_pred cCCCceEEEeccCchhHHHHHHHHhcCce
Confidence 45677888888888888899988887663
No 303
>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=59.48 E-value=29 Score=36.17 Aligned_cols=79 Identities=10% Similarity=0.181 Sum_probs=53.2
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~a~ 154 (783)
||++|.. ++.|-..+...+.+++++.|.++.... ....+.......+..+.+.++|.|++..... .....++++.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~ 78 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVA 78 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHH
Confidence 4666664 345667788899999999998875321 1122333445667777788999888864433 2467788888
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 8885
No 304
>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=59.05 E-value=69 Score=33.91 Aligned_cols=146 Identities=10% Similarity=0.090 Sum_probs=75.3
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCC-CccEEeeccCCCCCCCCCCCeEEEeecCch---hhHHHHHHHHHHcCCeEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKS-QVPILSFSATSPSLTSIRSPYFFRGALNDS---SQVGAITAIIKAFGWREAV 80 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~-~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~---~~~~ai~~~l~~~gw~~va 80 (783)
.+++...||++ ++....++..++.++ ++-++...+..... .+++........ ..+-.+|.++.+ -.+++
T Consensus 58 ~~~g~dlIi~~-g~~~~~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tk--t~~vg 130 (306)
T PF02608_consen 58 ADQGYDLIIGH-GFEYSDALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLAALMTK--TGKVG 130 (306)
T ss_dssp HHTT-SEEEEE-SGGGHHHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHS--STEEE
T ss_pred HHcCCCEEEEc-cHHHHHHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHHHHHhc--cCccc
Confidence 34688888875 445566777777776 56555554332211 134444444322 233334444333 34777
Q ss_pred EEE----EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHH-HHHHHHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 81 PIY----VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIE-KELYKLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 81 ii~----~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~-~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
.+. .+...-......|..-++..+-.+.....+.-+-.+.+-. ..-..+...++|||+..+. ....-++.+|++
T Consensus 131 ~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e 209 (306)
T PF02608_consen 131 FIGDIGGMDIPPVNRFINGFIAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKE 209 (306)
T ss_dssp EEEEEES--SCTTHHHHHHHHHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHH
T ss_pred ccccccCCCcHhHHHHHHHHHHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHH
Confidence 777 3444445566677777766544443333332223333333 3335566799999988554 445667888888
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|.
T Consensus 210 ~g~ 212 (306)
T PF02608_consen 210 AGV 212 (306)
T ss_dssp HTH
T ss_pred cCC
Confidence 884
No 305
>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=59.03 E-value=38 Score=35.87 Aligned_cols=87 Identities=18% Similarity=0.275 Sum_probs=60.0
Q ss_pred eEEEEEE----EeCCcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHH
Q 036525 77 REAVPIY----VDNQYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFE 151 (783)
Q Consensus 77 ~~vaii~----~d~~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~ 151 (783)
++++++. .|..|.+...+.+.+..++. |+++...+..+. +..++...+.++.+.+.|+||+++..- ...+..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~--~~~~~~~~~~~~~~~g~dlIi~~g~~~-~~~~~~ 78 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPE--TDADYEEAIRQLADQGYDLIIGHGFEY-SDALQE 78 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S---TCHHHHHHHHHHHHTT-SEEEEESGGG-HHHHHH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCc--cHHHHHHHHHHHHHcCCCEEEEccHHH-HHHHHH
Confidence 4666666 46677788888999999999 999888776442 356899999999999999999976543 334444
Q ss_pred HHHHcCccccceEEEEeCC
Q 036525 152 KANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~~ 170 (783)
.|++. |+-.|+..++
T Consensus 79 vA~~y----Pd~~F~~~d~ 93 (306)
T PF02608_consen 79 VAKEY----PDTKFIIIDG 93 (306)
T ss_dssp HHTC-----TTSEEEEESS
T ss_pred HHHHC----CCCEEEEEec
Confidence 55543 4445666554
No 306
>PF14981 FAM165: FAM165 family
Probab=58.47 E-value=21 Score=25.30 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=29.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 036525 644 LNSFWGLFLIAGIAAILALIIFLAVFVHQHRNV 676 (783)
Q Consensus 644 l~~l~g~F~il~~g~~ls~~vfl~E~~~~~~~~ 676 (783)
++++--++||++.-.++-|+.|..--+|.+++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567888999999999999999999999988764
No 307
>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=58.14 E-value=36 Score=34.90 Aligned_cols=80 Identities=6% Similarity=0.067 Sum_probs=53.0
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKAN 154 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a~ 154 (783)
|+++|.. ++.|...+.+.+.+++++.|..+..... +...+...-...+.++.+.++|.|++.... ......++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~ 79 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAA-PSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAK 79 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEcc-CCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHH
Confidence 3566664 5667788889999999999988765432 111222234466777888899988876543 33345677777
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|.
T Consensus 80 ~~~i 83 (275)
T cd06320 80 KKGI 83 (275)
T ss_pred HCCC
Confidence 7774
No 308
>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=57.22 E-value=39 Score=34.60 Aligned_cols=77 Identities=10% Similarity=0.006 Sum_probs=53.2
Q ss_pred EEEEEE---eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHH
Q 036525 79 AVPIYV---DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKAN 154 (783)
Q Consensus 79 vaii~~---d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~ 154 (783)
|++|.+ ++.|.....+.+.+++++.|..+.... ...........+..+.+.++|.|++.....+ ....++.++
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLD---ANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEc---CCcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 556664 467889999999999999998876542 1222234445677777889999888654332 356677788
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 8774
No 309
>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=57.05 E-value=42 Score=34.24 Aligned_cols=76 Identities=11% Similarity=0.054 Sum_probs=52.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
++++.. ++.|...+...+.+++++.|.++..... ..........+..+.+.++|.|++....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSES---GRRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecC---CCchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 456664 4788899999999999999988865432 1222345567778888899988876543332 347777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 64
No 310
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=56.44 E-value=40 Score=34.30 Aligned_cols=101 Identities=10% Similarity=0.004 Sum_probs=61.7
Q ss_pred hhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhC--CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEE
Q 036525 62 SQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIV 139 (783)
Q Consensus 62 ~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~--g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~ 139 (783)
....++.+.+..-+ ++|.++....+ .++.....+++. +..|+.... -+-...++ .+.+.+|++++||++++
T Consensus 95 Dl~~~Ll~~a~~~~-~~vfllGgkp~----V~~~a~~~l~~~~p~l~ivg~h~-GYf~~~e~-~~i~~~I~~s~pdil~V 167 (253)
T COG1922 95 DLVEALLKRAAEEG-KRVFLLGGKPG----VAEQAAAKLRAKYPGLKIVGSHD-GYFDPEEE-EAIVERIAASGPDILLV 167 (253)
T ss_pred HHHHHHHHHhCccC-ceEEEecCCHH----HHHHHHHHHHHHCCCceEEEecC-CCCChhhH-HHHHHHHHhcCCCEEEE
Confidence 34555555554443 57777765443 344444444443 345555431 11112223 58889999999999999
Q ss_pred EcChhhHHHHHHHHHHcCccccceEEEEeCCcc
Q 036525 140 HKLPSLGSRIFEKANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 140 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 172 (783)
.+..+-...++.+-++.= +.-++|+.++.-
T Consensus 168 gmG~P~QE~wi~~~~~~~---~~~v~igVGg~f 197 (253)
T COG1922 168 GMGVPRQEIWIARNRQQL---PVAVAIGVGGSF 197 (253)
T ss_pred eCCCchhHHHHHHhHHhc---CCceEEeccceE
Confidence 999888888887777642 345677776544
No 311
>PRK15138 aldehyde reductase; Provisional
Probab=56.31 E-value=65 Score=35.41 Aligned_cols=85 Identities=15% Similarity=0.143 Sum_probs=56.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCC-cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQ-YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~-~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.+.+.++++. + +++.++..+.. ...+..+.+.+.|+ |+++.....+.++++.+++...+...++.++|+||-.|.
T Consensus 19 ~~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 94 (387)
T PRK15138 19 IAGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPNPTYETLMKAVKLVREEKITFLLAVGG 94 (387)
T ss_pred HHHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 3445566665 4 78777764332 23456677888885 555544444556677778888888889999999997766
Q ss_pred hh--hHHHHHHH
Q 036525 143 PS--LGSRIFEK 152 (783)
Q Consensus 143 ~~--~~~~~~~~ 152 (783)
+. |+.+.+..
T Consensus 95 GS~iD~AK~ia~ 106 (387)
T PRK15138 95 GSVLDGTKFIAA 106 (387)
T ss_pred hHHHHHHHHHHH
Confidence 54 66666544
No 312
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=56.16 E-value=49 Score=35.39 Aligned_cols=80 Identities=8% Similarity=0.053 Sum_probs=58.3
Q ss_pred CeEEEEEE--EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHH
Q 036525 76 WREAVPIY--VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEK 152 (783)
Q Consensus 76 w~~vaii~--~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~ 152 (783)
-.+|+++. .++.|.....+.+++++++.|..+.... ...+.......+..+.+.++|.|++...... ....++.
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~---~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~ 101 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQS---ANGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKE 101 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEEC---CCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHH
Confidence 36778777 4688999999999999999998886542 2223345667788888889999998764332 3456677
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+.+.|.
T Consensus 102 ~~~~~i 107 (330)
T PRK10355 102 AKQEGI 107 (330)
T ss_pred HHHCCC
Confidence 777774
No 313
>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=55.88 E-value=41 Score=34.17 Aligned_cols=75 Identities=16% Similarity=0.195 Sum_probs=52.1
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|.....+.+.+++++.|..+..... +... +....+.++.+.++|.|++....... ..++.+.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~~~ 76 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT---DDDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECRRN 76 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC---CCCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhc
Confidence 455554 4678888899999999999988754432 2222 56677788888999988886543332 447777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 77 ~i 78 (266)
T cd06278 77 GI 78 (266)
T ss_pred CC
Confidence 74
No 314
>PRK10200 putative racemase; Provisional
Probab=55.66 E-value=24 Score=35.61 Aligned_cols=74 Identities=11% Similarity=0.038 Sum_probs=40.4
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~ 84 (783)
.+.|+.+|+=|-.+..+. .-.+-+..++|+|+. .+++.+.++..+-++|+++..
T Consensus 72 ~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~~~~~~~~VglLaT 125 (230)
T PRK10200 72 QRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAITGAGMTRVALLGT 125 (230)
T ss_pred HHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHHHHcCCCeEEEecc
Confidence 344666665543433333 333445566776652 233444455567788888885
Q ss_pred eCCcCCcchHHHHHHHhhC-CceE
Q 036525 85 DNQYGEAMIPSLTDALHAI-DTRV 107 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~-g~~v 107 (783)
..- -....+.+.+++. |+++
T Consensus 126 ~~T---i~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 126 RYT---MEQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHH---HHHhHHHHHHHHhcCCeE
Confidence 533 2344556666644 7776
No 315
>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=55.33 E-value=43 Score=34.07 Aligned_cols=76 Identities=14% Similarity=0.157 Sum_probs=51.7
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+++|.+ ++.|-....+.+.+++++.|.++..... ..+..+....+.++.+.++|.|++...... ...+..+.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT---GYSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAA 77 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC---CCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhc
Confidence 466664 3567778889999999999988765332 223335567788888889999888764432 3455566666
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 78 ~i 79 (268)
T cd01575 78 GI 79 (268)
T ss_pred CC
Confidence 64
No 316
>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=55.32 E-value=45 Score=34.17 Aligned_cols=80 Identities=13% Similarity=0.128 Sum_probs=53.0
Q ss_pred EEEEEEE--eCCcCCcchHHHHHHHhhC---CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHH
Q 036525 78 EAVPIYV--DNQYGEAMIPSLTDALHAI---DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFE 151 (783)
Q Consensus 78 ~vaii~~--d~~~G~~~~~~~~~~l~~~---g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~ 151 (783)
||+++.. ++.|-....+.+.+++++. |.++..... ..+.+.......+.++...++|.||+..... .....+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 4566663 4557778889999999999 874322221 2222334566788888888999999976543 3445677
Q ss_pred HHHHcCc
Q 036525 152 KANEIGL 158 (783)
Q Consensus 152 ~a~~~g~ 158 (783)
.+++.|+
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 8888774
No 317
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=55.16 E-value=46 Score=35.78 Aligned_cols=81 Identities=4% Similarity=0.016 Sum_probs=55.4
Q ss_pred CeEEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHH
Q 036525 76 WREAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEK 152 (783)
Q Consensus 76 w~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~ 152 (783)
-++|+++..+ +.|.....+.+.+++++.|.++.....-. ..+.......+..+.+.++|.||+..... .....+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 3688888854 67778888999999999998876543211 11223345677788888999888876443 333455 7
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+++.|+
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 777774
No 318
>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=55.16 E-value=8.4 Score=35.02 Aligned_cols=17 Identities=29% Similarity=0.616 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHhhcccc
Q 036525 662 LIIFLAVFVHQHRNVLR 678 (783)
Q Consensus 662 ~~vfl~E~~~~~~~~~r 678 (783)
++++++-+++++||++|
T Consensus 12 i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 12 ILLFLFLFYCHNRRRRR 28 (130)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 33333333444444444
No 319
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=55.15 E-value=61 Score=33.83 Aligned_cols=80 Identities=8% Similarity=0.050 Sum_probs=55.8
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHHHH
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIFEK 152 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~~~ 152 (783)
-+.++++.. ++.|-......+.+++++.|..+..... ..+.......+.++...++|.+++..... .....++.
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~---~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS---QNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 568888885 4667788899999999999988865321 12223445667777778999887765443 33456777
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+++.|+
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 877774
No 320
>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=55.07 E-value=49 Score=33.67 Aligned_cols=76 Identities=16% Similarity=0.078 Sum_probs=51.6
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|...+...+.+++++.|..+.... .+.+.......+.++.+.++|.+++.+... ....++.+++.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SGYDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhC
Confidence 566775 467778889999999999998886532 222233455677788888899888765432 23455667777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 74
No 321
>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=54.79 E-value=41 Score=34.56 Aligned_cols=80 Identities=9% Similarity=0.002 Sum_probs=52.6
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEec-CCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVI-SPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i-~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a 153 (783)
+|+++..+ +.|...+...+.+++++.|..+...... ....+.......+..+.+ ++|.+++.... .....+++++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~ 79 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARL 79 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHH
Confidence 46777754 5677888999999999998655433321 111222344566777777 99988876543 3345678888
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|.
T Consensus 80 ~~~~i 84 (275)
T cd06307 80 AAAGV 84 (275)
T ss_pred HHCCC
Confidence 88775
No 322
>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=54.48 E-value=45 Score=33.91 Aligned_cols=77 Identities=12% Similarity=0.068 Sum_probs=52.9
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKANE 155 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~~ 155 (783)
+++|.. ++.|...+...+.+++++.|..+.... ...+..+....+.++.+.++|.|++...... ....++++++
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLD---AQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecC---CCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Confidence 455553 577888899999999999998885422 2223345567788888889998887643332 3456777777
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 764
No 323
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=54.32 E-value=1.8e+02 Score=26.72 Aligned_cols=92 Identities=12% Similarity=0.062 Sum_probs=56.3
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEec----CCCCChhHHH-HHHHHHhccCceEEEEE
Q 036525 66 AITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVI----SPLATDDQIE-KELYKLFTMQTRVFIVH 140 (783)
Q Consensus 66 ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i----~~~~~~~d~~-~~l~~l~~~~~dvii~~ 140 (783)
.+...+...+-....-+|.+.... .....+.++|+..|.++...... ..+..+..+. ..+..+.+.+.|.+++.
T Consensus 28 ~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLv 106 (149)
T cd06167 28 KLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLV 106 (149)
T ss_pred HHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEE
Confidence 344444433323334444443221 45788999999999998765532 1122322333 23333344578999988
Q ss_pred cChhhHHHHHHHHHHcCc
Q 036525 141 KLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 141 ~~~~~~~~~~~~a~~~g~ 158 (783)
+.-.+....++.+++.|.
T Consensus 107 SgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 107 SGDSDFVPLVERLRELGK 124 (149)
T ss_pred ECCccHHHHHHHHHHcCC
Confidence 888899999999999985
No 324
>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=54.03 E-value=59 Score=33.17 Aligned_cols=76 Identities=5% Similarity=0.014 Sum_probs=52.1
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+++|.. ++.|...+.+.+.+++++.|..+..... ....+.-...+..+.+.++|.|++.+..... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---HHSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---CCchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 455553 5778889999999999999998865332 1122234567777888899999987653222 237777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 74
No 325
>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=53.98 E-value=49 Score=34.74 Aligned_cols=78 Identities=8% Similarity=0.150 Sum_probs=52.7
Q ss_pred EEEEEEEe--CCcCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC-hhhHHHHHHH
Q 036525 78 EAVPIYVD--NQYGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL-PSLGSRIFEK 152 (783)
Q Consensus 78 ~vaii~~d--~~~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~-~~~~~~~~~~ 152 (783)
+|++|..+ +.|-..+...+.+++++ .|.++.... ...+...-...+.++.+.++|.|++... .......+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 46666653 56777888899999999 776664432 2223333456677888899998887643 3334677788
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+++.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 888885
No 326
>PRK09701 D-allose transporter subunit; Provisional
Probab=53.85 E-value=54 Score=34.62 Aligned_cols=84 Identities=13% Similarity=0.037 Sum_probs=57.6
Q ss_pred cCCeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-hHHHHH
Q 036525 74 FGWREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-LGSRIF 150 (783)
Q Consensus 74 ~gw~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-~~~~~~ 150 (783)
+-..+++++.. ++.|.....+.+.+++++.|.++..... +...+..+-...+..+.+.++|.||+..... .....+
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l 100 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPV 100 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHH
Confidence 44568999995 4778888999999999999988764321 1112223445667778888999998876443 233456
Q ss_pred HHHHHcCc
Q 036525 151 EKANEIGL 158 (783)
Q Consensus 151 ~~a~~~g~ 158 (783)
.++.+.|+
T Consensus 101 ~~~~~~gi 108 (311)
T PRK09701 101 ARAWKKGI 108 (311)
T ss_pred HHHHHCCC
Confidence 67777775
No 327
>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=53.70 E-value=43 Score=34.31 Aligned_cols=77 Identities=10% Similarity=0.013 Sum_probs=52.0
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKANE 155 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~~ 155 (783)
+++|.. ++.|...+...+.+++++.|.++.... ...+...-...+.++.+.++|.|++.....+ ....+..+.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~ 78 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELS---AENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQ 78 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHH
Confidence 556653 477888889999999999998885432 1222233446677777889999887654333 3456777877
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|.
T Consensus 79 ~~i 81 (277)
T cd06319 79 AKI 81 (277)
T ss_pred CCC
Confidence 774
No 328
>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=53.65 E-value=60 Score=33.03 Aligned_cols=76 Identities=9% Similarity=0.049 Sum_probs=52.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|-..+...+.+++++.|.++.... .+.+.......+..+.+.++|.|++....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~---~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVAN---TGDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELTRR 77 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEe---CCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHHHc
Confidence 567775 467888889999999999998875422 12222345567778888999988886544333 346777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (265)
T cd06285 78 GV 79 (265)
T ss_pred CC
Confidence 74
No 329
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=53.42 E-value=72 Score=32.27 Aligned_cols=89 Identities=11% Similarity=-0.007 Sum_probs=54.7
Q ss_pred hhhHHHHHHHHHHc--CCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEE
Q 036525 61 SSQVGAITAIIKAF--GWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI 138 (783)
Q Consensus 61 ~~~~~ai~~~l~~~--gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii 138 (783)
...++.+++++... .-++|.++. |....+.+.+.|++.|..|.....|.......+-......+++.+.|+|+
T Consensus 101 ~~~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~ 175 (240)
T PRK09189 101 GGDGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVL 175 (240)
T ss_pred CCCHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEE
Confidence 34577888877542 446666665 34455778899999999887666553222211222334555666778766
Q ss_pred EEcChhhHHHHHHHHHH
Q 036525 139 VHKLPSLGSRIFEKANE 155 (783)
Q Consensus 139 ~~~~~~~~~~~~~~a~~ 155 (783)
++. +..+..|++....
T Consensus 176 f~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 176 LYS-RVAARRFFALMRL 191 (240)
T ss_pred EeC-HHHHHHHHHHHhh
Confidence 654 5567777776643
No 330
>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=53.31 E-value=76 Score=33.59 Aligned_cols=80 Identities=15% Similarity=0.088 Sum_probs=53.7
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
-+.++++.. ++.|...+...+.+++++.|..+..... +.........+..+...+.|.||+..........+.++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 136 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS---DDNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKL 136 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHH
Confidence 357888875 4667788899999999999998865432 12222344567777888999888865433123456666
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 137 ~~~~i 141 (327)
T TIGR02417 137 QNEGL 141 (327)
T ss_pred HhcCC
Confidence 66664
No 331
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=52.90 E-value=18 Score=34.93 Aligned_cols=100 Identities=16% Similarity=0.167 Sum_probs=54.8
Q ss_pred EEEEccCCchhHHHHHcccCCCCccEEeeccCC-CCC---CC---CCCCeEEEeec-CchhhHHHHHHHHHHcCCeEEEE
Q 036525 10 RVMLGPEDSMPTNFIIQPGNKSQVPILSFSATS-PSL---TS---IRSPYFFRGAL-NDSSQVGAITAIIKAFGWREAVP 81 (783)
Q Consensus 10 ~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s-~~l---s~---~~~~~~fr~~p-~~~~~~~ai~~~l~~~gw~~vai 81 (783)
..|+||.+|+-+..+..+++++++|+|+.+--- +.. ++ ....|+-+-.. ++......+-..+....... .+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstgd~~r~~~~~~t~lg~~~k~~i~~g~lv~d~i~~~~v~~rl~~~d~~~-~~ 81 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGELVPDEIVNGLVKERLDEADCKA-GF 81 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhHhhhccCChHHHHHHHHHHcCCccchHHHHHHHHHHHHhhcccC-eE
Confidence 579999999999999999999999999943110 000 10 00112222221 22222233333333332223 66
Q ss_pred EEEeCCcCCcchHHHHHHHhhCCceEeEE
Q 036525 82 IYVDNQYGEAMIPSLTDALHAIDTRVPYR 110 (783)
Q Consensus 82 i~~d~~~G~~~~~~~~~~l~~~g~~v~~~ 110 (783)
|+.+..--...+..+...+++.|.+....
T Consensus 82 I~dg~PR~~~qa~~l~r~l~~~g~~~d~v 110 (178)
T COG0563 82 ILDGFPRTLCQARALKRLLKELGVRLDMV 110 (178)
T ss_pred EEeCCCCcHHHHHHHHHHHHHcCCCcceE
Confidence 66666655566666666666655444333
No 332
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=52.71 E-value=79 Score=38.93 Aligned_cols=78 Identities=15% Similarity=0.053 Sum_probs=58.0
Q ss_pred CCeEEEEEEEeCCcCCcchHHHHHHHh--hCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh--hHHHHH
Q 036525 75 GWREAVPIYVDNQYGEAMIPSLTDALH--AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS--LGSRIF 150 (783)
Q Consensus 75 gw~~vaii~~d~~~G~~~~~~~~~~l~--~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~--~~~~~~ 150 (783)
+.+++.+++....+-.+..+.+.+.|+ +.|+.+..-..+.++++.+++...+..+++.++|.||..+.+. |+..++
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~np~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK~i 558 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPDPTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAKIM 558 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHHHH
Confidence 668988888555444557888999998 7787775554555667777888888999999999999877654 666665
Q ss_pred HH
Q 036525 151 EK 152 (783)
Q Consensus 151 ~~ 152 (783)
..
T Consensus 559 a~ 560 (862)
T PRK13805 559 WL 560 (862)
T ss_pred HH
Confidence 43
No 333
>PRK10481 hypothetical protein; Provisional
Probab=52.71 E-value=1.2e+02 Score=30.41 Aligned_cols=76 Identities=8% Similarity=0.100 Sum_probs=49.8
Q ss_pred HHHHHHH-cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh
Q 036525 67 ITAIIKA-FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL 145 (783)
Q Consensus 67 i~~~l~~-~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~ 145 (783)
+..++.. .+-++++++.+..+. .+.-.+.+.+.|.++.....-|+..+...+.....+++..++|+|++.|.+-.
T Consensus 119 i~~lv~Al~~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~ 194 (224)
T PRK10481 119 LPPLVAAIVGGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYH 194 (224)
T ss_pred HHHHHHHhcCCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcC
Confidence 3444443 355899999976543 33334455555888776554444444446777788888899999999887655
Q ss_pred H
Q 036525 146 G 146 (783)
Q Consensus 146 ~ 146 (783)
.
T Consensus 195 ~ 195 (224)
T PRK10481 195 Q 195 (224)
T ss_pred H
Confidence 4
No 334
>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=52.47 E-value=1.1e+02 Score=27.25 Aligned_cols=62 Identities=18% Similarity=0.153 Sum_probs=37.8
Q ss_pred cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh----hHHHHHHHHHHcCc
Q 036525 91 AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS----LGSRIFEKANEIGL 158 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~----~~~~~~~~a~~~g~ 158 (783)
-...-+...++..|.+|.+-.. .. .....+..+.+.+||+|.+++... .+..++++.++.|.
T Consensus 14 lG~~~~~~~l~~~G~~vi~lG~---~v---p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 14 RGAKVIARALRDAGFEVIYTGL---RQ---TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred HHHHHHHHHHHHCCCEEEECCC---CC---CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 3445566667778887765432 11 223455566677888888876443 45666677777764
No 335
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. 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, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=52.13 E-value=1e+02 Score=33.21 Aligned_cols=99 Identities=15% Similarity=0.063 Sum_probs=63.0
Q ss_pred HHHHHHHH-cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecC---CCCChhHHHHHHHHHhccCc---eEEE
Q 036525 66 AITAIIKA-FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVIS---PLATDDQIEKELYKLFTMQT---RVFI 138 (783)
Q Consensus 66 ai~~~l~~-~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~---~~~~~~d~~~~l~~l~~~~~---dvii 138 (783)
.+.+++.. .+.+++.+++....+ +...+.+.+.+++.|+.+... .++ .+.+.+.+...+..+++.++ |+||
T Consensus 13 ~l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~II 90 (345)
T cd08195 13 ELGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVI-VIPAGEASKSLETLEKLYDALLEAGLDRKSLII 90 (345)
T ss_pred HHHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEE
Confidence 34444543 356888888844443 467888889999888765432 233 23455677777888887766 8888
Q ss_pred EEcChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 139 VHKLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 139 ~~~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
..|.+. |...++......|+ .++-|-|.
T Consensus 91 aiGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 120 (345)
T cd08195 91 ALGGGVVGDLAGFVAATYMRGI---DFIQIPTT 120 (345)
T ss_pred EECChHHHhHHHHHHHHHhcCC---CeEEcchh
Confidence 877664 77777765555563 34444444
No 336
>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=51.91 E-value=59 Score=32.86 Aligned_cols=75 Identities=11% Similarity=-0.036 Sum_probs=50.8
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.+ ++.|...+.+.+.+++++.|.++..... ..+.......+.++.+.++|.+++...... ..++..+++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~ 77 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIKKL 77 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 456664 3556678899999999999988855332 222334556778888899999998765432 3455666666
Q ss_pred C
Q 036525 157 G 157 (783)
Q Consensus 157 g 157 (783)
|
T Consensus 78 ~ 78 (259)
T cd01542 78 N 78 (259)
T ss_pred C
Confidence 6
No 337
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=51.87 E-value=3.1e+02 Score=28.78 Aligned_cols=88 Identities=9% Similarity=0.060 Sum_probs=55.2
Q ss_pred eEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecC--------chhhHHHHHHHHHHcC-----
Q 036525 9 VRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALN--------DSSQVGAITAIIKAFG----- 75 (783)
Q Consensus 9 V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~--------~~~~~~ai~~~l~~~g----- 75 (783)
|.-++||-..+....++.++.+.++=++..+.... .....||.|+... -...-+++.++.+.+|
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d---~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDD---DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEecccccc---cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 67889999999999999999998887776554321 2234677773322 1233445555555543
Q ss_pred -----CeEEEEEEEeCCcCCcchHHHHHHHhh
Q 036525 76 -----WREAVPIYVDNQYGEAMIPSLTDALHA 102 (783)
Q Consensus 76 -----w~~vaii~~d~~~G~~~~~~~~~~l~~ 102 (783)
.+|++++.+.. |. -.+.+.++.++
T Consensus 88 ~~~~~~~kiavl~Sg~--g~-nl~al~~~~~~ 116 (289)
T PRK13010 88 HPDGQRPKVVIMVSKF--DH-CLNDLLYRWRM 116 (289)
T ss_pred ecCCCCeEEEEEEeCC--Cc-cHHHHHHHHHC
Confidence 45888888665 32 34444555544
No 338
>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=51.67 E-value=51 Score=34.68 Aligned_cols=77 Identities=9% Similarity=0.106 Sum_probs=53.0
Q ss_pred EEEEEE---eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc--CceEEEEEcChhhHHHHHHHH
Q 036525 79 AVPIYV---DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 79 vaii~~---d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~--~~dvii~~~~~~~~~~~~~~a 153 (783)
|+++.. ++.|.......+++++++.|.++..... ..+.......+..+.+. ++|.|++.........+++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~ 78 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---ERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLA 78 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---CCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHH
Confidence 556663 4567788899999999999998765431 22333344667777778 999999865433355667888
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 79 ~~~gi 83 (305)
T cd06324 79 EGAGV 83 (305)
T ss_pred HhCCC
Confidence 88775
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=51.24 E-value=90 Score=29.12 Aligned_cols=64 Identities=14% Similarity=0.166 Sum_probs=42.4
Q ss_pred EEEEEEEeCCcCC-----cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcCh
Q 036525 78 EAVPIYVDNQYGE-----AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLP 143 (783)
Q Consensus 78 ~vaii~~d~~~G~-----~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~ 143 (783)
++++|...++-.. .....+.+.+++.|.++.....++. +.+++...+.+..+ +++|+|+..+..
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~D--d~~~i~~~l~~~~~~~~~DlVittGG~ 71 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPD--DKDEIREALIEWADEDGVDLILTTGGT 71 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCC--CHHHHHHHHHHHHhcCCCCEEEECCCc
Confidence 5677765553221 2355788889999999887776653 33467777776544 378999887644
No 340
>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=51.07 E-value=66 Score=32.69 Aligned_cols=76 Identities=12% Similarity=0.038 Sum_probs=51.2
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|-..+...+.+++++.|.++..... ..+.......+..+...++|.|++.....+... ++.+.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACS---DDDPETERETVETLIARQVDALIVAGSLPPDDP-YYLCQKA 77 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHHHHhc
Confidence 455553 4677788889999999999988765432 122234456777888899998888764333322 6677777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (264)
T cd06274 78 GL 79 (264)
T ss_pred CC
Confidence 74
No 341
>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=51.03 E-value=37 Score=34.81 Aligned_cols=71 Identities=11% Similarity=0.195 Sum_probs=51.9
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHHHcCc
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKANEIGL 158 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~~~g~ 158 (783)
++.|-....+.+.+++++.|.++..... ..+.......+..+.+.++|.||+.....+ ....++++.+.|+
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFADA---QQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeCC---CCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 5678788999999999999999876432 223335557788888889999888654433 3567788888775
No 342
>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=50.90 E-value=1e+02 Score=29.54 Aligned_cols=92 Identities=18% Similarity=0.203 Sum_probs=48.3
Q ss_pred CCeEEEEccCCchhHHHHHcccCCC--CccEEeeccC-CCCCCC-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKS--QVPILSFSAT-SPSLTS-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPI 82 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~--~vP~Is~~a~-s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii 82 (783)
.++.+++||.+|+-..-+..+++.. ++..+-+..+ .|...+ .+-.|.|-. ..+ +-+.++.-..=...-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs----~~~---f~~~~~~~~fie~~~- 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS----KEE---FERMIKAGEFIEYGE- 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------HHH---HHHHHHTTHEEEEEE-
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe----ech---hhhhhccccEEEEee-
Confidence 4789999999999888777777654 3444333333 333333 345676652 112 222222111111111
Q ss_pred EEeCCcCCcchHHHHHHHhhCCceE
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTRV 107 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~v 107 (783)
|.++.||.. .+.+.+.+++...++
T Consensus 74 ~~g~~YGt~-~~~i~~~~~~gk~~i 97 (183)
T PF00625_consen 74 YDGNYYGTS-KSAIDKVLEEGKHCI 97 (183)
T ss_dssp ETTEEEEEE-HHHHHHHHHTTTEEE
T ss_pred ecchhhhhc-cchhhHhhhcCCcEE
Confidence 446678754 466777777665554
No 343
>PRK11914 diacylglycerol kinase; Reviewed
Probab=50.83 E-value=1.1e+02 Score=32.23 Aligned_cols=79 Identities=9% Similarity=-0.021 Sum_probs=51.8
Q ss_pred cCCeEEEEEEEeCCcCCc----chHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHH
Q 036525 74 FGWREAVPIYVDNQYGEA----MIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRI 149 (783)
Q Consensus 74 ~gw~~vaii~~d~~~G~~----~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~ 149 (783)
...+++.+|+ |-.-|.+ ..+.+.+.+++.|.++..... ....+......++...++|+||+.+-......+
T Consensus 6 ~~~~~~~iI~-NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t----~~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ev 80 (306)
T PRK11914 6 HEIGKVTVLT-NPLSGHGAAPHAAERAIARLHHRGVDVVEIVG----TDAHDARHLVAAALAKGTDALVVVGGDGVISNA 80 (306)
T ss_pred CCCceEEEEE-CCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEe----CCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 3457888887 4443433 345677888899987654332 123366666777777788988888877777777
Q ss_pred HHHHHHcC
Q 036525 150 FEKANEIG 157 (783)
Q Consensus 150 ~~~a~~~g 157 (783)
+..+...+
T Consensus 81 v~~l~~~~ 88 (306)
T PRK11914 81 LQVLAGTD 88 (306)
T ss_pred hHHhccCC
Confidence 77665443
No 344
>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=50.57 E-value=39 Score=35.45 Aligned_cols=77 Identities=13% Similarity=0.100 Sum_probs=50.8
Q ss_pred EEEEE--eCCcCCcchHHHHHHHhhCCc-eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHHHH
Q 036525 80 VPIYV--DNQYGEAMIPSLTDALHAIDT-RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKANE 155 (783)
Q Consensus 80 aii~~--d~~~G~~~~~~~~~~l~~~g~-~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a~~ 155 (783)
++|.. ++.|...+.+.+.+++++.|. .+.... +...+.......+..+.+.++|.|++.... ......++++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~ 79 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTG--PTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMK 79 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHH
Confidence 34443 466777888999999999994 343221 111223345567788888899988886543 344567888888
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|+
T Consensus 80 ~gi 82 (302)
T TIGR02637 80 RGI 82 (302)
T ss_pred CCC
Confidence 885
No 345
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=50.32 E-value=61 Score=34.42 Aligned_cols=81 Identities=12% Similarity=0.109 Sum_probs=54.9
Q ss_pred eEEEEEE--EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEE-cChhhHHHHHHHH
Q 036525 77 REAVPIY--VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVH-KLPSLGSRIFEKA 153 (783)
Q Consensus 77 ~~vaii~--~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~-~~~~~~~~~~~~a 153 (783)
.++++++ .++.|.....+.++++.++.|....... .+...+...-...+..+...++|.|++. .........++.|
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~~~~~~~-~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a 112 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGVVVAVVI-ADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKA 112 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCCcEEEEe-cccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 5677776 4677888999999999999996221111 1111122223345555567899988875 5666789999999
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|.
T Consensus 113 ~~aGI 117 (322)
T COG1879 113 KAAGI 117 (322)
T ss_pred HHCCC
Confidence 99995
No 346
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=49.13 E-value=1.2e+02 Score=33.32 Aligned_cols=97 Identities=13% Similarity=0.252 Sum_probs=56.0
Q ss_pred HHHHHHcCCeEEEEEEEeCCcC--CcchHHHHHHHh--hCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 68 TAIIKAFGWREAVPIYVDNQYG--EAMIPSLTDALH--AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 68 ~~~l~~~gw~~vaii~~d~~~G--~~~~~~~~~~l~--~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.++.+...-++|.|+| .+.|| +.+++.+.+.++ +.|.+|..... . .. +....+..+. .+|.|++.++.
T Consensus 239 ~~~~~~~~~~kv~IvY-~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~~-~--~~--~~~~i~~~~~--~~d~ii~GspT 310 (394)
T PRK11921 239 LEWAANYQENQVTILY-DTMWNSTRRMAEAIAEGIKKANKDVTVKLYNS-A--KS--DKNDIITEVF--KSKAILVGSST 310 (394)
T ss_pred HHHhhcCCcCcEEEEE-ECCchHHHHHHHHHHHHHhhcCCCCeEEEEEC-C--CC--CHHHHHHHHH--hCCEEEEECCC
Confidence 3333444457899999 44555 667888888887 66777644332 1 11 3333344443 47888877655
Q ss_pred h------hHHHHHHHHHHcCccccceEEEEeCCcc
Q 036525 144 S------LGSRIFEKANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 144 ~------~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 172 (783)
- ....++......++.++....+++.+|.
T Consensus 311 ~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGsygw~ 345 (394)
T PRK11921 311 INRGILSSTAAILEEIKGLGFKNKKAAAFGSYGWS 345 (394)
T ss_pred cCccccHHHHHHHHHhhccCcCCCEEEEEecCCCc
Confidence 2 3555666666666555544555555553
No 347
>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=48.72 E-value=59 Score=33.22 Aligned_cols=77 Identities=10% Similarity=0.059 Sum_probs=51.5
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhh--CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKA 153 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~--~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a 153 (783)
|+++.+ ++.|-..+...+.+++++ .|.++.... ...+.......+..+...++|.||+.....+ ....++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~ 78 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVS---ADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRA 78 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEcc---CCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHH
Confidence 566664 467888899999999999 666654321 1222234456677777889998888654332 35667788
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 79 ~~~~i 83 (271)
T cd06321 79 QAAGI 83 (271)
T ss_pred HHCCC
Confidence 77764
No 348
>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=48.72 E-value=61 Score=34.06 Aligned_cols=72 Identities=11% Similarity=0.116 Sum_probs=53.1
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHHHHcCc
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKANEIGL 158 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a~~~g~ 158 (783)
.+++|.....+.+.+++++.|.++.... ...+.......+..+.+.++|.|++.... ......++.+++.|+
T Consensus 8 ~~~~~~~~~~~~i~~~a~~~g~~v~~~~---~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 8 LRLERWQKDRDIFVAAAESLGAKVFVQS---ANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred cchhhHHHHHHHHHHHHHhcCCEEEEEe---CCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 4678888899999999999998886532 22233344567888888999999887643 335677888888875
No 349
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=48.42 E-value=1e+02 Score=32.71 Aligned_cols=78 Identities=10% Similarity=0.075 Sum_probs=52.3
Q ss_pred eEEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHH
Q 036525 77 REAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 77 ~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
+.|+++..+ +.|...+...+.+++++.|.++.... .+.........+..+.+.++|.||+..... ....++.+.
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~l~ 139 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAH---YGYKPEMEQERLESMLSWNIDGLILTERTH-TPRTLKMIE 139 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHHHHH
Confidence 478888753 56778889999999999998875432 112222334566777788999998864322 234566677
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 140 ~~~i 143 (331)
T PRK14987 140 VAGI 143 (331)
T ss_pred hCCC
Confidence 7774
No 350
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=48.34 E-value=78 Score=29.52 Aligned_cols=98 Identities=10% Similarity=0.025 Sum_probs=56.9
Q ss_pred ecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceE
Q 036525 57 ALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRV 136 (783)
Q Consensus 57 ~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dv 136 (783)
.+....|++.++++++..+...-.|+.+.-.-.+..++.+.+.+.. ...+.....+.++....++...+.++...+.+.
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~~~~ 102 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPCGDIGLVSDYLEALTNEGVAS 102 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCCCCHHHHHHHHHHHHhcCCCE
Confidence 3445578899999998766543344554444444444444443321 122333333333334445666677766545667
Q ss_pred EEEEcChhhHHHHHHHHHH
Q 036525 137 FIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 137 ii~~~~~~~~~~~~~~a~~ 155 (783)
+++.+..+....++..+-.
T Consensus 103 vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 103 VLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred EEEEeCCCCHHHHHHHHhC
Confidence 7778888888888877753
No 351
>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=47.83 E-value=59 Score=35.13 Aligned_cols=84 Identities=15% Similarity=0.148 Sum_probs=55.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+.+.++++.++ +++.+++....+ ....+.+.+.|++.++.+. .+.-.++.+++...+..+++.++|+||..|.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~---~~~~~p~~~~v~~~~~~~~~~~~D~iIavGGGs 87 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVL---RYDGECSEENIERLAAQAKENGADVIIGIGGGK 87 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEE---EeCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 44666777775 888888755443 3456667777755555432 222225566788888888899999999877665
Q ss_pred --hHHHHHHHH
Q 036525 145 --LGSRIFEKA 153 (783)
Q Consensus 145 --~~~~~~~~a 153 (783)
|...++...
T Consensus 88 ~~D~aK~ia~~ 98 (347)
T cd08172 88 VLDTAKAVADR 98 (347)
T ss_pred HHHHHHHHHHH
Confidence 666666544
No 352
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=47.80 E-value=1.7e+02 Score=35.05 Aligned_cols=25 Identities=16% Similarity=0.216 Sum_probs=19.4
Q ss_pred CCeEEEEccCCchhHHHHHcccCCC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKS 31 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~ 31 (783)
.+|.++|||.+++-+..++.++..+
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhH
Confidence 4688899998888888887777543
No 353
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=47.54 E-value=72 Score=31.70 Aligned_cols=83 Identities=16% Similarity=0.137 Sum_probs=46.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHH-HhccCceEEEEEcC
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYK-LFTMQTRVFIVHKL 142 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~-l~~~~~dvii~~~~ 142 (783)
.++.++-+++.|.++|+++.....- .....++.|++.|++++ +|.+.....+...+.. |++ -.+...+
T Consensus 105 idaTa~~ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv----vPdd~~q~~v~~iIy~El~~----G~~~~~s 173 (230)
T COG1794 105 IDATAKAIKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV----VPDDDEQAEVNRIIYEELCQ----GIVKDAS 173 (230)
T ss_pred HHHHHHHHHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe----cCCHHHHHHHHHHHHHHHhc----ccchHHH
Confidence 4455556677899999999865432 34456789999998764 3322222223333322 331 1222233
Q ss_pred hhhHHHHHHHHHHcC
Q 036525 143 PSLGSRIFEKANEIG 157 (783)
Q Consensus 143 ~~~~~~~~~~a~~~g 157 (783)
-+....+++.+.+.|
T Consensus 174 r~~~~~ii~~l~~~G 188 (230)
T COG1794 174 RELYLAVIERLAERG 188 (230)
T ss_pred HHHHHHHHHHHHHcC
Confidence 345566667777766
No 354
>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=47.42 E-value=1.3e+02 Score=28.44 Aligned_cols=66 Identities=12% Similarity=0.105 Sum_probs=44.9
Q ss_pred CeEEEEEEEeCCcC---CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhc-cCceEEEEEcCh
Q 036525 76 WREAVPIYVDNQYG---EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFIVHKLP 143 (783)
Q Consensus 76 w~~vaii~~d~~~G---~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~-~~~dvii~~~~~ 143 (783)
..++++|...|+-+ ......+...+++.|.++.....++. +.+.+...+.+..+ .+.|+|+..+..
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~D--d~~~i~~~l~~~~~~~~~DlVIttGGt 73 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKD--DIYQIRAQVSAWIADPDVQVILITGGT 73 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCC--CHHHHHHHHHHHHhcCCCCEEEECCCc
Confidence 35778877555333 23355778889999999988777762 34467777777643 578999987644
No 355
>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=47.31 E-value=1.1e+02 Score=25.85 Aligned_cols=58 Identities=17% Similarity=0.169 Sum_probs=38.9
Q ss_pred cchHHHHHHHhhCCc-eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc--ChhhHHHHHHHHHHcC
Q 036525 91 AMIPSLTDALHAIDT-RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK--LPSLGSRIFEKANEIG 157 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~-~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~--~~~~~~~~~~~a~~~g 157 (783)
...+.+++.++..|. .+. .. . +....+..+++..+|++++.. ...++..++++.++.+
T Consensus 9 ~~~~~l~~~l~~~~~~~v~-~~------~--~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 9 EIRELLEKLLERAGYEEVT-TA------S--SGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHHTTEEEEE-EE------S--SHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhCCCCEEE-EE------C--CHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 456777778887777 332 11 1 344566667777889888874 4456778888888877
No 356
>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=47.30 E-value=87 Score=31.95 Aligned_cols=77 Identities=14% Similarity=0.056 Sum_probs=52.6
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-h---hHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-S---LGSRIFEK 152 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~---~~~~~~~~ 152 (783)
+++|.. ++.|...+...+.+++++.|..+.... ...+.+.....+..+.+.++|.+++.... . .....+.+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~ 78 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCN---TYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYER 78 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEe---CCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHH
Confidence 456664 567888899999999999998875432 22233355677888888999988886432 2 23345667
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+.+.|+
T Consensus 79 ~~~~~i 84 (273)
T cd06292 79 LAERGL 84 (273)
T ss_pred HHhCCC
Confidence 777774
No 357
>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=46.41 E-value=99 Score=28.02 Aligned_cols=50 Identities=18% Similarity=0.222 Sum_probs=34.8
Q ss_pred cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 91 AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.....+.+.+++.|.++.....++ .+.+.+...+.++.+. +|+|+..+..
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~i~~~~~~-~DlvittGG~ 68 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVP--DDADSIRAALIEASRE-ADLVLTTGGT 68 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecC--CCHHHHHHHHHHHHhc-CCEEEECCCC
Confidence 345677888999999987766654 2334677777776544 8998887543
No 358
>PRK07475 hypothetical protein; Provisional
Probab=46.05 E-value=75 Score=32.40 Aligned_cols=70 Identities=14% Similarity=0.120 Sum_probs=40.8
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEE
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPI 82 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii 82 (783)
.+.++.+|+.+ |.......-.+.+..+||+++. +.+.++.++.. +.++|+++
T Consensus 75 ~~~G~d~I~~~-Cgt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l~~~~~~~~kIGIL 128 (245)
T PRK07475 75 EAEGVRAITTS-CGFLALFQRELAAALGVPVATS-------------------------SLLQVPLIQALLPAGQKVGIL 128 (245)
T ss_pred HHcCCCEEEec-hHHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHHHHhccCCCeEEEE
Confidence 34577788776 3333344444556677877751 22333344443 36899999
Q ss_pred EEeCCcCCcchHHHHHHHhhCCce
Q 036525 83 YVDNQYGEAMIPSLTDALHAIDTR 106 (783)
Q Consensus 83 ~~d~~~G~~~~~~~~~~l~~~g~~ 106 (783)
..+.. .+ ..+.+++.|++
T Consensus 129 tt~~t---~l---~~~~l~~~Gi~ 146 (245)
T PRK07475 129 TADAS---SL---TPAHLLAVGVP 146 (245)
T ss_pred eCCch---hh---hHHHHHhCCCC
Confidence 86554 22 34668888875
No 359
>PLN02428 lipoic acid synthase
Probab=46.05 E-value=2e+02 Score=31.01 Aligned_cols=107 Identities=16% Similarity=0.185 Sum_probs=61.9
Q ss_pred cCchhhHHHHHHHHHHcCCeEEEEEEEe----CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC
Q 036525 58 LNDSSQVGAITAIIKAFGWREAVPIYVD----NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ 133 (783)
Q Consensus 58 p~~~~~~~ai~~~l~~~gw~~vaii~~d----~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~ 133 (783)
+.+......+++.+..+|.+.+.++..+ .+.|.+....+.+++++....+.....++....+ ...|..|++++
T Consensus 129 ~~d~~Ep~~vA~~v~~~Glk~vvltSg~rddl~D~ga~~~~elir~Ir~~~P~i~Ie~L~pdf~~d---~elL~~L~eAG 205 (349)
T PLN02428 129 PPDPDEPENVAEAIASWGVDYVVLTSVDRDDLPDGGSGHFAETVRRLKQLKPEILVEALVPDFRGD---LGAVETVATSG 205 (349)
T ss_pred CCChhhHHHHHHHHHHcCCCEEEEEEcCCCCCCcccHHHHHHHHHHHHHhCCCcEEEEeCccccCC---HHHHHHHHHcC
Confidence 3344455567777888999998777653 2455555666666666654333333333311111 45788888999
Q ss_pred ceEEEEEc---------------ChhhHHHHHHHHHHc--CccccceEEEE
Q 036525 134 TRVFIVHK---------------LPSLGSRIFEKANEI--GLMNKGCVWIM 167 (783)
Q Consensus 134 ~dvii~~~---------------~~~~~~~~~~~a~~~--g~~~~~~~~i~ 167 (783)
+|++-... ...+...+++.|++. |+...-++.++
T Consensus 206 ~d~i~hnlETv~rL~~~Ir~~~~sye~~Le~L~~ak~~~pGi~tkSg~MvG 256 (349)
T PLN02428 206 LDVFAHNIETVERLQRIVRDPRAGYKQSLDVLKHAKESKPGLLTKTSIMLG 256 (349)
T ss_pred CCEEccCccCcHHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEEEeEEEe
Confidence 98854322 223456677777777 76543333333
No 360
>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=46.00 E-value=1e+02 Score=28.44 Aligned_cols=50 Identities=16% Similarity=0.165 Sum_probs=35.9
Q ss_pred cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 91 AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
.....+.+.+++.|.++.....++. +.+++...+.++.+ ++|+||+.+..
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~D--d~~~i~~~l~~~~~-~~DliIttGG~ 76 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPD--DPEEIREILRKAVD-EADVVLTTGGT 76 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCC--CHHHHHHHHHHHHh-CCCEEEECCCC
Confidence 3456788889999999887776652 33467777776653 78999987643
No 361
>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=45.51 E-value=1.1e+02 Score=32.35 Aligned_cols=90 Identities=13% Similarity=0.139 Sum_probs=58.1
Q ss_pred EEEeecCc--hhhHHHHHHHHHH--------cCCeEEEEEEEeCCc--C---CcchHHHHHHHhhCCceEeEEEecCCCC
Q 036525 53 FFRGALND--SSQVGAITAIIKA--------FGWREAVPIYVDNQY--G---EAMIPSLTDALHAIDTRVPYRSVISPLA 117 (783)
Q Consensus 53 ~fr~~p~~--~~~~~ai~~~l~~--------~gw~~vaii~~d~~~--G---~~~~~~~~~~l~~~g~~v~~~~~i~~~~ 117 (783)
-+|..|-. ..+.+....++.. |.-.+|++|...++- | ......+.+.+++.|.++.....++.
T Consensus 126 ~~riiPl~v~~~~~~~a~~~~~~~gi~~V~v~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~D-- 203 (312)
T cd03522 126 TVKIIPLAVPEALVERAEALARDGPLLRVAPFRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPH-- 203 (312)
T ss_pred EEEEeeeecCHHHHHHHHHHHHhCCCcEEEecCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCC--
Confidence 35666633 3334444444433 344588888865543 2 22356788889999999988777653
Q ss_pred ChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 118 TDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 118 ~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+.+.+...+.++.+.++|+|++.+...
T Consensus 204 d~~~I~~ai~~~~~~g~DlIItTGGts 230 (312)
T cd03522 204 DEAAIAAAIAEALEAGAELLILTGGAS 230 (312)
T ss_pred CHHHHHHHHHHHhcCCCCEEEEeCCcc
Confidence 344778888877766789999876543
No 362
>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=45.19 E-value=1.2e+02 Score=29.61 Aligned_cols=89 Identities=12% Similarity=-0.048 Sum_probs=60.1
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh----hhHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP----SLGSRIFEK 152 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~----~~~~~~~~~ 152 (783)
.+|.+....++.-.-...-+...++..|.+|.+-- .+. .....+..+++.+||+|.+.+.. .....++++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~~v---p~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~ 158 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---RDV---PIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDK 158 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---CCC---CHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHH
Confidence 46666666666655666777788888999886532 122 23455667778899998887542 467888888
Q ss_pred HHHcCccccceEEEEeCCc
Q 036525 153 ANEIGLMNKGCVWIMTDGM 171 (783)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~ 171 (783)
.++.|....-.+|+++...
T Consensus 159 l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 159 LKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHcCCCCCCEEEEEChhc
Confidence 9998875445666766554
No 363
>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=45.17 E-value=84 Score=31.83 Aligned_cols=76 Identities=14% Similarity=0.160 Sum_probs=51.2
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|-..+...+.+++++.|..+.... ...+.......+.++.+.++|.|++.....+. ..++++++.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~ 77 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCN---SDNDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKN 77 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEc---CCCCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcC
Confidence 455553 466778889999999999998875432 22223344567778888899988887654333 236777777
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 78 ~i 79 (267)
T cd06283 78 GK 79 (267)
T ss_pred CC
Confidence 64
No 364
>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=44.96 E-value=82 Score=31.95 Aligned_cols=76 Identities=13% Similarity=0.011 Sum_probs=50.7
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|-..+.+.+++++++.|..+..... ..+...-...+.++.+.++|.|++..... ...+++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS---DNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREEFKRS 77 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC---CCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHHHhcC
Confidence 566664 4678888899999999999988765432 22233445677778888999999865321 22455566655
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 78 ~i 79 (268)
T cd06298 78 PT 79 (268)
T ss_pred CC
Confidence 53
No 365
>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=44.78 E-value=1.2e+02 Score=33.17 Aligned_cols=141 Identities=17% Similarity=0.182 Sum_probs=76.2
Q ss_pred ccCCchhHHHHHcc-cCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCc-
Q 036525 14 GPEDSMPTNFIIQP-GNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEA- 91 (783)
Q Consensus 14 Gp~~S~~~~av~~~-~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~- 91 (783)
|-.+++...|+.-. ...+++|++.++- |... +- +-++.....+.+|...+++.|+-..++++.+.+++-+.
T Consensus 197 ~F~gTdtv~A~~~~~~~~yg~~~~G~sI--Pa~e---HS--~i~s~~~~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~ 269 (407)
T cd01569 197 NFKGTDTIPALDAAYAYYYEDPMAGFSI--PAAE---HS--TMTAWGRERELEAFRNLLEQFGPGIVSVVSDSYDFWNAL 269 (407)
T ss_pred CCccchhhhhhhHHHHHhcCCCcccccc--cHHH---hH--HHHhCCCccHHHHHHHHHHHcCCCcEEEEecCccHHHHH
Confidence 33444445554333 5677788776531 1111 00 11122224567889999998876677787877776544
Q ss_pred --chHHHHHHHhhCCceEeEEEecCCCCCh-hHHHHHHHHHh-c--------cC-----ceEEEEEcCh---hhHHHHHH
Q 036525 92 --MIPSLTDALHAIDTRVPYRSVISPLATD-DQIEKELYKLF-T--------MQ-----TRVFIVHKLP---SLGSRIFE 151 (783)
Q Consensus 92 --~~~~~~~~l~~~g~~v~~~~~i~~~~~~-~d~~~~l~~l~-~--------~~-----~dvii~~~~~---~~~~~~~~ 151 (783)
..+.+++.+.+.|.++ .+.++.++ .++.....++. + .+ +++-|+.+.+ ..+..++.
T Consensus 270 ~~~~~~lk~~i~~~g~~l----viRpDSGD~~~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii~gd~ide~~i~~Il~ 345 (407)
T cd01569 270 TLWGPRLKDEILARGGTL----VIRPDSGDPVDIICGVLEILGEIFGGTVNSKGYKVLNPHVRIIQGDGITLERIEEILE 345 (407)
T ss_pred HHHHHHHHHHHHhcCCcE----EEECCCCCHHHHHHHHHHHHHHHhCCcccCCcccccCCceEEEEcCCCCHHHHHHHHH
Confidence 2334444445567775 23355553 22322222322 2 24 5666776655 34666777
Q ss_pred HHHHcCccccceEE
Q 036525 152 KANEIGLMNKGCVW 165 (783)
Q Consensus 152 ~a~~~g~~~~~~~~ 165 (783)
..++.|....+-+|
T Consensus 346 ~L~~~G~~~dNi~f 359 (407)
T cd01569 346 RLKAKGFASENIVF 359 (407)
T ss_pred HHHHCCCccccceE
Confidence 78888986664444
No 366
>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=44.28 E-value=31 Score=30.56 Aligned_cols=88 Identities=16% Similarity=0.126 Sum_probs=46.8
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHh--ccCceEEEEEcChhhHHHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLF--TMQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~--~~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
|+++++...+.-++ ....+.+.+.+.|.+|... .+..+.-+=.+....+. -..+|+++++........+++++.
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~V---np~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~ 76 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPV---NPKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA 76 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEE---STTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEE---CCCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH
Confidence 46777775544333 3344555566677665432 22222100001222333 357899999999999999999999
Q ss_pred HcCccccceEEEEeCCc
Q 036525 155 EIGLMNKGCVWIMTDGM 171 (783)
Q Consensus 155 ~~g~~~~~~~~i~~~~~ 171 (783)
+.| .+.+|+.++..
T Consensus 77 ~~g---~~~v~~~~g~~ 90 (116)
T PF13380_consen 77 ALG---VKAVWLQPGAE 90 (116)
T ss_dssp HHT----SEEEE-TTS-
T ss_pred HcC---CCEEEEEcchH
Confidence 998 46779988843
No 367
>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=44.27 E-value=74 Score=32.63 Aligned_cols=62 Identities=11% Similarity=0.111 Sum_probs=46.0
Q ss_pred EEEEEEEe-----CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 78 EAVPIYVD-----NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 78 ~vaii~~d-----~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
||+++.++ +.|...+...+.+++++.|..+..... . +..+....+..+.+.++|.||+....
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~gy~~~i~~~---~-~~~~~~~~i~~l~~~~vdgiI~~~~~ 67 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKELGIEYKYVES---K-SDADYEPNLEQLADAGYDLIVGVGFL 67 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHcCCeEEEEec---C-CHHHHHHHHHHHHhCCCCEEEEcCcc
Confidence 46777743 568888999999999999998866432 1 23355677888889999999987543
No 368
>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=43.91 E-value=78 Score=32.09 Aligned_cols=75 Identities=12% Similarity=0.065 Sum_probs=46.6
Q ss_pred EEEEEEe------CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHH-hccCceEEEEEcChhhHHHHHH
Q 036525 79 AVPIYVD------NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKL-FTMQTRVFIVHKLPSLGSRIFE 151 (783)
Q Consensus 79 vaii~~d------~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l-~~~~~dvii~~~~~~~~~~~~~ 151 (783)
|+++.++ +.|...+...+.+++++.|+.+..... . ...+-...+.++ .+.++|.|++....... ..+.
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~---~~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~ 76 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGYDLVLLPV-D---PDEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVA 76 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCceEEEecC-C---CcHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHH
Confidence 4566655 788888999999999999988765432 1 112222334443 45679988886543222 2345
Q ss_pred HHHHcCc
Q 036525 152 KANEIGL 158 (783)
Q Consensus 152 ~a~~~g~ 158 (783)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (268)
T cd06271 77 LLLERGF 83 (268)
T ss_pred HHHhcCC
Confidence 6666664
No 369
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=43.74 E-value=1.6e+02 Score=31.78 Aligned_cols=98 Identities=11% Similarity=0.006 Sum_probs=60.3
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEE--ecCCCCChhHHHHHHHHHhccCc---eEEEEE
Q 036525 66 AITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRS--VISPLATDDQIEKELYKLFTMQT---RVFIVH 140 (783)
Q Consensus 66 ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~--~i~~~~~~~d~~~~l~~l~~~~~---dvii~~ 140 (783)
.+.++++. .+++.+++....+ ....+.+.+.+++.|+.+.... .....++.+.+...+..+++.++ |+||..
T Consensus 12 ~l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIav 88 (344)
T TIGR01357 12 QLVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKLTVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIAL 88 (344)
T ss_pred HHHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 34555554 3888888854444 4467778888998887653221 12223344567777778877665 888877
Q ss_pred cChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 141 KLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 141 ~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
|.+. |+..++......|+ .++-|-|.
T Consensus 89 GGGsv~D~aK~iA~~~~~~~---p~i~VPTT 116 (344)
T TIGR01357 89 GGGVVGDLAGFVAATYMRGI---RFIQVPTT 116 (344)
T ss_pred cChHHHHHHHHHHHHHccCC---CEEEecCc
Confidence 7665 67777765555553 34444443
No 370
>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=43.67 E-value=89 Score=31.90 Aligned_cols=77 Identities=9% Similarity=0.116 Sum_probs=50.4
Q ss_pred EEEEEEe--CCcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHH
Q 036525 79 AVPIYVD--NQYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKAN 154 (783)
Q Consensus 79 vaii~~d--~~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~ 154 (783)
|+++..+ +.|...+...+.+++++. |.++..... ..+..+-...+..+.+.++|.|++.....+ ....+..+.
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~ 78 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDVELIIADA---ADDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAY 78 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCcEEEEEcC---CCCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHH
Confidence 5666643 456677888999999986 888754321 222334456677777889999888754332 345667777
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 79 ~~~i 82 (270)
T cd06308 79 RAGI 82 (270)
T ss_pred HCCC
Confidence 7774
No 371
>TIGR03405 Phn_Fe-ADH phosphonate metabolism-associated iron-containing alcohol dehydrogenase. 2-hydroxyethylphosphonate (2-HEP), the presumed product of the reaction of Pald with an alcohol dehydrogenase, is a biologically novel but reasonable analog of 2-AEP and may be a constituent of as-yet undescribed natural products. In the case of Azoarcus, downstream of the dehydrogenase is a CDP-glycerol:glycerophosphate transferase homolog that may indicate the existence of a pathway for 2-HEP-derived phosphonolipid biosynthesis.
Probab=43.61 E-value=1.6e+02 Score=31.84 Aligned_cols=77 Identities=12% Similarity=0.053 Sum_probs=51.0
Q ss_pred CCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccC--ceEEEEEcChh--hHHHHH
Q 036525 75 GWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFIVHKLPS--LGSRIF 150 (783)
Q Consensus 75 gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~--~dvii~~~~~~--~~~~~~ 150 (783)
+.+++.++........+..+.+.+.+++.. +.....+..+++.+++......+++.+ +|+||..+.+. |...++
T Consensus 22 ~~~r~lvVtd~~~~~~g~~~~v~~~L~~~~--~~~~~~v~~~pt~~~v~~~~~~~~~~~~~~D~IIaiGGGSviD~aK~i 99 (355)
T TIGR03405 22 HGRRVVVVTFPEARALGLARRLEALLGGRL--AALIDDVAPNPDVAQLDGLYARLWGDEGACDLVIALGGGSVIDTAKVL 99 (355)
T ss_pred CCCeEEEEECcchhhcchHHHHHHHhccCc--EEEeCCCCCCcCHHHHHHHHHHHHhcCCCCCEEEEeCCccHHHHHHHH
Confidence 348888888544444567788888886543 222223455666667777777787766 99999887665 666665
Q ss_pred HHH
Q 036525 151 EKA 153 (783)
Q Consensus 151 ~~a 153 (783)
...
T Consensus 100 a~~ 102 (355)
T TIGR03405 100 AVG 102 (355)
T ss_pred HHH
Confidence 544
No 372
>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=43.30 E-value=84 Score=32.15 Aligned_cols=75 Identities=9% Similarity=0.100 Sum_probs=50.9
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHH-HHhccCceEEEEEcChhhHHHHHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELY-KLFTMQTRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~-~l~~~~~dvii~~~~~~~~~~~~~~a~~ 155 (783)
|+++.+ ++.|.......+.+++++.|..+..... . .+.+....+. .+...++|.|++.....+ ...+..+++
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~---~-~~~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~ 76 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYDLALFPL---L-SLARLKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLP 76 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCEEEEEeC---C-CcHHHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhh
Confidence 566775 4668888999999999999988876432 1 2234455564 477778998888764333 345566666
Q ss_pred cCc
Q 036525 156 IGL 158 (783)
Q Consensus 156 ~g~ 158 (783)
.|.
T Consensus 77 ~~i 79 (269)
T cd06297 77 TER 79 (269)
T ss_pred cCC
Confidence 664
No 373
>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=43.25 E-value=21 Score=26.09 Aligned_cols=27 Identities=30% Similarity=0.538 Sum_probs=21.9
Q ss_pred hhHHHHHHHHHHHHHHhhheeecccCC
Q 036525 419 WDLWVTSGCFFIFIGFVVWVFEHRIND 445 (783)
Q Consensus 419 ~~vWl~i~~~~~~~~~~~~~~~~~~~~ 445 (783)
.++|.++..+++++++++|.+..+..+
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~~k~ 37 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPGRKK 37 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcch
Confidence 368999999999999999999765543
No 374
>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=43.11 E-value=1.2e+02 Score=29.06 Aligned_cols=46 Identities=17% Similarity=0.242 Sum_probs=29.1
Q ss_pred hHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 93 IPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 93 ~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
...+.+.+++.|.++.....++. +...+...+.++.+ .+|+||+.+
T Consensus 21 ~~~l~~~L~~~G~~v~~~~~v~D--d~~~I~~~l~~~~~-~~dlVIttG 66 (170)
T cd00885 21 AAFLAKELAELGIEVYRVTVVGD--DEDRIAEALRRASE-RADLVITTG 66 (170)
T ss_pred HHHHHHHHHHCCCEEEEEEEeCC--CHHHHHHHHHHHHh-CCCEEEECC
Confidence 45677778888888776665542 23356666665543 567776654
No 375
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=42.96 E-value=2.3e+02 Score=24.74 Aligned_cols=43 Identities=14% Similarity=0.009 Sum_probs=18.8
Q ss_pred hHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 93 IPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 93 ~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
...+...+++.|.+|..... ... .......+++.+||+|.+.+
T Consensus 17 l~~la~~l~~~G~~v~~~d~---~~~---~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDA---NVP---PEELVEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEES---SB----HHHHHHHHHHTTCSEEEEEE
T ss_pred HHHHHHHHHHCCCeEEEECC---CCC---HHHHHHHHhcCCCcEEEEEc
Confidence 44445555555555543221 111 12333444455566555544
No 376
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=42.92 E-value=1e+02 Score=33.55 Aligned_cols=26 Identities=15% Similarity=0.224 Sum_probs=15.3
Q ss_pred cccCCeEEEEccCCchhHHHHHcccC
Q 036525 4 LNNAQVRVMLGPEDSMPTNFIIQPGN 29 (783)
Q Consensus 4 i~~~~V~aiIGp~~S~~~~av~~~~~ 29 (783)
+.+.++.+++||.+++-+..++.++.
T Consensus 134 ~~~g~ii~lvGptGvGKTTtiakLA~ 159 (374)
T PRK14722 134 MERGGVFALMGPTGVGKTTTTAKLAA 159 (374)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence 34445666666666666655555543
No 377
>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=42.80 E-value=73 Score=32.73 Aligned_cols=71 Identities=10% Similarity=0.023 Sum_probs=50.5
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHHHHHHHcCc
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIFEKANEIGL 158 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~~~a~~~g~ 158 (783)
.+.|...+.+.+.+++++.|.++..... ..+.......+..+.+.++|.|++.... ......++++.+.|+
T Consensus 10 ~~~f~~~~~~gi~~~~~~~G~~~~~~~~---~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 10 QATWCAQGKQAADEAGKLLGVDVTWYGG---ALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred CChHHHHHHHHHHHHHHHcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 3567778888999999999988865432 2233345567778888999999886543 335667788888775
No 378
>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=42.64 E-value=67 Score=33.40 Aligned_cols=77 Identities=12% Similarity=0.121 Sum_probs=54.8
Q ss_pred eEEEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHH
Q 036525 77 REAVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 77 ~~vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~ 154 (783)
+.+++|.++ +.|...++..+.+++++.|..+..... ..+.+-...+..+.+.++|-||+.+...+...+....
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t----~~~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~- 76 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNT----GDDEEKEEYIELLLQRRVDGIILASSENDDEELRRLI- 76 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEE----TTTHHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHH-
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecC----CCchHHHHHHHHHHhcCCCEEEEecccCChHHHHHHH-
Confidence 467888854 667888999999999999998865443 1223333888889999999999987766634444333
Q ss_pred HcCc
Q 036525 155 EIGL 158 (783)
Q Consensus 155 ~~g~ 158 (783)
+.|+
T Consensus 77 ~~~i 80 (279)
T PF00532_consen 77 KSGI 80 (279)
T ss_dssp HTTS
T ss_pred HcCC
Confidence 3353
No 379
>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=42.51 E-value=99 Score=31.23 Aligned_cols=74 Identities=12% Similarity=0.019 Sum_probs=49.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|...+.+.+++++++.|.++..... ..+...-...+..+.+.++|.|++...... ...++++.+.
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQT---NYDKEKELEYLELLKTKQVDGLILCSREND-WEVIEPYTKY 77 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---CCChHHHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 566665 4778888999999999999998865432 222223446677788889998888654322 2345555554
No 380
>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=42.35 E-value=90 Score=31.60 Aligned_cols=77 Identities=9% Similarity=0.044 Sum_probs=50.0
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|++|.+ ++.|...+...+++++++.|..+..... .......-...+..+.+.++|.+++........ .+.++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~ 78 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML--AEADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPA 78 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC--CCCchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhc
Confidence 456663 4567788899999999999988765432 111123455667778888999998866543333 33445566
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 79 ~i 80 (264)
T cd01574 79 DV 80 (264)
T ss_pred CC
Confidence 63
No 381
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=42.22 E-value=1.2e+02 Score=30.94 Aligned_cols=88 Identities=14% Similarity=0.080 Sum_probs=49.5
Q ss_pred chhhHHHHHHH--HHH---cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCc
Q 036525 60 DSSQVGAITAI--IKA---FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQT 134 (783)
Q Consensus 60 ~~~~~~ai~~~--l~~---~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~ 134 (783)
....++.++++ ++. ..-++|.++. |....+.+.+.|++.|.+|.....|.......+-......+...+.
T Consensus 109 ~~~~se~Ll~~~~l~~~~~~~~~~vLi~r-----g~~~r~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~~~~~~ 183 (255)
T PRK05752 109 QGDDSEALLALPALRQALAVPDPRVLIMR-----GEGGRELLAERLREQGASVDYLELYRRCLPDYPAGTLLQRVEAERL 183 (255)
T ss_pred CCCCcHHHHhChhhhccccCCCCEEEEEc-----cCccHHHHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHHHhCCC
Confidence 33446666665 332 1334555554 3445667889999999888766655422221122334455555667
Q ss_pred eEEEEEcChhhHHHHHHHH
Q 036525 135 RVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 135 dvii~~~~~~~~~~~~~~a 153 (783)
|+|++. ++..+..|+...
T Consensus 184 d~v~ft-S~~~~~~~~~~~ 201 (255)
T PRK05752 184 NGLVVS-SGQGFEHLQQLA 201 (255)
T ss_pred CEEEEC-CHHHHHHHHHHh
Confidence 766655 556666665543
No 382
>PRK14737 gmk guanylate kinase; Provisional
Probab=42.08 E-value=1.8e+02 Score=28.25 Aligned_cols=128 Identities=14% Similarity=0.145 Sum_probs=64.6
Q ss_pred CCeEEEEccCCchhHHHHHcccCCC-CccE-EeeccCCCCCCC-CCCCeEEEeecCchhhHHHHHHHHHH---cCCeEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKS-QVPI-LSFSATSPSLTS-IRSPYFFRGALNDSSQVGAITAIIKA---FGWREAV 80 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~-~vP~-Is~~a~s~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~---~gw~~va 80 (783)
..+.+|+||.+|+-+.-+..+.++. ++.. ++++.-.|...+ .+-.|+|-+.. +. .+.++. .-|..
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~~~~~~~~v~~TTR~~r~gE~~G~dY~fvs~~----~F---~~~i~~~~f~e~~~-- 74 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRAPRPGDEEGKTYFFLTIE----EF---KKGIADGEFLEWAE-- 74 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhcCCccccccCccCCCCCCCCCCCceeEeCCHH----HH---HHHHHcCCeEEEEE--
Confidence 4678999999999888888887765 2321 122222232222 34578876422 22 222221 12222
Q ss_pred EEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceE-EEEEcChhhHHHHHHHHHHcC
Q 036525 81 PIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRV-FIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 81 ii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dv-ii~~~~~~~~~~~~~~a~~~g 157 (783)
|.++-||.. .+.+.+.+++..++|... + . .-+..+++..++. ++++..++....+.+...+.|
T Consensus 75 --~~g~~YGt~-~~~i~~~~~~g~~~i~d~-------~---~-~g~~~l~~~~~~~~~~Ifi~pps~e~l~~RL~~R~ 138 (186)
T PRK14737 75 --VHDNYYGTP-KAFIEDAFKEGRSAIMDI-------D---V-QGAKIIKEKFPERIVTIFIEPPSEEEWEERLIHRG 138 (186)
T ss_pred --ECCeeecCc-HHHHHHHHHcCCeEEEEc-------C---H-HHHHHHHHhCCCCeEEEEEECCCHHHHHHHHHhcC
Confidence 346778865 445666676555554321 1 1 1234455555543 444444444444444444444
No 383
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=42.01 E-value=3.7e+02 Score=26.90 Aligned_cols=89 Identities=10% Similarity=0.091 Sum_probs=57.0
Q ss_pred hHHHHHHHHHHcCCeEEEEEE---------------EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHH
Q 036525 63 QVGAITAIIKAFGWREAVPIY---------------VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELY 127 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~---------------~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~ 127 (783)
.+..++..|...|..++.++- ..++-|+..++.+.+.+++.+-.+.... ++...+.+++...+
T Consensus 32 lGs~va~~La~~Gvg~i~lvD~D~ve~sNL~Rq~l~~~~diG~~Ka~~~~~~l~~~np~~~i~~-~~~~i~~~~~~~~~- 109 (228)
T cd00757 32 LGSPAAEYLAAAGVGKLGLVDDDVVELSNLQRQILHTEADVGQPKAEAAAERLRAINPDVEIEA-YNERLDAENAEELI- 109 (228)
T ss_pred HHHHHHHHHHHcCCCEEEEEcCCEEcCcccccccccChhhCCChHHHHHHHHHHHhCCCCEEEE-ecceeCHHHHHHHH-
Confidence 456677778888998888873 3346788999999999998865443222 22122222332222
Q ss_pred HHhccCceEEEEEcChhhHHHHHH-HHHHcC
Q 036525 128 KLFTMQTRVFIVHKLPSLGSRIFE-KANEIG 157 (783)
Q Consensus 128 ~l~~~~~dvii~~~~~~~~~~~~~-~a~~~g 157 (783)
.+.|+||.+.........+. .+++.+
T Consensus 110 ----~~~DvVi~~~d~~~~r~~l~~~~~~~~ 136 (228)
T cd00757 110 ----AGYDLVLDCTDNFATRYLINDACVKLG 136 (228)
T ss_pred ----hCCCEEEEcCCCHHHHHHHHHHHHHcC
Confidence 35899998887776666554 455665
No 384
>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=41.76 E-value=97 Score=31.45 Aligned_cols=69 Identities=10% Similarity=0.138 Sum_probs=43.5
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHH-HhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYK-LFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~-l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
++.|...+.+.+++++++.|.++.... . . +..+-...+.+ +.+.++|.||+...... ...++.+.+.|.
T Consensus 15 ~~~~~~~~~~~~~~~~~~~g~~~~~~~--~-~-~~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~i 84 (270)
T cd06294 15 QNPFFIEVLRGISAVANENGYDISLAT--G-K-NEEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKF 84 (270)
T ss_pred CCCCHHHHHHHHHHHHHHCCCEEEEec--C-C-CcHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCC
Confidence 356777888999999999998876432 1 1 12233344444 44557998888753322 345677777774
No 385
>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=41.52 E-value=1.2e+02 Score=31.00 Aligned_cols=80 Identities=10% Similarity=0.030 Sum_probs=51.5
Q ss_pred EEEEEEEe----CCcCCcchHHHHHHHhh-------CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhH
Q 036525 78 EAVPIYVD----NQYGEAMIPSLTDALHA-------IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLG 146 (783)
Q Consensus 78 ~vaii~~d----~~~G~~~~~~~~~~l~~-------~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~ 146 (783)
+|+++.+. ..+|......++.++++ .|.++..... ....+.......+.++.+.++++|+........
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~-d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVE-DTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEe-cCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 35666644 46888888888888877 3455544432 222222345566777777789988876656566
Q ss_pred HHHHHHHHHcCc
Q 036525 147 SRIFEKANEIGL 158 (783)
Q Consensus 147 ~~~~~~a~~~g~ 158 (783)
..+...+.+.|+
T Consensus 80 ~~~~~~~~~~~i 91 (298)
T cd06268 80 LAAAPVAEEAGV 91 (298)
T ss_pred HhhHHHHHhCCC
Confidence 667777877775
No 386
>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=41.42 E-value=1.4e+02 Score=28.60 Aligned_cols=87 Identities=14% Similarity=0.192 Sum_probs=50.7
Q ss_pred eecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCce
Q 036525 56 GALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTR 135 (783)
Q Consensus 56 ~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~d 135 (783)
..++.....+++.+. +..+ ++++++.-.+.. .....+.+.+ |.++..... .+.+|+...+.++++.+.|
T Consensus 59 I~~s~~Dil~al~~a-~~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~~----~~~~e~~~~i~~~~~~G~~ 127 (176)
T PF06506_consen 59 IPISGFDILRALAKA-KKYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYPY----DSEEEIEAAIKQAKAEGVD 127 (176)
T ss_dssp E---HHHHHHHHHHC-CCCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEEE----SSHHHHHHHHHHHHHTT--
T ss_pred ECCCHhHHHHHHHHH-HhcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEEE----CCHHHHHHHHHHHHHcCCc
Confidence 444444444444442 2333 799988866555 2255555555 666654433 2456999999999999999
Q ss_pred EEEEEcChhhHHHHHHHHHHcCcc
Q 036525 136 VFIVHKLPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 136 vii~~~~~~~~~~~~~~a~~~g~~ 159 (783)
+|+-.+. ..+.|++.|+.
T Consensus 128 viVGg~~------~~~~A~~~gl~ 145 (176)
T PF06506_consen 128 VIVGGGV------VCRLARKLGLP 145 (176)
T ss_dssp EEEESHH------HHHHHHHTTSE
T ss_pred EEECCHH------HHHHHHHcCCc
Confidence 9887543 35677888873
No 387
>PF13155 Toprim_2: Toprim-like
Probab=41.39 E-value=44 Score=28.14 Aligned_cols=42 Identities=12% Similarity=0.170 Sum_probs=36.0
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCC
Q 036525 63 QVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAID 104 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g 104 (783)
..+.+.++++..+.++|.+..++|.-|+...+.+.+.+++.+
T Consensus 34 ~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 34 SEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 345788888776668899999999999999999999999877
No 388
>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=41.36 E-value=39 Score=27.45 Aligned_cols=41 Identities=12% Similarity=0.203 Sum_probs=34.0
Q ss_pred HHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEe
Q 036525 67 ITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVP 108 (783)
Q Consensus 67 i~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~ 108 (783)
..++++.+ .++|.+.+++|.-|+..++.+.+.+.+.|.++.
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEE
Confidence 45555554 689999999999999999999999999987764
No 389
>PRK03427 cell division protein ZipA; Provisional
Probab=41.30 E-value=1.3e+02 Score=32.01 Aligned_cols=46 Identities=17% Similarity=0.300 Sum_probs=27.4
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCccccccCcc
Q 036525 644 LNSFWGLFLIAGIAAILALIIFLAVFVHQHRNVLRNSESSLLDLSAH 690 (783)
Q Consensus 644 l~~l~g~F~il~~g~~ls~~vfl~E~~~~~~~~~r~~~~~~~~~~~~ 690 (783)
|+||.-+.+++|+-.++|+++..++-..+.|...- ||.++|+.|+-
T Consensus 2 MqdLrLiLivvGAIAIiAlL~HGlWtsRKers~~f-rdrP~kr~k~~ 47 (333)
T PRK03427 2 MQDLRLILIIVGAIAIIALLVHGFWTSRKERSSMF-RDRPLKRMKSK 47 (333)
T ss_pred chhhhhHHHHHHHHHHHHHHHHhhhhccccccchh-ccCCccccccc
Confidence 56777777777777777777776554443333332 45555555544
No 390
>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=41.19 E-value=1.6e+02 Score=31.01 Aligned_cols=79 Identities=11% Similarity=0.026 Sum_probs=51.6
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
-+.|+++.. ++.|...+...+.+++++.|..+..... ..........+..+.+.+.|.||+...... ..+...+
T Consensus 59 ~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~l 134 (329)
T TIGR01481 59 TTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILSNS---DEDPEKEVQVLNTLLSKQVDGIIFMGGTIT-EKLREEF 134 (329)
T ss_pred CCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHH
Confidence 357888886 4667778889999999999988755321 122223445667777889998888653221 2344555
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
.+.|+
T Consensus 135 ~~~~i 139 (329)
T TIGR01481 135 SRSPV 139 (329)
T ss_pred HhcCC
Confidence 66664
No 391
>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=40.85 E-value=58 Score=31.91 Aligned_cols=64 Identities=8% Similarity=0.057 Sum_probs=38.1
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhH-HHHHHHHHhccCceEEEEEcCh
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQ-IEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d-~~~~l~~l~~~~~dvii~~~~~ 143 (783)
-++|++|.. |.|-.+..+.++...+..|+.+.... ...+..+ ....+.+.+..+.|+|++.+.+
T Consensus 29 ~~~v~lis~-D~~R~ga~eQL~~~a~~l~vp~~~~~---~~~~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISA-DTYRIGAVEQLKTYAEILGVPFYVAR---TESDPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEE-STSSTHHHHHHHHHHHHHTEEEEESS---TTSCHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecC-CCCCccHHHHHHHHHHHhccccchhh---cchhhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 467777774 45566778888888888886653311 1112222 3355666667778888887765
No 392
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=40.54 E-value=4e+02 Score=27.25 Aligned_cols=143 Identities=13% Similarity=0.139 Sum_probs=84.8
Q ss_pred cccccCCeEEEEc---cCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeE
Q 036525 2 DLLNNAQVRVMLG---PEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWRE 78 (783)
Q Consensus 2 ~Li~~~~V~aiIG---p~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~ 78 (783)
+++.+.++.+||= |+-...+..+...|.+.+||++-+--....... .+. ++...+ .+..++++...+.++
T Consensus 60 ~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~eRp~~~~~~--~~~-~~~v~~----~~eA~~~l~~~~~~~ 132 (249)
T PF02571_consen 60 EFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFERPSWQPEP--DDN-WHYVDS----YEEAAELLKELGGGR 132 (249)
T ss_pred HHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEEcCCcccCC--CCe-EEEeCC----HHHHHHHHhhcCCCC
Confidence 3567778999984 677788888999999999999998643333221 223 334343 344666666677677
Q ss_pred EEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCC-----hh-------HHH--HHHHHHhccCceEEEEEcChh
Q 036525 79 AVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLAT-----DD-------QIE--KELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 79 vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~-----~~-------d~~--~~l~~l~~~~~dvii~~~~~~ 144 (783)
|.+-. |...++.|.. ....+-.+..+. +|.... .. -|+ ....-+++.++|++|.=-++.
T Consensus 133 ifltt-----Gsk~L~~f~~-~~~~~~r~~~Rv-Lp~~~~~~g~~~~~iia~~GPfs~e~n~al~~~~~i~~lVtK~SG~ 205 (249)
T PF02571_consen 133 IFLTT-----GSKNLPPFVP-APLPGERLFARV-LPTPESALGFPPKNIIAMQGPFSKELNRALFRQYGIDVLVTKESGG 205 (249)
T ss_pred EEEeC-----chhhHHHHhh-cccCCCEEEEEE-CCCccccCCCChhhEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCc
Confidence 76655 5556666665 444444554433 222111 00 022 223345677888888744443
Q ss_pred -hHHHHHHHHHHcCc
Q 036525 145 -LGSRIFEKANEIGL 158 (783)
Q Consensus 145 -~~~~~~~~a~~~g~ 158 (783)
....=+.+|+++|+
T Consensus 206 ~g~~eKi~AA~~lgi 220 (249)
T PF02571_consen 206 SGFDEKIEAARELGI 220 (249)
T ss_pred hhhHHHHHHHHHcCC
Confidence 34455667777776
No 393
>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=40.29 E-value=2e+02 Score=28.56 Aligned_cols=116 Identities=13% Similarity=0.079 Sum_probs=65.4
Q ss_pred CCccEEeeccC-CCCCCCCCCCeEEEeecCchhhHHHHHHHHHHc--CCeEEEEEEEeCCcCCcchHHHHHHHhhCCceE
Q 036525 31 SQVPILSFSAT-SPSLTSIRSPYFFRGALNDSSQVGAITAIIKAF--GWREAVPIYVDNQYGEAMIPSLTDALHAIDTRV 107 (783)
Q Consensus 31 ~~vP~Is~~a~-s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v 107 (783)
.++++++-+.. ...+.+.+.+-.+- .+...++.+++++... .-+++.++. |......+.+.|++.|..+
T Consensus 77 ~~~~~~avG~~Ta~~l~~~g~~~~~~---~~~~~~~~L~~~i~~~~~~~~~il~~~-----g~~~~~~l~~~L~~~g~~v 148 (239)
T cd06578 77 AGLKIAAVGPKTAEALREAGLTADFV---PEEGDSEGLLELLELQDGKGKRILRPR-----GGRAREDLAEALRERGAEV 148 (239)
T ss_pred cCCEEEEECHHHHHHHHHcCCCceeC---CCccCHHHHHHHHHhcCCCCCEEEEEc-----CcchhHHHHHHHHHCCCEE
Confidence 45666655432 22233323222221 2444577788888664 344555544 3344678889999999888
Q ss_pred eEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 108 PYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 108 ~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
.....+...... +.......+.+...+ +++++++..+..++....+.
T Consensus 149 ~~~~~Y~~~~~~-~~~~~~~~l~~~~~~-~iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 149 DEVEVYRTVPPD-LDAELLELLEEGAID-AVLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEEEEEEECCC-CcHHHHHHHHcCCCc-EEEEeCHHHHHHHHHHHhhh
Confidence 766555432221 112333445544444 56667788888888887764
No 394
>PRK00865 glutamate racemase; Provisional
Probab=40.00 E-value=83 Score=32.44 Aligned_cols=33 Identities=6% Similarity=0.161 Sum_probs=20.8
Q ss_pred ccCCeEEEEccCCchhHHHHHcccCCCCccEEe
Q 036525 5 NNAQVRVMLGPEDSMPTNFIIQPGNKSQVPILS 37 (783)
Q Consensus 5 ~~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is 37 (783)
.+.++.+|+=+-.+..+.++-.+-+..++|+|+
T Consensus 64 ~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 64 LEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 345777776554555544555565667888887
No 395
>cd02809 alpha_hydroxyacid_oxid_FMN Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO). In green plants, glycolate oxidase is one of the key enzymes in photorespiration where it oxidizes glycolate to glyoxylate. LMO catalyzes the oxidation of L-lactate to acetate and carbon dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate. It is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate.
Probab=39.92 E-value=3.6e+02 Score=28.39 Aligned_cols=153 Identities=11% Similarity=0.131 Sum_probs=82.7
Q ss_pred EEEEccCCc------hhHHHHHcccCCCCccEEeeccCCCCCC---C-CCCCeEEEeecC-chhhHHHHHHHHHHcCCeE
Q 036525 10 RVMLGPEDS------MPTNFIIQPGNKSQVPILSFSATSPSLT---S-IRSPYFFRGALN-DSSQVGAITAIIKAFGWRE 78 (783)
Q Consensus 10 ~aiIGp~~S------~~~~av~~~~~~~~vP~Is~~a~s~~ls---~-~~~~~~fr~~p~-~~~~~~ai~~~l~~~gw~~ 78 (783)
-.+|+|..- ..-.+++..+++.+++++-.+-+...+. . ...|.+++.... +......+++.+...|.+-
T Consensus 66 Pi~iapm~g~~~~~~~~~~~la~aa~~~g~~~~~~~~~~~~~~~i~~~~~~~~~~ql~~~~~~~~~~~~i~~~~~~g~~~ 145 (299)
T cd02809 66 PFGIAPTGLQGLAHPDGELATARAAAAAGIPFTLSTVSTTSLEEVAAAAPGPRWFQLYVPRDREITEDLLRRAEAAGYKA 145 (299)
T ss_pred CeeeCcccccccCCchHHHHHHHHHHHcCCCEEecCCCcCCHHHHHHhcCCCeEEEEeecCCHHHHHHHHHHHHHcCCCE
Confidence 456666631 1346788889999999964432222222 1 235888888765 5566666777777778765
Q ss_pred EEEEEEeCC-cCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh-------hHHHH
Q 036525 79 AVPIYVDNQ-YGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS-------LGSRI 149 (783)
Q Consensus 79 vaii~~d~~-~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~-------~~~~~ 149 (783)
+.+-. |.. -|........+.+++ .++.|...... +. ....++.+.++|.|++.+.+. .....
T Consensus 146 i~l~~-~~p~~~~~~~~~~i~~l~~~~~~pvivK~v~----s~----~~a~~a~~~G~d~I~v~~~gG~~~~~g~~~~~~ 216 (299)
T cd02809 146 LVLTV-DTPVLGRRLTWDDLAWLRSQWKGPLILKGIL----TP----EDALRAVDAGADGIVVSNHGGRQLDGAPATIDA 216 (299)
T ss_pred EEEec-CCCCCCCCCCHHHHHHHHHhcCCCEEEeecC----CH----HHHHHHHHCCCCEEEEcCCCCCCCCCCcCHHHH
Confidence 44433 222 121111223334443 36666655431 11 234667789999999966431 23444
Q ss_pred HHHHHH-cCccccceEEEEeCCcccc
Q 036525 150 FEKANE-IGLMNKGCVWIMTDGMTNL 174 (783)
Q Consensus 150 ~~~a~~-~g~~~~~~~~i~~~~~~~~ 174 (783)
+.++++ .+ .+.-.|..++....
T Consensus 217 l~~i~~~~~---~~ipvia~GGI~~~ 239 (299)
T cd02809 217 LPEIVAAVG---GRIEVLLDGGIRRG 239 (299)
T ss_pred HHHHHHHhc---CCCeEEEeCCCCCH
Confidence 444443 22 11225666666543
No 396
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=39.80 E-value=31 Score=38.11 Aligned_cols=64 Identities=14% Similarity=0.268 Sum_probs=46.0
Q ss_pred HHHHHHhhheeecccCCCCCCCccCccchhHHHHHHHhhhcc--cccccccchhhhHHHHHHHHHHHHHH
Q 036525 429 FIFIGFVVWVFEHRINDDFRGPAKHQVGTSFWFSFSTMVFSQ--RERVISNLARFVVIVWCFVVLILTQS 496 (783)
Q Consensus 429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~ 496 (783)
+++.+.+++.+||-.+. ++..++--++|++..+|..-| .-.|++..+|++...-.+.++++.+.
T Consensus 356 I~iFStlvY~~Ek~~~~----~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 356 IVIFSTLVYFAEKDEPD----TKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHHHhhhcCCC----CCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 34445566777765432 224467789999999998666 34789999999998888888776664
No 397
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=39.69 E-value=1.5e+02 Score=31.56 Aligned_cols=82 Identities=7% Similarity=0.096 Sum_probs=54.2
Q ss_pred cCCeEEEEEEEe--CCcCCcchHHHHHHHhhCC-ceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc-ChhhHHHH
Q 036525 74 FGWREAVPIYVD--NQYGEAMIPSLTDALHAID-TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK-LPSLGSRI 149 (783)
Q Consensus 74 ~gw~~vaii~~d--~~~G~~~~~~~~~~l~~~g-~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~-~~~~~~~~ 149 (783)
.+-+.|+++..+ +.|-..+...+.+++++.| ..+.... ...+.+.-...+..+...++|.||++. ........
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~ 98 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAPDVQLLMND---SQNDQSKQNDQIDVLLAKGVKALAINLVDPAAAPTV 98 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhcCCeEEEEec---CCCCHHHHHHHHHHHHHcCCCEEEEeccCHHHHHHH
Confidence 345788888854 5677778888999999885 4554322 122222333567778888999998874 33335567
Q ss_pred HHHHHHcCc
Q 036525 150 FEKANEIGL 158 (783)
Q Consensus 150 ~~~a~~~g~ 158 (783)
++++++.|+
T Consensus 99 l~~l~~~gi 107 (330)
T PRK15395 99 IEKARGQDV 107 (330)
T ss_pred HHHHHHCCC
Confidence 788888875
No 398
>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=38.90 E-value=1.3e+02 Score=30.57 Aligned_cols=62 Identities=16% Similarity=0.015 Sum_probs=43.6
Q ss_pred EEEEEEe--CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 79 AVPIYVD--NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 79 vaii~~d--~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
|+++.++ +.|-..+.+.+.+++++.|.++.... ...+.......+..+...++|.||+....
T Consensus 2 Ig~i~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~i~~l~~~~~dgiii~~~~ 65 (263)
T cd06280 2 VGLIVADIRNPFFTAVSRAVEDAAYRAGLRVILCN---TDEDPEKEAMYLELMEEERVTGVIFAPTR 65 (263)
T ss_pred EEEEecccccccHHHHHHHHHHHHHHCCCEEEEEe---CCCCHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence 5566643 56778889999999999999886432 12233345566778888899988887643
No 399
>PRK10537 voltage-gated potassium channel; Provisional
Probab=38.73 E-value=41 Score=37.00 Aligned_cols=54 Identities=20% Similarity=0.268 Sum_probs=41.1
Q ss_pred CccCccchhHHHHHHHhhhcc--cccccccchhhhHHHHHHHHHHHHHHhhhhhhh
Q 036525 450 PAKHQVGTSFWFSFSTMVFSQ--RERVISNLARFVVIVWCFVVLILTQSYTASLTS 503 (783)
Q Consensus 450 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s 503 (783)
+...++.+++|+++.++...| ...|.+..+|++.++++++++.+..+..+.+..
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~ 219 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFG 219 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344579999999999888665 346788899999999999888766555555444
No 400
>PLN02834 3-dehydroquinate synthase
Probab=38.52 E-value=2.4e+02 Score=31.49 Aligned_cols=97 Identities=10% Similarity=0.071 Sum_probs=60.9
Q ss_pred HHHHH-cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEE-EecCCC---CChhHHHHHHHHHhccCce---EEEEE
Q 036525 69 AIIKA-FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYR-SVISPL---ATDDQIEKELYKLFTMQTR---VFIVH 140 (783)
Q Consensus 69 ~~l~~-~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~-~~i~~~---~~~~d~~~~l~~l~~~~~d---vii~~ 140 (783)
++++. .+.+++.+|.+...+. ...+.+.+.+++.|+++... ..++.+ .+.+.+...+..+++.++| +||..
T Consensus 92 ~~l~~~~~g~rvlIVtD~~v~~-~~~~~v~~~L~~~g~~~~v~~~v~~~gE~~ksl~~v~~~~~~l~~~~~dr~~~VIAi 170 (433)
T PLN02834 92 ELLQRHVHGKRVLVVTNETVAP-LYLEKVVEALTAKGPELTVESVILPDGEKYKDMETLMKVFDKALESRLDRRCTFVAL 170 (433)
T ss_pred HHHhhccCCCEEEEEECccHHH-HHHHHHHHHHHhcCCceEEEEEEecCCcCCCCHHHHHHHHHHHHhcCCCcCcEEEEE
Confidence 44443 2348888888555444 37778889999989865432 233322 3445666777778877776 88877
Q ss_pred cChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 141 KLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 141 ~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
|.+. |...++..+...|+ .++-|-|.
T Consensus 171 GGGsv~D~ak~~A~~y~rgi---plI~VPTT 198 (433)
T PLN02834 171 GGGVIGDMCGFAAASYQRGV---NFVQIPTT 198 (433)
T ss_pred CChHHHHHHHHHHHHhcCCC---CEEEECCc
Confidence 6654 77777765665563 45555554
No 401
>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=38.49 E-value=93 Score=31.65 Aligned_cols=60 Identities=15% Similarity=0.225 Sum_probs=43.9
Q ss_pred EEEEEEEe----CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 78 EAVPIYVD----NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 78 ~vaii~~d----~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
||++|.++ +.|-..+.+.+.+++++.|..+..... . +..+....+..+...++|.||+..
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~~gy~~~~~~~---~-~~~~~~~~~~~l~~~~vdgiii~~ 64 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKELGVEVKYVES---V-EDADYEPNLRQLAAQGYDLIFGVG 64 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHhcCceEEEEec---C-CHHHHHHHHHHHHHcCCCEEEECC
Confidence 47777764 567788889999999999988766432 1 233556777888888999888854
No 402
>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=38.45 E-value=1.3e+02 Score=30.48 Aligned_cols=62 Identities=6% Similarity=-0.045 Sum_probs=44.2
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
|+++.. ++.|...+...+.+++++.|.++.... .+.+.......+..+.+.++|.|++....
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~~~~~~~~~~i~~l~~~~vdgiii~~~~ 65 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQGYNLILCN---TEGDPERQRSYLRMLAQKRVDGLLVMCSE 65 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHcCCEEEEEe---CCCChHHHHHHHHHHHHcCCCEEEEecCC
Confidence 566664 467888899999999999998875432 12233345567778888899988886643
No 403
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=38.39 E-value=2.7e+02 Score=24.34 Aligned_cols=66 Identities=14% Similarity=-0.005 Sum_probs=37.1
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh----hhHHHHHHHHHHcC
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP----SLGSRIFEKANEIG 157 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~----~~~~~~~~~a~~~g 157 (783)
.+.-.-....+...++..|.+|.+-. ...+ ....+..+.+.+||+|.+++.. ..+..++++.++.+
T Consensus 9 ~e~H~lG~~~~~~~l~~~G~~V~~lg---~~~~---~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 9 GDGHDIGKNIVARALRDAGFEVIDLG---VDVP---PEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CchhhHHHHHHHHHHHHCCCEEEECC---CCCC---HHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 33333445566677777777774322 1122 2234455566778877776642 24566666666664
No 404
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=38.28 E-value=1.5e+02 Score=32.53 Aligned_cols=86 Identities=7% Similarity=0.050 Sum_probs=60.4
Q ss_pred CCeEEEeecCchhhHHHHHHHHH----HcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHH
Q 036525 50 SPYFFRGALNDSSQVGAITAIIK----AFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKE 125 (783)
Q Consensus 50 ~~~~fr~~p~~~~~~~ai~~~l~----~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~ 125 (783)
...+--+.|+..--...+|+++. ..+-++|++|. -|.|=.+..+.|+...+-.|+.+... + +..|+..+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT-tDtYRIGA~EQLk~Ya~im~vp~~vv--~----~~~el~~a 275 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT-TDTYRIGAVEQLKTYADIMGVPLEVV--Y----SPKELAEA 275 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE-eccchhhHHHHHHHHHHHhCCceEEe--c----CHHHHHHH
Confidence 34555555655444444555443 35678999998 45688899999999999999877433 2 24588888
Q ss_pred HHHHhccCceEEEEEcChh
Q 036525 126 LYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 126 l~~l~~~~~dvii~~~~~~ 144 (783)
+..+++. |+|++.+.+.
T Consensus 276 i~~l~~~--d~ILVDTaGr 292 (407)
T COG1419 276 IEALRDC--DVILVDTAGR 292 (407)
T ss_pred HHHhhcC--CEEEEeCCCC
Confidence 8888755 9999987665
No 405
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=37.84 E-value=1.2e+02 Score=32.60 Aligned_cols=77 Identities=16% Similarity=0.106 Sum_probs=48.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHh-------h--------CCc---------eEeEEEecCCCCChh
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALH-------A--------IDT---------RVPYRSVISPLATDD 120 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~-------~--------~g~---------~v~~~~~i~~~~~~~ 120 (783)
...++++.+.|.+||+||--|-..|.+..+.|.+.-. + .|. --.....++.+.+++
T Consensus 142 Aiaa~~l~~~~~~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~~~yPgtg~~~e~g~g~~g~~vNiPLp~g~~d~ 221 (340)
T COG0123 142 AIAAKYLLKKGVKRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGRPFYPGTGGADEIGEGKEGNNVNIPLPPGTGDD 221 (340)
T ss_pred HHHHHHHHHcCCCcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCCCCCCcCCCccccccCcccceEeeecCCCCCcH
Confidence 3345555444899999999999999999998873211 0 000 011233345666677
Q ss_pred HHHHHHHH-----HhccCceEEEEEc
Q 036525 121 QIEKELYK-----LFTMQTRVFIVHK 141 (783)
Q Consensus 121 d~~~~l~~-----l~~~~~dvii~~~ 141 (783)
+|...+.. ++.-+||+|++.+
T Consensus 222 ~y~~a~~~~v~~~~~~f~Pdlvivsa 247 (340)
T COG0123 222 SYLEALEEIVLPLLEEFKPDLVIVSA 247 (340)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEec
Confidence 77766655 3467888888764
No 406
>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=37.63 E-value=1.1e+02 Score=31.38 Aligned_cols=77 Identities=10% Similarity=0.061 Sum_probs=51.4
Q ss_pred EEEEE-EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh-HHHHHHHHHHc
Q 036525 79 AVPIY-VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL-GSRIFEKANEI 156 (783)
Q Consensus 79 vaii~-~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~-~~~~~~~a~~~ 156 (783)
|++|. ..+.|-..+...+.+++++.|..+.... +...+...-...+..+.+.++|.+|+...... ....++++.+
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~- 78 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVV--PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA- 78 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeC--CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-
Confidence 45554 3456778889999999999998875432 11112234556777888899998888754332 4567777766
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 79 ~i 80 (271)
T cd06314 79 GI 80 (271)
T ss_pred CC
Confidence 64
No 407
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=37.54 E-value=2.8e+02 Score=31.83 Aligned_cols=27 Identities=22% Similarity=0.294 Sum_probs=21.0
Q ss_pred ccccCCeEEEEccCCchhHHHHHcccC
Q 036525 3 LLNNAQVRVMLGPEDSMPTNFIIQPGN 29 (783)
Q Consensus 3 Li~~~~V~aiIGp~~S~~~~av~~~~~ 29 (783)
.+++.++.+|+||.+++-+..+..++.
T Consensus 346 ~l~~G~vIaLVGPtGvGKTTtaakLAa 372 (559)
T PRK12727 346 PLERGGVIALVGPTGAGKTTTIAKLAQ 372 (559)
T ss_pred cccCCCEEEEECCCCCCHHHHHHHHHH
Confidence 456678999999999988777766654
No 408
>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=37.50 E-value=99 Score=28.30 Aligned_cols=50 Identities=14% Similarity=0.122 Sum_probs=37.6
Q ss_pred hhHHHHHHHHHHcCC---eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEE
Q 036525 62 SQVGAITAIIKAFGW---REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRS 111 (783)
Q Consensus 62 ~~~~ai~~~l~~~gw---~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~ 111 (783)
.+-..+..+++.... ..+.++++|..-|+-.++.+++.+++.|..|....
T Consensus 5 AElnsl~~~~~~~~~~~~~~~~Ll~SDT~~G~~~a~il~~~l~~~g~~v~~~~ 57 (136)
T PF09651_consen 5 AELNSLVRLLEKGKDDDKDEVVLLHSDTPDGRLCAEILKEYLEEKGINVEVVE 57 (136)
T ss_dssp HHHHHHHHHHHHHT--GGGEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEE
T ss_pred HhHHHHHHHHHhCccccCcEEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 345566777655433 28999999999999999999999999998865433
No 409
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=37.28 E-value=2.1e+02 Score=26.90 Aligned_cols=81 Identities=10% Similarity=0.100 Sum_probs=54.4
Q ss_pred hhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHh-hCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEE
Q 036525 62 SQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALH-AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVH 140 (783)
Q Consensus 62 ~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~-~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~ 140 (783)
-.++.+..+.++++.+++.++- |......+.+.+.+.+. -.|+++.... -++....+.+ ...+-++++++
T Consensus 16 IHGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~s-------v~~a~~~l~~-~~~~~~vlvl~ 86 (158)
T PRK09756 16 VHGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFFT-------IEKTINVIGK-AAPHQKIFLIC 86 (158)
T ss_pred hhHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEEE-------HHHHHHHHHh-ccCCceEEEEE
Confidence 3577888999999999877664 43444455555555544 4566664322 2355556665 55666899999
Q ss_pred cChhhHHHHHH
Q 036525 141 KLPSLGSRIFE 151 (783)
Q Consensus 141 ~~~~~~~~~~~ 151 (783)
.++.++..+++
T Consensus 87 ~~~~da~~l~~ 97 (158)
T PRK09756 87 RTPQTVRKLVE 97 (158)
T ss_pred CCHHHHHHHHH
Confidence 99999988865
No 410
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=37.04 E-value=1.8e+02 Score=26.36 Aligned_cols=93 Identities=14% Similarity=0.140 Sum_probs=45.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEec-----CCCCChhHHHHHHHHHh-ccCceEE
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVI-----SPLATDDQIEKELYKLF-TMQTRVF 137 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i-----~~~~~~~d~~~~l~~l~-~~~~dvi 137 (783)
...+.+.+...|.-.....|.+ +.......+.+.|+..|+++...... ..+..+..+...+..+. +..+|.+
T Consensus 22 ~~~l~~~i~~~~~~~~~~~y~~--~~~~~~~~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~i 99 (146)
T PF01936_consen 22 FERLLEEIRKYGPLVRIRAYGN--WDDPNQKSFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTI 99 (146)
T ss_dssp HHHHHHHHTTTEEEEEEEEEE------HHHHHHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEE
T ss_pred HHHHHHHHHhcCCeEEEEEEee--ccccchhhHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEE
Confidence 4455555555443223444444 33344677889999999977544321 11222223333333333 3445888
Q ss_pred EEEcChhhHHHHHHHHHHcCc
Q 036525 138 IVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 138 i~~~~~~~~~~~~~~a~~~g~ 158 (783)
++.+.-.+...+++.+++.|.
T Consensus 100 vLvSgD~Df~~~v~~l~~~g~ 120 (146)
T PF01936_consen 100 VLVSGDSDFAPLVRKLRERGK 120 (146)
T ss_dssp EEE---GGGHHHHHHHHHH--
T ss_pred EEEECcHHHHHHHHHHHHcCC
Confidence 888888899999999999884
No 411
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=36.98 E-value=2.2e+02 Score=30.20 Aligned_cols=79 Identities=8% Similarity=-0.021 Sum_probs=51.5
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
-+.|+++.. ++.|...+...+.+++++.|..+..... ..+.+.....+..+.+.++|.|++..... ....++.+
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l 134 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQKGYTLILCNA---WNNLEKQRAYLSMLAQKRVDGLLVMCSEY-PEPLLAML 134 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCC-CHHHHHHH
Confidence 357888875 4678888899999999999988754321 11222344666777788999888765422 22345555
Q ss_pred HH-cCc
Q 036525 154 NE-IGL 158 (783)
Q Consensus 154 ~~-~g~ 158 (783)
.+ .|+
T Consensus 135 ~~~~~i 140 (341)
T PRK10703 135 EEYRHI 140 (341)
T ss_pred HhcCCC
Confidence 55 554
No 412
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=36.92 E-value=1.9e+02 Score=26.28 Aligned_cols=67 Identities=12% Similarity=0.090 Sum_probs=44.7
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh----hHHHHHHHHHHcCc
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS----LGSRIFEKANEIGL 158 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~----~~~~~~~~a~~~g~ 158 (783)
.+--.-..+.+...|+..|.+|...... . .....+...++.++|+|.+++... ....+++..++.|.
T Consensus 12 ~D~Hd~g~~iv~~~l~~~GfeVi~lg~~---~---s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 12 QDGHDRGAKVIATAYADLGFDVDVGPLF---Q---TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred CCccHHHHHHHHHHHHhCCcEEEECCCC---C---CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 3333444566677888899988765432 1 233456677788999999987554 56667777777775
No 413
>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=36.82 E-value=16 Score=35.97 Aligned_cols=31 Identities=26% Similarity=0.521 Sum_probs=26.0
Q ss_pred CeEEEEccCCchhHHHHHcccCCCCccEEee
Q 036525 8 QVRVMLGPEDSMPTNFIIQPGNKSQVPILSF 38 (783)
Q Consensus 8 ~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~ 38 (783)
+|.+|+||.+++-+.....++++.+.|+|+.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~ 32 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISL 32 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEe
Confidence 5889999999999999999999999999985
No 414
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=36.58 E-value=2.6e+02 Score=30.35 Aligned_cols=90 Identities=13% Similarity=-0.018 Sum_probs=57.5
Q ss_pred CCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecC---CCCChhHHHHHHHHHhccCc----eEEEEEcChh--h
Q 036525 75 GWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVIS---PLATDDQIEKELYKLFTMQT----RVFIVHKLPS--L 145 (783)
Q Consensus 75 gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~---~~~~~~d~~~~l~~l~~~~~----dvii~~~~~~--~ 145 (783)
+.+++.+|.+...+ ....+.+.+.+++.|+++... .++ ...+.+.+...+..+++.++ |+||..+.+. |
T Consensus 25 ~~~~~lvVtd~~v~-~~~~~~v~~~l~~~g~~~~~~-v~~~~e~~~s~~~v~~~~~~l~~~~~~r~~d~IVaiGGG~v~D 102 (354)
T cd08199 25 GSGRRFVVVDQNVD-KLYGKKLREYFAHHNIPLTIL-VLRAGEAAKTMDTVLKIVDALDAFGISRRREPVLAIGGGVLTD 102 (354)
T ss_pred CCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCCCEEEEECCcHHHH
Confidence 46788888744443 335577888898888876422 222 23344567777778887777 9988766554 7
Q ss_pred HHHHHHHHHHcCccccceEEEEeC
Q 036525 146 GSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 146 ~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
+..++......|+ .++-|-|.
T Consensus 103 ~ak~~A~~~~rg~---p~i~VPTT 123 (354)
T cd08199 103 VAGLAASLYRRGT---PYVRIPTT 123 (354)
T ss_pred HHHHHHHHhcCCC---CEEEEcCc
Confidence 7777765555563 44455554
No 415
>PRK10586 putative oxidoreductase; Provisional
Probab=36.49 E-value=1.5e+02 Score=32.26 Aligned_cols=82 Identities=12% Similarity=0.065 Sum_probs=51.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+.++++.+|.+++.+|+....+- ...+.+.+.|++.|+.+. .+.-..+..++..... ..+.++|+||-.+.+
T Consensus 22 ~~~l~~~~~~~g~~~~lvv~g~~~~~-~~~~~~~~~l~~~~~~~~---~~~g~~~~~~v~~l~~-~~~~~~d~iiavGGG 96 (362)
T PRK10586 22 IDHLHDFFTDEQLSRAVWIYGERAIA-AAQPYLPPAFELPGAKHI---LFRGHCSESDVAQLAA-ASGDDRQVVIGVGGG 96 (362)
T ss_pred HHHHHHHHHhcCCCeEEEEEChHHHH-HHHHHHHHHHHHcCCeEE---EeCCCCCHHHHHHHHH-HhccCCCEEEEecCc
Confidence 45688889999999988888544332 223556777888887653 2332334445554433 334678999987766
Q ss_pred h--hHHHHH
Q 036525 144 S--LGSRIF 150 (783)
Q Consensus 144 ~--~~~~~~ 150 (783)
. |..+.+
T Consensus 97 s~iD~aK~~ 105 (362)
T PRK10586 97 ALLDTAKAL 105 (362)
T ss_pred HHHHHHHHH
Confidence 5 444444
No 416
>PRK01215 competence damage-inducible protein A; Provisional
Probab=36.34 E-value=1.8e+02 Score=30.03 Aligned_cols=63 Identities=14% Similarity=0.098 Sum_probs=43.1
Q ss_pred eEEEEEEEeCC--cCC---cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 77 REAVPIYVDNQ--YGE---AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 77 ~~vaii~~d~~--~G~---~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.+++||...|+ .|+ .....+.+.+++.|+++.....++. +.+++...+.++.+ .+|+||+.+.
T Consensus 4 ~~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~D--d~~~I~~~l~~a~~-~~DlVIttGG 71 (264)
T PRK01215 4 WFAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVMD--DIEEIVSAFREAID-RADVVVSTGG 71 (264)
T ss_pred CEEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeCC--CHHHHHHHHHHHhc-CCCEEEEeCC
Confidence 46777776555 343 2356788889999999887776652 34467777777664 5688888754
No 417
>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=36.03 E-value=1.4e+02 Score=30.17 Aligned_cols=61 Identities=11% Similarity=0.059 Sum_probs=41.9
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
|+++.+ ++.|-..+...+.+++++.|..+.... ...+.......+..+.+.++|.+++...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~~vdgiii~~~ 64 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREAGYGVLLGD---TRSDPEREQEYLDLLRRKQADGIILLDG 64 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEec---CCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 455554 467888889999999999998885432 2222223445567788889998888643
No 418
>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=35.86 E-value=2e+02 Score=26.81 Aligned_cols=81 Identities=14% Similarity=0.126 Sum_probs=55.4
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 63 QVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.++.+..+.++++.+++.++- |..-...+.+.+.+.+.-.|+++.... -++....+.+-+..+-++++++.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~s-------ve~a~~~l~~~~~~~~~v~vl~k~ 84 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFVS-------LEKTINVIHKPAYHDQTIFLLFRN 84 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEEE-------HHHHHHHHhCcCCCCceEEEEECC
Confidence 577788889999998877664 444445566666666666777765432 224444555444556789999999
Q ss_pred hhhHHHHHH
Q 036525 143 PSLGSRIFE 151 (783)
Q Consensus 143 ~~~~~~~~~ 151 (783)
+.++..+++
T Consensus 85 ~~da~~l~~ 93 (151)
T TIGR00854 85 PQDVLTLVE 93 (151)
T ss_pred HHHHHHHHH
Confidence 999988865
No 419
>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=35.86 E-value=1.5e+02 Score=30.20 Aligned_cols=77 Identities=13% Similarity=0.132 Sum_probs=51.7
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhh----HHHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSL----GSRIFEK 152 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~----~~~~~~~ 152 (783)
|+++.. ++.|-..+...+.+++++.|..+..... ....+.-...+..+.+.++|.|++...... ....+++
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYSLLLAST---NNDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLK 78 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHHHH
Confidence 455553 5667788899999999999998865331 122223346777888899999998654321 3356677
Q ss_pred HHHcCc
Q 036525 153 ANEIGL 158 (783)
Q Consensus 153 a~~~g~ 158 (783)
+.+.|.
T Consensus 79 ~~~~~i 84 (273)
T cd01541 79 LEKLGI 84 (273)
T ss_pred HHHCCC
Confidence 777774
No 420
>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=35.84 E-value=1.3e+02 Score=30.61 Aligned_cols=77 Identities=10% Similarity=0.103 Sum_probs=49.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhC-----CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh-hhHHHHH
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAI-----DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP-SLGSRIF 150 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~-----g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~-~~~~~~~ 150 (783)
++++.. ++.|-..+.+.+++++++. |.++.... ...........+..+...++|.|++.... ......+
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i 78 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPDVEFILVT---ASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQPV 78 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCCeEEEEEc---CCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHHHH
Confidence 345553 4566677888898988886 45554432 12223344556666778899999887643 3345667
Q ss_pred HHHHHcCc
Q 036525 151 EKANEIGL 158 (783)
Q Consensus 151 ~~a~~~g~ 158 (783)
+.+.+.|.
T Consensus 79 ~~~~~~gI 86 (274)
T cd06311 79 AKAKKAGI 86 (274)
T ss_pred HHHHHCCC
Confidence 88888885
No 421
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=35.77 E-value=3.5e+02 Score=24.75 Aligned_cols=75 Identities=19% Similarity=0.080 Sum_probs=42.7
Q ss_pred EEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh----hhHHHHHHHH
Q 036525 78 EAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP----SLGSRIFEKA 153 (783)
Q Consensus 78 ~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~----~~~~~~~~~a 153 (783)
+|.+.....+.-.-....+...++..|.+|.+--. +.+ ....+..+.+.+||+|.+.+.. ..+..++.+.
T Consensus 5 ~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~---~vp---~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L 78 (137)
T PRK02261 5 TVVLGVIGADCHAVGNKILDRALTEAGFEVINLGV---MTS---QEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKC 78 (137)
T ss_pred EEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCC---CCC---HHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHH
Confidence 44333333333334455666777788888765331 122 2234455566788887776532 3567777777
Q ss_pred HHcCc
Q 036525 154 NEIGL 158 (783)
Q Consensus 154 ~~~g~ 158 (783)
++.|.
T Consensus 79 ~~~~~ 83 (137)
T PRK02261 79 IEAGL 83 (137)
T ss_pred HhcCC
Confidence 77765
No 422
>PHA02594 nadV nicotinamide phosphoribosyl transferase; Provisional
Probab=35.35 E-value=2.6e+02 Score=31.38 Aligned_cols=143 Identities=15% Similarity=0.141 Sum_probs=74.5
Q ss_pred EEccCCchhHHHHHcccCCCC---ccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCc
Q 036525 12 MLGPEDSMPTNFIIQPGNKSQ---VPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQY 88 (783)
Q Consensus 12 iIGp~~S~~~~av~~~~~~~~---vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~ 88 (783)
+.|-..++...|+.-....++ +|++.++- |... +- +-+......+.+|...+++.|.-.-++++.+.+++
T Consensus 201 l~gF~gTdtv~A~~~a~~~Yg~~~~~~~G~SI--Pa~e---HS--~~~s~~~~~E~~AF~~~~~~~p~~~~s~v~DTYD~ 273 (470)
T PHA02594 201 LYNFKGTDTVEALYMAKRYYGDDEVEMAGISV--PARE---HS--TMCSYGAENEDEAFKNSLTLYGTGIYSIVSDTYDF 273 (470)
T ss_pred hcCCccccchhHHHHHHHHhCCcccccccccc--chhh---hh--hhhhcCCchHHHHHHHHHHHCCCCcEEEEEecccH
Confidence 344444555555444445566 77765432 1110 01 11222223567888889988865567777777776
Q ss_pred CCcchH---HHHHHHhhCCceEeEEEecCCCCCh-hHHHHH-HHHH--------hccC-----ceEEEEEcCh---hhHH
Q 036525 89 GEAMIP---SLTDALHAIDTRVPYRSVISPLATD-DQIEKE-LYKL--------FTMQ-----TRVFIVHKLP---SLGS 147 (783)
Q Consensus 89 G~~~~~---~~~~~l~~~g~~v~~~~~i~~~~~~-~d~~~~-l~~l--------~~~~-----~dvii~~~~~---~~~~ 147 (783)
-+.... .+.+++.+.|.++ .+.++.++ .++... +..| .+.+ +++-|+.+.+ ..+.
T Consensus 274 ~~~v~~~i~~l~~~i~~~~~~l----~IR~DSGD~~~l~~~~~~~L~~~FG~~ln~~G~kvL~~~v~Ii~gd~ide~~i~ 349 (470)
T PHA02594 274 KRAVTEILPELKDEIMARGGKL----VIRPDSGDPVDIICGALETLGEIFGGTVNSKGYKVLDEHVRLIQGDGITLERIN 349 (470)
T ss_pred HHHHHHHHHHHHHHHHhCCCcE----EEeCCCCCHHHHHHHHHHHHHHhcCCcccCccccccCCCeEEEEcCCCCHHHHH
Confidence 443322 3444555566665 33455553 223222 4444 1222 5666666655 3466
Q ss_pred HHHHHHHHcCccccceEE
Q 036525 148 RIFEKANEIGLMNKGCVW 165 (783)
Q Consensus 148 ~~~~~a~~~g~~~~~~~~ 165 (783)
.++..+++.|...+.-+|
T Consensus 350 ~il~~L~~~G~~a~n~~f 367 (470)
T PHA02594 350 RILTRMKENGFASENVAF 367 (470)
T ss_pred HHHHHHHHCCCCCCcceE
Confidence 666668888875554333
No 423
>PRK05569 flavodoxin; Provisional
Probab=35.16 E-value=2.1e+02 Score=25.99 Aligned_cols=84 Identities=12% Similarity=0.197 Sum_probs=48.4
Q ss_pred eEEEEEEEeCCcC--CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh--------hhH
Q 036525 77 REAVPIYVDNQYG--EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP--------SLG 146 (783)
Q Consensus 77 ~~vaii~~d~~~G--~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~--------~~~ 146 (783)
.++.++|.. .+| +.+++.+.+.+++.|.++.... + ... +. ..+ .+.|.|++.++. ...
T Consensus 2 ~ki~iiY~S-~tGnT~~iA~~i~~~~~~~g~~v~~~~-~--~~~--~~----~~~--~~~d~iilgsPty~~~~~~~~~~ 69 (141)
T PRK05569 2 KKVSIIYWS-CGGNVEVLANTIADGAKEAGAEVTIKH-V--ADA--KV----EDV--LEADAVAFGSPSMDNNNIEQEEM 69 (141)
T ss_pred CeEEEEEEC-CCCHHHHHHHHHHHHHHhCCCeEEEEE-C--CcC--CH----HHH--hhCCEEEEECCCcCCCcCChHHH
Confidence 367888843 455 5567888888888887664322 1 111 11 122 356777776642 235
Q ss_pred HHHHHHHHHcCccccceEEEEeCCcc
Q 036525 147 SRIFEKANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 147 ~~~~~~a~~~g~~~~~~~~i~~~~~~ 172 (783)
..++...............+++.+|.
T Consensus 70 ~~~~~~l~~~~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 70 APFLDQFKLTPNENKKCILFGSYGWD 95 (141)
T ss_pred HHHHHHhhccCcCCCEEEEEeCCCCC
Confidence 66776666555445555566666665
No 424
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=35.07 E-value=3.6e+02 Score=27.48 Aligned_cols=87 Identities=14% Similarity=0.173 Sum_probs=61.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC--
Q 036525 65 GAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL-- 142 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~-- 142 (783)
..++...+..|..-+.++. |..|..+-.+.+++.-+...+.|.....+- . ..++.+.+..++|+|++...
T Consensus 64 ~~~A~~y~~~GA~aISVlT-e~~~F~Gs~~~l~~v~~~v~~PvL~KDFIi---d----~~QI~ea~~~GADavLLI~~~L 135 (247)
T PRK13957 64 VQIAKTYETLGASAISVLT-DQSYFGGSLEDLKSVSSELKIPVLRKDFIL---D----EIQIREARAFGASAILLIVRIL 135 (247)
T ss_pred HHHHHHHHHCCCcEEEEEc-CCCcCCCCHHHHHHHHHhcCCCEEeccccC---C----HHHHHHHHHcCCCEEEeEHhhC
Confidence 4566667778988888777 444555677778777776676666554432 1 14666777799998887653
Q ss_pred -hhhHHHHHHHHHHcCcc
Q 036525 143 -PSLGSRIFEKANEIGLM 159 (783)
Q Consensus 143 -~~~~~~~~~~a~~~g~~ 159 (783)
..+...++..|.++||.
T Consensus 136 ~~~~l~~l~~~a~~lGle 153 (247)
T PRK13957 136 TPSQIKSFLKHASSLGMD 153 (247)
T ss_pred CHHHHHHHHHHHHHcCCc
Confidence 34689999999999984
No 425
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=34.95 E-value=1.5e+02 Score=30.85 Aligned_cols=69 Identities=12% Similarity=0.004 Sum_probs=48.1
Q ss_pred HHHcCCeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 71 IKAFGWREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 71 l~~~gw~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
|+.-.-+.|+++.. ++.|...+.+.+.+++++.|.++.... . ......-...+..+.+.++|.|++...
T Consensus 30 l~~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~-~--~~~~~~~~~~i~~l~~~~vDgiIi~~~ 100 (309)
T PRK11041 30 LKRNESRTILVIVPDICDPFFSEIIRGIEVTAAEHGYLVLIGD-C--AHQNQQEKTFVNLIITKQIDGMLLLGS 100 (309)
T ss_pred hhcCCCcEEEEEeCCCcCccHHHHHHHHHHHHHHCCCEEEEEe-C--CCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 33334468888885 467888899999999999998886542 1 222223346677777889998888654
No 426
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=34.93 E-value=1.4e+02 Score=29.45 Aligned_cols=84 Identities=13% Similarity=-0.009 Sum_probs=52.0
Q ss_pred HHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhC-Cc--eEeEEE--ecC----CCCChh----HHHHHHHHH-hccC
Q 036525 68 TAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAI-DT--RVPYRS--VIS----PLATDD----QIEKELYKL-FTMQ 133 (783)
Q Consensus 68 ~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~-g~--~v~~~~--~i~----~~~~~~----d~~~~l~~l-~~~~ 133 (783)
.+-+.. +.++++++.. ++......+.+.+++. |+ +++... .+. .+..+. .+...+.++ +..+
T Consensus 100 ~~~~~~-~~~ri~vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~ 175 (216)
T PF01177_consen 100 LEAAKA-GGKRIGVLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDG 175 (216)
T ss_dssp HHHHHH-TSSEEEEEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHh-cCCEEEEEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCC
Confidence 444555 8899999985 5556677788888888 87 555421 111 222222 344555555 4789
Q ss_pred ceEEEEEcChhhHH-HHHHHHHH
Q 036525 134 TRVFIVHKLPSLGS-RIFEKANE 155 (783)
Q Consensus 134 ~dvii~~~~~~~~~-~~~~~a~~ 155 (783)
+|+|++.|..-... .....+.+
T Consensus 176 ~d~iiLgCt~l~~~~~~~~~l~~ 198 (216)
T PF01177_consen 176 ADAIILGCTHLPLLLGAIEALEE 198 (216)
T ss_dssp SSEEEEESTTGGGGHHHHHHHHH
T ss_pred CCEEEECCCchHHHHHHHHhhcc
Confidence 99999987665433 55555544
No 427
>PF15179 Myc_target_1: Myc target protein 1
Probab=34.73 E-value=55 Score=31.05 Aligned_cols=38 Identities=11% Similarity=0.199 Sum_probs=28.7
Q ss_pred cccccccchhHHHHH-HHHHHHHHHHHHHHHHHHHhhcc
Q 036525 639 SRSLGLNSFWGLFLI-AGIAAILALIIFLAVFVHQHRNV 676 (783)
Q Consensus 639 ~~~L~l~~l~g~F~i-l~~g~~ls~~vfl~E~~~~~~~~ 676 (783)
.+.++++++.-+|.+ +++|++|..+|+++-.+..|||.
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRRA 51 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRRA 51 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 456778899999975 67889998888877666665553
No 428
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=34.72 E-value=2.5e+02 Score=28.57 Aligned_cols=92 Identities=10% Similarity=-0.009 Sum_probs=62.4
Q ss_pred hhhHHHHHHHHHHcC--CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEE
Q 036525 61 SSQVGAITAIIKAFG--WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI 138 (783)
Q Consensus 61 ~~~~~ai~~~l~~~g--w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii 138 (783)
...++.++..+..+. -++|.++.. ....+.+.+.|.+.|.+|.....|.......+.......++..+.|+|+
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~-----~~~r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~v~ 180 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRG-----NGGREVLEEKLEERGAEVREVEVYRTEPPPLDEATLIELLKLGEVDAVV 180 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcC-----CCchHHHHHHHHhCCCEEEEEeeeeecCCCccHHHHHHHHHhCCCCEEE
Confidence 456777777776553 357766663 3445889999999999998877766544443433344556666777655
Q ss_pred EEcChhhHHHHHHHHHHcCc
Q 036525 139 VHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 139 ~~~~~~~~~~~~~~a~~~g~ 158 (783)
+ .++..+..|+..+.+.+.
T Consensus 181 f-tS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 181 F-TSSSAVRALLALAPESGI 199 (248)
T ss_pred E-eCHHHHHHHHHHccccch
Confidence 4 577788888888887663
No 429
>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=34.70 E-value=1.6e+02 Score=28.76 Aligned_cols=110 Identities=14% Similarity=0.132 Sum_probs=56.9
Q ss_pred CeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHH---HHHHHHHcCCeEEEEEEE
Q 036525 8 QVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGA---ITAIIKAFGWREAVPIYV 84 (783)
Q Consensus 8 ~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~a---i~~~l~~~gw~~vaii~~ 84 (783)
+|.+++||.+++=+..++.++.++..= ..-......|..-..+ +..+.+.+|..-.. .+
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~----------------~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~-~~- 63 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLK----------------GKKVALISADTYRIGAVEQLKTYAEILGVPFYV-AR- 63 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHT----------------T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEE-SS-
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhc----------------cccceeecCCCCCccHHHHHHHHHHHhccccch-hh-
Confidence 589999999999999999999877431 1112222233333333 33334555633211 11
Q ss_pred eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc-Cce
Q 036525 85 DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM-QTR 135 (783)
Q Consensus 85 d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~-~~d 135 (783)
...--...+....+.+++.+.+++...+--....+.+...++.++.+. .++
T Consensus 64 ~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~ 115 (196)
T PF00448_consen 64 TESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPD 115 (196)
T ss_dssp TTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSS
T ss_pred cchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCc
Confidence 011011223333344556677777766643344445555666665433 444
No 430
>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=34.67 E-value=1.4e+02 Score=30.33 Aligned_cols=61 Identities=10% Similarity=-0.049 Sum_probs=44.6
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
|+++.+ ++.|...+...+.+++++.|..+..... ......-...+..+.+.++|.||+...
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~gy~v~~~~~---~~~~~~~~~~i~~~~~~~~dgiii~~~ 64 (269)
T cd06293 2 IGLVVPDIANPFFAELADAVEEEADARGLSLVLCAT---RNRPERELTYLRWLDTNHVDGLIFVTN 64 (269)
T ss_pred EEEEeCCCCCCcHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHCCCCEEEEeCC
Confidence 677775 4677788999999999999988855432 112234456777888899999998754
No 431
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=34.10 E-value=1.9e+02 Score=25.26 Aligned_cols=71 Identities=17% Similarity=0.036 Sum_probs=45.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
...++.++++.|| .|.++..+. -.+.+.+.+++.+.+++.-... ...+.......+..+|+..+++.++.+
T Consensus 17 l~~la~~l~~~G~-~v~~~d~~~-----~~~~l~~~~~~~~pd~V~iS~~-~~~~~~~~~~l~~~~k~~~p~~~iv~G 87 (121)
T PF02310_consen 17 LLYLAAYLRKAGH-EVDILDANV-----PPEELVEALRAERPDVVGISVS-MTPNLPEAKRLARAIKERNPNIPIVVG 87 (121)
T ss_dssp HHHHHHHHHHTTB-EEEEEESSB------HHHHHHHHHHTTCSEEEEEES-SSTHHHHHHHHHHHHHTTCTTSEEEEE
T ss_pred HHHHHHHHHHCCC-eEEEECCCC-----CHHHHHHHHhcCCCcEEEEEcc-CcCcHHHHHHHHHHHHhcCCCCEEEEE
Confidence 4567777888898 444443222 1277888888888888766542 223344566777778888887555443
No 432
>PRK09273 hypothetical protein; Provisional
Probab=34.08 E-value=2.1e+02 Score=28.32 Aligned_cols=67 Identities=12% Similarity=-0.052 Sum_probs=42.7
Q ss_pred EEEEEEEeCCcCCc--chHHHHHHHhhCCceEeEEEecCCC---CChhHHHHHHHHHh-ccCce-EEEEEcChh
Q 036525 78 EAVPIYVDNQYGEA--MIPSLTDALHAIDTRVPYRSVISPL---ATDDQIEKELYKLF-TMQTR-VFIVHKLPS 144 (783)
Q Consensus 78 ~vaii~~d~~~G~~--~~~~~~~~l~~~g~~v~~~~~i~~~---~~~~d~~~~l~~l~-~~~~d-vii~~~~~~ 144 (783)
|+++|-+++.-.+. +.+.+.+.+++.|.+|...-..+.+ .+..|+...+.+.. +...| .|++|+++.
T Consensus 2 kiali~e~sqa~kn~~i~~~L~~~L~~~G~eV~D~G~~~~~~~s~dYpd~a~~vA~~V~~g~~d~GIliCGTGi 75 (211)
T PRK09273 2 KIALINENSQAAKNAIIYEALKKVADPKGHEVFNYGMYDEEDHQLTYVQNGIMASILLNSKAVDFVVTGCGTGQ 75 (211)
T ss_pred eEEeecccchhhhhHHHHHHHHHHHHHCCCEEEEeCCCCCCCCCCChHHHHHHHHHHHHcCCCCEEEEEcCcHH
Confidence 68888888777665 7889999999999988765543322 23345555555443 33444 555555543
No 433
>PRK03670 competence damage-inducible protein A; Provisional
Probab=33.95 E-value=2.2e+02 Score=29.20 Aligned_cols=48 Identities=8% Similarity=0.147 Sum_probs=31.9
Q ss_pred hHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 93 IPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 93 ~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
...+.+.|.+.|+++.....++. ...++...+.++.+...|+||+.+.
T Consensus 22 ~~~la~~L~~~G~~v~~~~iV~D--d~~~I~~~l~~a~~~~~DlVIttGG 69 (252)
T PRK03670 22 SAFIAQKLTEKGYWVRRITTVGD--DVEEIKSVVLEILSRKPEVLVISGG 69 (252)
T ss_pred HHHHHHHHHHCCCEEEEEEEcCC--CHHHHHHHHHHHhhCCCCEEEECCC
Confidence 55777888888988877666552 2345666666655445687777653
No 434
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=33.95 E-value=2.3e+02 Score=27.70 Aligned_cols=84 Identities=12% Similarity=0.053 Sum_probs=48.6
Q ss_pred HHHHHHHHHH--cCCeEEEEEEEe-CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHH-HHHhccCceEEEE
Q 036525 64 VGAITAIIKA--FGWREAVPIYVD-NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKEL-YKLFTMQTRVFIV 139 (783)
Q Consensus 64 ~~ai~~~l~~--~gw~~vaii~~d-~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l-~~l~~~~~dvii~ 139 (783)
.+++++-.+. ++.+-+++++.+ +.|| .+.+++.|+.......=.+ .+..+|...+ ..|++.++|+|++
T Consensus 14 lqaiida~~~~~~~a~i~~Visd~~~A~~-------lerA~~~gIpt~~~~~k~~-~~r~~~d~~l~~~l~~~~~dlvvL 85 (200)
T COG0299 14 LQAIIDAIKGGKLDAEIVAVISDKADAYA-------LERAAKAGIPTVVLDRKEF-PSREAFDRALVEALDEYGPDLVVL 85 (200)
T ss_pred HHHHHHHHhcCCCCcEEEEEEeCCCCCHH-------HHHHHHcCCCEEEeccccC-CCHHHHHHHHHHHHHhcCCCEEEE
Confidence 5667777653 233444445443 3443 3456678887543222111 2344576544 6678899999999
Q ss_pred EcChhhHHHHHHHHHH
Q 036525 140 HKLPSLGSRIFEKANE 155 (783)
Q Consensus 140 ~~~~~~~~~~~~~a~~ 155 (783)
.++..-...-+.+..+
T Consensus 86 AGyMrIL~~~fl~~~~ 101 (200)
T COG0299 86 AGYMRILGPEFLSRFE 101 (200)
T ss_pred cchHHHcCHHHHHHhh
Confidence 9988765555444443
No 435
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=33.71 E-value=4.6e+02 Score=25.52 Aligned_cols=130 Identities=16% Similarity=0.158 Sum_probs=78.7
Q ss_pred CCeEEEEccCCchhHHHHHcccCCCCccEEeeccCCCCCC--C-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFSATSPSLT--S-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls--~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
..+.++.||.+++-+.-+..+.+.. -..+|-++|+..-. + .+-.|+|.+.- .-+.+++-=+-+-|..+.
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-KLRFSVSATTRKPRPGEVDGVDYFFVTEE----EFEELIERDEFLEWAEYH--- 75 (191)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhc-CeEEEEEeccCCCCCCCcCCceeEeCCHH----HHHHHHhcCCcEEEEEEc---
Confidence 3567888999988888888887777 44555555554444 3 35689987632 222222221223454432
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcC
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIG 157 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g 157 (783)
++-||.... .+.+.++ .|..|..... +. -..++++.-|+++.++..++....+-+.....|
T Consensus 76 -gnyYGT~~~-~ve~~~~-~G~~vildId---------~q-Ga~qvk~~~p~~v~IFi~pPs~eeL~~RL~~Rg 136 (191)
T COG0194 76 -GNYYGTSRE-PVEQALA-EGKDVILDID---------VQ-GALQVKKKMPNAVSIFILPPSLEELERRLKGRG 136 (191)
T ss_pred -CCcccCcHH-HHHHHHh-cCCeEEEEEe---------hH-HHHHHHHhCCCeEEEEEcCCCHHHHHHHHHccC
Confidence 477876644 3444444 5666665542 22 234566666788888888877777777776665
No 436
>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=33.63 E-value=2.3e+02 Score=26.48 Aligned_cols=81 Identities=14% Similarity=0.117 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 63 QVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.++.+..+.++++.+++.++- |..-...+.+.+.+.+.-.|+++.... .++....+.+-+..+-++++++-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s-------ve~a~~~l~~~~~~~~~v~il~k~ 83 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIFT-------VEKAIEAINSPKYDKQRVFLLFKN 83 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEEE-------HHHHHHHHhCcCCCCceEEEEECC
Confidence 577788899999999877664 444445566666666666677765432 224444555444566689999999
Q ss_pred hhhHHHHHH
Q 036525 143 PSLGSRIFE 151 (783)
Q Consensus 143 ~~~~~~~~~ 151 (783)
+.++..+++
T Consensus 84 ~~~~~~l~~ 92 (151)
T cd00001 84 PQDVLRLVE 92 (151)
T ss_pred HHHHHHHHH
Confidence 999988865
No 437
>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members. are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....
Probab=33.59 E-value=3.6e+02 Score=27.07 Aligned_cols=25 Identities=8% Similarity=-0.015 Sum_probs=18.2
Q ss_pred cCCchhHHHHHcccCCCCccEEeec
Q 036525 15 PEDSMPTNFIIQPGNKSQVPILSFS 39 (783)
Q Consensus 15 p~~S~~~~av~~~~~~~~vP~Is~~ 39 (783)
..+......+++...+.+|+.|..+
T Consensus 10 ~~~~~~k~~i~~~L~~~Gv~~iEvg 34 (237)
T PF00682_consen 10 AFSTEEKLEIAKALDEAGVDYIEVG 34 (237)
T ss_dssp T--HHHHHHHHHHHHHHTTSEEEEE
T ss_pred CcCHHHHHHHHHHHHHhCCCEEEEc
Confidence 3456667778888888899998876
No 438
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=33.51 E-value=81 Score=32.25 Aligned_cols=48 Identities=17% Similarity=0.184 Sum_probs=38.1
Q ss_pred cchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc
Q 036525 91 AMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK 141 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~ 141 (783)
..+..|.+.|.+.|+.|....++.. ..+++...+..+.+. +|+||+.+
T Consensus 21 tNa~~la~~L~~~G~~v~~~~~VgD--~~~~I~~~l~~a~~r-~D~vI~tG 68 (255)
T COG1058 21 TNAAFLADELTELGVDLARITTVGD--NPDRIVEALREASER-ADVVITTG 68 (255)
T ss_pred chHHHHHHHHHhcCceEEEEEecCC--CHHHHHHHHHHHHhC-CCEEEECC
Confidence 3478899999999999988887763 345788888877766 99999865
No 439
>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=33.41 E-value=1.3e+02 Score=30.93 Aligned_cols=65 Identities=12% Similarity=0.166 Sum_probs=44.6
Q ss_pred CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHcCc
Q 036525 86 NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 86 ~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~g~ 158 (783)
+.|...+...+.+++++.|..+..... . . -...+..+.+.++|.|++...... ...++.+++.|+
T Consensus 16 ~~~~~~~~~gi~~~a~~~g~~~~~~~~---~-~---~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~i 80 (283)
T cd06279 16 DPVASQFLAGVAEVLDAAGVNLLLLPA---S-S---EDSDSALVVSALVDGFIVYGVPRD-DPLVAALLRRGL 80 (283)
T ss_pred CccHHHHHHHHHHHHHHCCCEEEEecC---c-c---HHHHHHHHHhcCCCEEEEeCCCCC-hHHHHHHHHcCC
Confidence 556677889999999999988865432 1 1 124556778899998888754322 245777777774
No 440
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=33.34 E-value=2.6e+02 Score=32.47 Aligned_cols=85 Identities=11% Similarity=0.058 Sum_probs=62.9
Q ss_pred CCeEEEEEEEeCCcCCcchHHHHHHHhhCCc-eEeEEEecCC------CCChhHHHHHHHHHhccCceEEEEEcChhhHH
Q 036525 75 GWREAVPIYVDNQYGEAMIPSLTDALHAIDT-RVPYRSVISP------LATDDQIEKELYKLFTMQTRVFIVHKLPSLGS 147 (783)
Q Consensus 75 gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~-~v~~~~~i~~------~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~ 147 (783)
.-++|.|...-|.-|......+.+.|+..|. .+.+. +|. +.+ ...+.++.+.+++.||.+-.+....
T Consensus 68 ~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~--IP~R~~eGYGl~----~~~i~~~~~~~~~LiItvD~Gi~~~ 141 (575)
T PRK11070 68 EGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYL--VPNRFEDGYGLS----PEVVDQAHARGAQLIVTVDNGISSH 141 (575)
T ss_pred CCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEE--eCCCCcCCCCCC----HHHHHHHHhcCCCEEEEEcCCcCCH
Confidence 4468887777677788888889999999998 45443 332 222 2456677778899999888888888
Q ss_pred HHHHHHHHcCccccceEEEEeCC
Q 036525 148 RIFEKANEIGLMNKGCVWIMTDG 170 (783)
Q Consensus 148 ~~~~~a~~~g~~~~~~~~i~~~~ 170 (783)
..+..|++.|+ . .|++|.
T Consensus 142 e~i~~a~~~gi--d---vIVtDH 159 (575)
T PRK11070 142 AGVAHAHALGI--P---VLVTDH 159 (575)
T ss_pred HHHHHHHHCCC--C---EEEECC
Confidence 88888999997 3 677774
No 441
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=33.12 E-value=3.1e+02 Score=25.89 Aligned_cols=85 Identities=13% Similarity=0.090 Sum_probs=59.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHh---ccCceEEEEE
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLF---TMQTRVFIVH 140 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~---~~~~dvii~~ 140 (783)
.+.+.+.+..+|--.+.-+|.|- |. .+.|.+.+...|.++... .+ +.|+.=.+..+. +...|.+++.
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a-~a---~~~l~~~l~~~Gf~pv~~----kG--~~Dv~laIDame~~~~~~iD~~vLv 112 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQ-YA---SDKLIEAVVNQGFEPIIV----AG--DVDVRMAVEAMELIYNPNIDAVALV 112 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEech-hc---cHHHHHHHHHCCceEEEe----cC--cccHHHHHHHHHHhccCCCCEEEEE
Confidence 45677777888865666666543 22 346789999999987642 23 335443343332 4678999999
Q ss_pred cChhhHHHHHHHHHHcCc
Q 036525 141 KLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 141 ~~~~~~~~~~~~a~~~g~ 158 (783)
+.-.|...++..+++.|.
T Consensus 113 SgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 113 TRDADFLPVINKAKENGK 130 (160)
T ss_pred eccHhHHHHHHHHHHCCC
Confidence 999999999999999885
No 442
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=33.10 E-value=4.1e+02 Score=28.39 Aligned_cols=119 Identities=12% Similarity=0.059 Sum_probs=70.6
Q ss_pred CCCeEEEeec-CchhhHHHHHHH---HHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhH-HH
Q 036525 49 RSPYFFRGAL-NDSSQVGAITAI---IKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQ-IE 123 (783)
Q Consensus 49 ~~~~~fr~~p-~~~~~~~ai~~~---l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d-~~ 123 (783)
..||++-+.. +-.--...++++ ++..| ++|.+.. -|-|=.+.+++++...++.|+.|.... ++.+... .-
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g-~~VllaA-~DTFRAaAiEQL~~w~er~gv~vI~~~---~G~DpAaVaf 211 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQG-KSVLLAA-GDTFRAAAIEQLEVWGERLGVPVISGK---EGADPAAVAF 211 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCC-CeEEEEe-cchHHHHHHHHHHHHHHHhCCeEEccC---CCCCcHHHHH
Confidence 4577766544 333333444444 45445 4555444 566767778888888888998887642 2333222 23
Q ss_pred HHHHHHhccCceEEEEEcChh---------hHHHHHHHHHHcCccccceEEEEeCCcc
Q 036525 124 KELYKLFTMQTRVFIVHKLPS---------LGSRIFEKANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 124 ~~l~~l~~~~~dvii~~~~~~---------~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 172 (783)
..++..++.+.|++++.+.+. +...+.+..+..--..|..++++-|+..
T Consensus 212 DAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAtt 269 (340)
T COG0552 212 DAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATT 269 (340)
T ss_pred HHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEccc
Confidence 567788888999999988775 3444444444433334445666655444
No 443
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=33.06 E-value=2.8e+02 Score=28.44 Aligned_cols=88 Identities=14% Similarity=0.153 Sum_probs=58.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...++......|..-+.++. |..|..+..+.+...-+..++.+-....+- . .-++.+.+..++|+|++....
T Consensus 70 ~~~~a~~y~~~GA~aiSVlT-e~~~F~Gs~~dL~~v~~~~~~PvL~KDFIi---d----~~QI~eA~~~GADaVLLI~~~ 141 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLT-EPKFFGGSLEDLRAVRKAVDLPVLRKDFII---D----PYQIYEARAAGADAVLLIAAI 141 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE---SCCCHHHHHHHHHHHHHSSS-EEEES------S----HHHHHHHHHTT-SEEEEEGGG
T ss_pred HHHHHHHHHhcCCCEEEEEC-CCCCCCCCHHHHHHHHHHhCCCcccccCCC---C----HHHHHHHHHcCCCEeehhHHh
Confidence 45566666778988888887 556666888888888777777776544332 1 146777888999998876532
Q ss_pred ---hhHHHHHHHHHHcCcc
Q 036525 144 ---SLGSRIFEKANEIGLM 159 (783)
Q Consensus 144 ---~~~~~~~~~a~~~g~~ 159 (783)
.....++..|.++||.
T Consensus 142 L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 142 LSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp SGHHHHHHHHHHHHHTT-E
T ss_pred CCHHHHHHHHHHHHHcCCC
Confidence 3458999999999984
No 444
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=33.05 E-value=2e+02 Score=28.83 Aligned_cols=87 Identities=17% Similarity=0.147 Sum_probs=50.6
Q ss_pred HHHHHHHHH--cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 65 GAITAIIKA--FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 65 ~ai~~~l~~--~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
..++..+.. ...+++.++. |....+.+.+.|++.|.++.....|.......+....+..+.+.+.|+|+ +++
T Consensus 112 ~~l~~~l~~~~~~~~~ili~~-----~~~~~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~iv-ftS 185 (249)
T PRK05928 112 SELLLELPELLLKGKRVLYLR-----GNGGREVLGDTLEERGAEVDECEVYERVPPKLDGAELLARLQSGEVDAVI-FTS 185 (249)
T ss_pred hHHHHhChhhhcCCCEEEEEC-----CCCCHHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHHHhCCCCEEE-ECC
Confidence 344444432 3445666664 33456778889999998887655554322222233334444455677654 456
Q ss_pred hhhHHHHHHHHHHcC
Q 036525 143 PSLGSRIFEKANEIG 157 (783)
Q Consensus 143 ~~~~~~~~~~a~~~g 157 (783)
+..+..+++.+.+.+
T Consensus 186 ~~~v~~~~~~~~~~~ 200 (249)
T PRK05928 186 PSTVRAFFSLAPELG 200 (249)
T ss_pred HHHHHHHHHHhcccc
Confidence 677777777776654
No 445
>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=33.03 E-value=72 Score=33.46 Aligned_cols=66 Identities=9% Similarity=0.114 Sum_probs=38.9
Q ss_pred EEEEEEE-eCCcCCcchHHHHHHHhhCCceE---eEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChh
Q 036525 78 EAVPIYV-DNQYGEAMIPSLTDALHAIDTRV---PYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPS 144 (783)
Q Consensus 78 ~vaii~~-d~~~G~~~~~~~~~~l~~~g~~v---~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~ 144 (783)
+|+|+.. +.+.-.+..++|++.|++.|... .+.. .....+...+...+.++.+.++|+|+..+...
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~~~~~~~~-~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt~a 70 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDEKNVEIEY-KNAEGDPEKLRQIARKLKAQKPDLIIAIGTPA 70 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--CCCEEEEE-EE-TT-HHHHHHHHHHHCCTS-SEEEEESHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCccccEEEEE-ecCCCCHHHHHHHHHHHhcCCCCEEEEeCcHH
Confidence 4555552 22223467899999999998765 2222 22233345677788889899999988875543
No 446
>TIGR02356 adenyl_thiF thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF family of proteins (pfam00899) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees, with the Escherichia. coli ThiF and the E. coli MoeB proteins seemingly more closely related than E. coli ThiF and Campylobacter (for example) ThiF. This model represents the more widely distributed clade of ThiF proteins such found in E. coli.
Probab=32.95 E-value=4.8e+02 Score=25.55 Aligned_cols=89 Identities=10% Similarity=0.139 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEe---------------CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHH
Q 036525 63 QVGAITAIIKAFGWREAVPIYVD---------------NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELY 127 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d---------------~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~ 127 (783)
.+..+++.|...|..++.++-.| ++-|+..++.+.+.+++.+-.+.... ++...+.+++.
T Consensus 32 lGs~ia~~La~~Gv~~i~lvD~d~ve~sNL~Rq~l~~~~diG~~Ka~~~~~~l~~~np~v~i~~-~~~~i~~~~~~---- 106 (202)
T TIGR02356 32 LGSPAALYLAGAGVGTIVIVDDDHVDLSNLQRQILFTEEDVGRPKVEVAAQRLRELNSDIQVTA-LKERVTAENLE---- 106 (202)
T ss_pred HHHHHHHHHHHcCCCeEEEecCCEEcccchhhhhccChhhCCChHHHHHHHHHHHhCCCCEEEE-ehhcCCHHHHH----
Confidence 45667788888899888877544 45577888888899988665443332 22222222222
Q ss_pred HHhccCceEEEEEcChhhHHHHH-HHHHHcC
Q 036525 128 KLFTMQTRVFIVHKLPSLGSRIF-EKANEIG 157 (783)
Q Consensus 128 ~l~~~~~dvii~~~~~~~~~~~~-~~a~~~g 157 (783)
++. .+.|+||.+.........+ +.+++.+
T Consensus 107 ~~~-~~~D~Vi~~~d~~~~r~~l~~~~~~~~ 136 (202)
T TIGR02356 107 LLI-NNVDLVLDCTDNFATRYLINDACVALG 136 (202)
T ss_pred HHH-hCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence 222 4679988887666665555 4456665
No 447
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=32.90 E-value=2.7e+02 Score=26.21 Aligned_cols=80 Identities=10% Similarity=0.079 Sum_probs=54.9
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 63 QVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.++.+..+.++++.+++.++- |..-...+.+.+.+.+.-.|+++.... -++....+.+ ...+-++++++-+
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s-------v~~a~~~l~~-~~~~~~v~il~k~ 85 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFWT-------LQKVIDNIHR-AADRQKILLVCKT 85 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEEE-------HHHHHHHHhc-cCCCceEEEEECC
Confidence 577888899999998866553 444445566666666655677764432 2355566666 5556689999999
Q ss_pred hhhHHHHHH
Q 036525 143 PSLGSRIFE 151 (783)
Q Consensus 143 ~~~~~~~~~ 151 (783)
+.++..+++
T Consensus 86 ~~d~~~l~~ 94 (157)
T PRK11425 86 PADFLTLVK 94 (157)
T ss_pred HHHHHHHHH
Confidence 999888764
No 448
>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=32.74 E-value=1.3e+02 Score=30.47 Aligned_cols=73 Identities=14% Similarity=0.009 Sum_probs=49.0
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|-..+.+.+.+++++.|.++..... ..+...-...+..+.+.++|.||+...... .+++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiii~~~~~~----~~~~~~~ 74 (265)
T cd06291 2 IGLIVPTISNPFFSELARAVEKELYKKGYKLILCNS---DNDPEKEREYLEMLRQNQVDGIIAGTHNLG----IEEYENI 74 (265)
T ss_pred EEEEECCCCChhHHHHHHHHHHHHHHCCCeEEEecC---CccHHHHHHHHHHHHHcCCCEEEEecCCcC----HHHHhcC
Confidence 455653 5678888899999999999988764321 122223456777888889999988765433 2355566
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|+
T Consensus 75 gi 76 (265)
T cd06291 75 DL 76 (265)
T ss_pred CC
Confidence 64
No 449
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 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 Escherichia 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 entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=32.43 E-value=86 Score=29.31 Aligned_cols=83 Identities=17% Similarity=0.155 Sum_probs=59.2
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 63 QVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 63 ~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
.++.+..++++++.+++.++- |......+.+.+.+.+.-.|+++.... .++....+.+-...+.++++++.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s-------v~~a~~~l~~~~~~~~~v~ii~k~ 84 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIFS-------VEEAIEKLKKPEYSKKRVLIIVKS 84 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE--------HHHHHHHHCGGGGTTEEEEEEESS
T ss_pred eeeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEEE-------HHHHHHHHHhcccCCceEEEEECC
Confidence 467788899999999877665 555556677777777767788875432 235555555555567899999999
Q ss_pred hhhHHHHHHHH
Q 036525 143 PSLGSRIFEKA 153 (783)
Q Consensus 143 ~~~~~~~~~~a 153 (783)
+.++..++.+.
T Consensus 85 ~~d~~~l~~~g 95 (151)
T PF03830_consen 85 PEDALRLVEAG 95 (151)
T ss_dssp HHHHHHHHHTT
T ss_pred HHHHHHHHhcC
Confidence 99998887643
No 450
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=32.42 E-value=3.8e+02 Score=26.22 Aligned_cols=89 Identities=15% Similarity=-0.001 Sum_probs=55.7
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh----hhHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP----SLGSRIFEK 152 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~----~~~~~~~~~ 152 (783)
.+|.+.....+.-.-...-+...++..|.+|.+-- .+.+ ....+..+++.+||+|.+.+.. .....++++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG---~~~p---~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~ 156 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG---RDVP---PEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEA 156 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC---CCCC---HHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHH
Confidence 46555555555555556777788889999985422 1222 3345566677889998887632 367778888
Q ss_pred HHHcCccccceEEEEeCCc
Q 036525 153 ANEIGLMNKGCVWIMTDGM 171 (783)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~ 171 (783)
.++.+....-.+++++...
T Consensus 157 lr~~~~~~~~~i~vGG~~~ 175 (201)
T cd02070 157 LKEAGLRDKVKVMVGGAPV 175 (201)
T ss_pred HHHCCCCcCCeEEEECCcC
Confidence 8887742234456665543
No 451
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=32.26 E-value=1.2e+02 Score=30.88 Aligned_cols=86 Identities=15% Similarity=0.172 Sum_probs=66.0
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc---C
Q 036525 66 AITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK---L 142 (783)
Q Consensus 66 ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~---~ 142 (783)
.+++..++.|..-+.++. |..|.++..+.++..-+...+.|-....+. + ..++...+..++|+|++.. .
T Consensus 70 ~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii---D----~yQI~~Ar~~GADavLLI~~~L~ 141 (254)
T COG0134 70 EIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII---D----PYQIYEARAAGADAVLLIVAALD 141 (254)
T ss_pred HHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC---C----HHHHHHHHHcCcccHHHHHHhcC
Confidence 367777788988888887 777888999999888888888776655442 1 1467777889999887654 3
Q ss_pred hhhHHHHHHHHHHcCcc
Q 036525 143 PSLGSRIFEKANEIGLM 159 (783)
Q Consensus 143 ~~~~~~~~~~a~~~g~~ 159 (783)
......++..|.++||.
T Consensus 142 ~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 142 DEQLEELVDRAHELGME 158 (254)
T ss_pred HHHHHHHHHHHHHcCCe
Confidence 44689999999999984
No 452
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=32.20 E-value=2.4e+02 Score=29.15 Aligned_cols=87 Identities=11% Similarity=0.035 Sum_probs=48.5
Q ss_pred hhHHHHHHH-HHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEE
Q 036525 62 SQVGAITAI-IKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVH 140 (783)
Q Consensus 62 ~~~~ai~~~-l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~ 140 (783)
..++.++++ +....-++|.++- |....+.+.+.|.+.|.+|.....|.......+ ...+..+.......++++
T Consensus 123 ~~se~Ll~l~~~~~~g~~vLi~r-----g~~gr~~L~~~L~~~G~~V~~~~vY~~~~~~~~-~~~~~~l~~~~~~d~i~f 196 (266)
T PRK08811 123 MDSEGLLALPLAQAPLQAVGLIT-----APGGRGLLAPTLQQRGARILRADVYQRVPLRLR-ASTLAALSRAAPRSVLAL 196 (266)
T ss_pred CCcHHHHhChhhhCCCCEEEEEe-----CCCcHHHHHHHHHHCCCEEeEEEEEeeeCCCCC-HHHHHHHHHhCCCCEEEE
Confidence 446666666 4333335655554 233457889999999998876665532211101 133344433344445566
Q ss_pred cChhhHHHHHHHHH
Q 036525 141 KLPSLGSRIFEKAN 154 (783)
Q Consensus 141 ~~~~~~~~~~~~a~ 154 (783)
+++..+..|++.+.
T Consensus 197 tS~sav~~f~~~l~ 210 (266)
T PRK08811 197 SSAEALTLILQQLP 210 (266)
T ss_pred ChHHHHHHHHHHhh
Confidence 66666677766553
No 453
>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=32.18 E-value=1e+02 Score=31.22 Aligned_cols=92 Identities=18% Similarity=0.268 Sum_probs=61.9
Q ss_pred HHHHHHhcCCCcccceecCChhHHHHHHhcCcccCceeEE-ecchhHHHHHHhhcCCceEEecccccccceEEEecCCCC
Q 036525 520 VLGILKQLGFDERKLVVYNSPEDCHELFQKGSANGGIAAA-LDEIPYMKLLIGQHCSKYTMIEPKFKTAGFGFVFPLHSP 598 (783)
Q Consensus 520 ~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~-~~~~~~~~~~~~~~c~~l~~v~~~~~~~~~~~~~~k~sp 598 (783)
....+++.++ ..+++.|++..+..++|..|. +||- +...++++.+.++...++..+++ ....++|++-.|-..
T Consensus 17 v~~~~~~~Gi-~vevv~f~D~~~~N~AL~~G~----iDaN~fQh~~yl~~~n~~~~~~L~~v~~-~~~~p~glYS~k~~s 90 (237)
T PF03180_consen 17 VKEKLKKKGI-DVEVVEFSDYVQPNEALADGE----IDANFFQHIPYLEQFNKENGYNLVPVGP-TYIEPMGLYSKKYKS 90 (237)
T ss_dssp HHHHHHHTTE-EEEEEEESSTTHHHHHHHTTS----SSEEEEEEHHHHHHHHHHHT--EEEEEE-EEE---EEEESSSSS
T ss_pred HHHHHHhcCC-eEEEEEecchhhcChHHHCCC----cceeccCCHHHHHHHHHHCCCcEEEecc-eeEEeEEEeecccCc
Confidence 3445566664 447788999999999999999 8874 55678888887776556877775 344567776554322
Q ss_pred Ch--------------HHHHHHHHhhhcCChHH
Q 036525 599 LV--------------HDVSKAILNVTEGDKMK 617 (783)
Q Consensus 599 l~--------------~~in~~il~l~e~G~~~ 617 (783)
+- ....++|.-|.+.|++.
T Consensus 91 l~~lp~Ga~VaIpnD~sN~~RaL~lLq~aGLI~ 123 (237)
T PF03180_consen 91 LDDLPDGATVAIPNDPSNQARALKLLQEAGLIT 123 (237)
T ss_dssp GGGS-TTEEEEEESSHHHHHHHHHHHHHTTSEE
T ss_pred hhhcCCCCEEEEeCCccchhHHHHHHHhCCeEE
Confidence 21 24568999999999874
No 454
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=32.15 E-value=2.5e+02 Score=30.78 Aligned_cols=24 Identities=21% Similarity=0.271 Sum_probs=20.3
Q ss_pred CCeEEEEccCCchhHHHHHcccCC
Q 036525 7 AQVRVMLGPEDSMPTNFIIQPGNK 30 (783)
Q Consensus 7 ~~V~aiIGp~~S~~~~av~~~~~~ 30 (783)
.++.+++||.+++=+..++.++..
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~ 197 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAI 197 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999988888887754
No 455
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=31.75 E-value=2e+02 Score=32.63 Aligned_cols=32 Identities=13% Similarity=0.017 Sum_probs=17.3
Q ss_pred cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCce
Q 036525 74 FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTR 106 (783)
Q Consensus 74 ~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~ 106 (783)
.|.++|++|..| .|-.+..+.++...+..|+.
T Consensus 284 ~G~~kV~LI~~D-t~RigA~EQLr~~AeilGVp 315 (484)
T PRK06995 284 HGASKVALLTTD-SYRIGGHEQLRIYGKILGVP 315 (484)
T ss_pred cCCCeEEEEeCC-ccchhHHHHHHHHHHHhCCC
Confidence 344566666543 34445555566555555643
No 456
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=31.75 E-value=2.4e+02 Score=30.56 Aligned_cols=89 Identities=15% Similarity=0.061 Sum_probs=59.1
Q ss_pred HHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhH
Q 036525 67 ITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLG 146 (783)
Q Consensus 67 i~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~ 146 (783)
+..+++..+-+++.+++.+.. -.-..+.+.+.++..|. .+. ..+....+..+.......+...++|+|+-.+.+...
T Consensus 21 ~~~~~~~~~~~~~lvv~g~~~-~~~~~~~~~~~l~~~g~-~~~-~~~~~~a~~~ev~~~~~~~~~~~~d~vIGVGGGk~i 97 (360)
T COG0371 21 LLEVLLKLGLSRALVVTGENT-YAIAGEKVEKSLKDEGL-VVH-VVFVGEASEEEVERLAAEAGEDGADVVIGVGGGKTI 97 (360)
T ss_pred HHHHHHhccCCceEEEEChhH-HHHHHHHHHHHhcccCc-cee-eeecCccCHHHHHHHHHHhcccCCCEEEEecCcHHH
Confidence 555666666678777774443 34556777888888887 333 334445666677766666766889999998888754
Q ss_pred HHHHHHHHHcCc
Q 036525 147 SRIFEKANEIGL 158 (783)
Q Consensus 147 ~~~~~~a~~~g~ 158 (783)
-.-=..|.++|+
T Consensus 98 D~aK~~A~~~~~ 109 (360)
T COG0371 98 DTAKAAAYRLGL 109 (360)
T ss_pred HHHHHHHHHcCC
Confidence 444445666774
No 457
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=31.61 E-value=3.2e+02 Score=29.82 Aligned_cols=97 Identities=12% Similarity=0.115 Sum_probs=58.4
Q ss_pred hhhHHHHHHHHHH--cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCC--hhHHHHHHHHHhccCceE
Q 036525 61 SSQVGAITAIIKA--FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLAT--DDQIEKELYKLFTMQTRV 136 (783)
Q Consensus 61 ~~~~~ai~~~l~~--~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~--~~d~~~~l~~l~~~~~dv 136 (783)
...++.+++.+.. ..-++|.+...+..-|+...+.+.+.|++.|.+|.....|..... .......+..+.+.+.|+
T Consensus 125 ~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~ 204 (381)
T PRK07239 125 SESSAEVLEYLLEEGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDA 204 (381)
T ss_pred CCccHHHHHHHhcCCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccE
Confidence 3446777777754 234666654433222333467899999999999876655532211 112334555666566776
Q ss_pred EEEEcChhhHHHHHHHHHHcCc
Q 036525 137 FIVHKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 137 ii~~~~~~~~~~~~~~a~~~g~ 158 (783)
|++ +++..+..|+..+.+.|+
T Consensus 205 v~F-tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 205 VTF-TSAPAVAALLERAREMGL 225 (381)
T ss_pred EEE-cCHHHHHHHHHHHHHcCC
Confidence 554 567778888887766553
No 458
>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=31.47 E-value=1.1e+02 Score=21.71 Aligned_cols=30 Identities=17% Similarity=0.340 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH-HHHHhhcc
Q 036525 647 FWGLFLIAGIAAILALIIFLAV-FVHQHRNV 676 (783)
Q Consensus 647 l~g~F~il~~g~~ls~~vfl~E-~~~~~~~~ 676 (783)
+.-.|++++.|+++++.+|+.- ++|...|+
T Consensus 4 vLRs~L~~~F~~lIC~Fl~~~~~F~~F~~Kq 34 (54)
T PF06716_consen 4 VLRSYLLLAFGFLICLFLFCLVVFIWFVYKQ 34 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4457889999999888877554 44544443
No 459
>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=31.22 E-value=52 Score=29.82 Aligned_cols=31 Identities=32% Similarity=0.503 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 036525 648 WGLFLIAGIAAILALIIFLAVFVHQHRNVLR 678 (783)
Q Consensus 648 ~g~F~il~~g~~ls~~vfl~E~~~~~~~~~r 678 (783)
|.+|+|+++.++|.+++|++-.-.++|+-++
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r~G~~ 32 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRRRGLQ 32 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 3456666666666666666655555555444
No 460
>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=31.06 E-value=4.8e+02 Score=24.94 Aligned_cols=129 Identities=13% Similarity=0.081 Sum_probs=65.1
Q ss_pred CeEEEEccCCchhHHHHHcccCCC--CccEEeeccCCCCCC-C-CCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 8 QVRVMLGPEDSMPTNFIIQPGNKS--QVPILSFSATSPSLT-S-IRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 8 ~V~aiIGp~~S~~~~av~~~~~~~--~vP~Is~~a~s~~ls-~-~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
.+.+++||.+|+-..-+..+++.. ++..+-...+-+.-. + .+-.|.|-+ -+.+-+.++.-..-... -+
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~~~~TtR~~r~~e~~g~dy~fvs-------~~ef~~~i~~g~fve~~-~~ 74 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNGVDYHFVS-------REEFEDDIKSGLFLEWG-EY 74 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhcCCcceEeeeeecCCCCCCCCcCCceEEECC-------HHHHHHHHHcCCeEEEE-EE
Confidence 578999999998888777777775 344433333333222 1 234676643 12233333322211111 12
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
.++-||.. .+.+.+.+++...+|. ... ...+.++++...+.++++..++....+.+...+.
T Consensus 75 ~g~~YGt~-~~~i~~~~~~~~~~il-d~~----------~~~~~~l~~~~~~~~vIfi~~~s~~~l~~rl~~R 135 (184)
T smart00072 75 SGNYYGTS-KETIRQVAEQGKHCLL-DID----------PQGVKQLRKAQLYPIVIFIAPPSSEELERRLRGR 135 (184)
T ss_pred cCcCcccC-HHHHHHHHHcCCeEEE-EEC----------HHHHHHHHHhCCCcEEEEEeCcCHHHHHHHHHhc
Confidence 35677755 4456666665444442 221 1233455555566556655544444444444443
No 461
>COG0521 MoaB Molybdopterin biosynthesis enzymes [Coenzyme metabolism]
Probab=30.97 E-value=2.6e+02 Score=26.58 Aligned_cols=64 Identities=19% Similarity=0.239 Sum_probs=42.4
Q ss_pred EEEEEEEeCC--cCCc---chHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 78 EAVPIYVDNQ--YGEA---MIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 78 ~vaii~~d~~--~G~~---~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
++++|..+|. -|.. .-+.+.+.|++.|-++.....++. ....+...+.++.....|+|+..+..
T Consensus 9 ~~~VvTVSd~r~~~~~~D~sG~~l~~~L~~ag~~~~~~~iV~D--~~~~I~~~l~~~~~~~~DvvlttGGT 77 (169)
T COG0521 9 RIAVVTVSDRRSTGEYEDKSGPLLVELLEEAGHNVAAYTIVPD--DKEQIRATLIALIDEDVDVVLTTGGT 77 (169)
T ss_pred eEEEEEEecccccCCccccchhHHHHHHHHcCCccceEEEeCC--CHHHHHHHHHHHhcCCCCEEEEcCCc
Confidence 5666664333 2322 567889999999999977776662 23356677766654458999987644
No 462
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=30.72 E-value=4.7e+02 Score=24.72 Aligned_cols=36 Identities=11% Similarity=0.147 Sum_probs=21.6
Q ss_pred ChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 118 TDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 118 ~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
++.||.+.+.++++.+.+|+++.........+.+++
T Consensus 114 gD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~ac 149 (160)
T TIGR00288 114 RDADFLPVINKAKENGKETIVIGAEPGFSTALQNSA 149 (160)
T ss_pred ccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHHHhc
Confidence 345777777777777777766665444444444443
No 463
>PRK05569 flavodoxin; Provisional
Probab=30.27 E-value=4.1e+02 Score=23.95 Aligned_cols=75 Identities=5% Similarity=0.001 Sum_probs=44.8
Q ss_pred CCCeEEEeecCchh------hHHHHHHHHHHc--CCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChh
Q 036525 49 RSPYFFRGALNDSS------QVGAITAIIKAF--GWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDD 120 (783)
Q Consensus 49 ~~~~~fr~~p~~~~------~~~ai~~~l~~~--gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~ 120 (783)
.++.++=.+|+... +...+.+.++.. .-|+++++..-...+....+.+.+.+++.|.++.....+...++.+
T Consensus 48 ~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~~~~~K~v~~f~t~g~~~~~~~~~~~~~l~~~g~~~~~~~~~~~~p~~~ 127 (141)
T PRK05569 48 EADAVAFGSPSMDNNNIEQEEMAPFLDQFKLTPNENKKCILFGSYGWDNGEFMKLWKDRMKDYGFNVIGDLAVNESPNKE 127 (141)
T ss_pred hCCEEEEECCCcCCCcCChHHHHHHHHHhhccCcCCCEEEEEeCCCCCCCcHHHHHHHHHHHCCCeEeeeEEEccCCCHH
Confidence 45666666665432 244444444432 3578888875433334567778889999999887766654444443
Q ss_pred HHH
Q 036525 121 QIE 123 (783)
Q Consensus 121 d~~ 123 (783)
|+.
T Consensus 128 ~~~ 130 (141)
T PRK05569 128 ELN 130 (141)
T ss_pred HHH
Confidence 443
No 464
>PRK13054 lipid kinase; Reviewed
Probab=30.23 E-value=2.5e+02 Score=29.51 Aligned_cols=76 Identities=7% Similarity=0.008 Sum_probs=47.5
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
+++.+|+....-+......+.+.+++.|.++..... .... +......++...+.|+|++.+.-.....++..+.+.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t--~~~~--~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~~~ 79 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVT--WEKG--DAARYVEEALALGVATVIAGGGDGTINEVATALAQL 79 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEe--cCCC--cHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHHhh
Confidence 567777743322334455566778888887644322 1122 455556666667789998888777778888776643
No 465
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=29.73 E-value=59 Score=38.50 Aligned_cols=53 Identities=15% Similarity=0.134 Sum_probs=45.4
Q ss_pred cchhHHHHHHHhhhcc--cccccccchhhhHHHHHHHHHHHHHHhhhhhhheeec
Q 036525 455 VGTSFWFSFSTMVFSQ--RERVISNLARFVVIVWCFVVLILTQSYTASLTSLLTV 507 (783)
Q Consensus 455 ~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~l~~lil~s~Yta~L~s~Lt~ 507 (783)
+..++|+++++|..-| ...+....-.++.++.++++++|.+..-+|+++++..
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 4579999999998555 4566888899999999999999999999999999843
No 466
>PRK09271 flavodoxin; Provisional
Probab=29.61 E-value=1.6e+02 Score=27.65 Aligned_cols=84 Identities=7% Similarity=0.052 Sum_probs=48.5
Q ss_pred EEEEEEEeCCcC--CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh------h-hHHH
Q 036525 78 EAVPIYVDNQYG--EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP------S-LGSR 148 (783)
Q Consensus 78 ~vaii~~d~~~G--~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~------~-~~~~ 148 (783)
++.|+| .+.+| +.+++.+.+.+++.|.++..... + ..++...... ..+.++|++.++. + .+..
T Consensus 2 kv~IvY-~S~tGnTe~~A~~ia~~l~~~g~~v~~~~~-~----~~~~~~~~~~--~~~~d~vilgt~T~~~G~~p~~~~~ 73 (160)
T PRK09271 2 RILLAY-ASLSGNTREVAREIEERCEEAGHEVDWVET-D----VQTLAEYPLD--PEDYDLYLLGTWTDNAGRTPPEMKR 73 (160)
T ss_pred eEEEEE-EcCCchHHHHHHHHHHHHHhCCCeeEEEec-c----cccccccccC--cccCCEEEEECcccCCCcCCHHHHH
Confidence 577788 34555 56788888999998887643221 1 1122222111 2356888877632 2 4778
Q ss_pred HHHHHHHcCccccceEEEEeC
Q 036525 149 IFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 149 ~~~~a~~~g~~~~~~~~i~~~ 169 (783)
|+....+.....+.+..+++.
T Consensus 74 f~~~l~~~~~~~k~~avfgsg 94 (160)
T PRK09271 74 FIAELAETIGKPPNVAVFGTG 94 (160)
T ss_pred HHHHHHHHhccCCeEEEEecC
Confidence 887776633233445566664
No 467
>PLN02727 NAD kinase
Probab=29.59 E-value=4.1e+02 Score=32.49 Aligned_cols=90 Identities=14% Similarity=0.174 Sum_probs=57.8
Q ss_pred CeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEe-cCCCCChhHHHHHHHHH
Q 036525 51 PYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSV-ISPLATDDQIEKELYKL 129 (783)
Q Consensus 51 ~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~-i~~~~~~~d~~~~l~~l 129 (783)
-.++|.......+ +.. +...|.|.|.-+-.+++-+.......+++.++.|++.+..-. .....+.+++......+
T Consensus 261 ~~~~rsgQpspe~---la~-LA~~GfKTIINLRpd~E~~q~~~~ee~eAae~~GL~yVhIPVs~~~apt~EqVe~fa~~l 336 (986)
T PLN02727 261 AAFWRGGQVTEEG---LKW-LLEKGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEVVKIPVEVRTAPSAEQVEKFASLV 336 (986)
T ss_pred eeEEEeCCCCHHH---HHH-HHHCCCeEEEECCCCCcCCCchhHHHHHHHHHcCCeEEEeecCCCCCCCHHHHHHHHHHH
Confidence 3567776655444 333 344699999988887775555567788899999999876532 22233455666665666
Q ss_pred hccCceEEEEEcChh
Q 036525 130 FTMQTRVFIVHKLPS 144 (783)
Q Consensus 130 ~~~~~dvii~~~~~~ 144 (783)
++..+.-|++||-..
T Consensus 337 ~~slpkPVLvHCKSG 351 (986)
T PLN02727 337 SDSSKKPIYLHSKEG 351 (986)
T ss_pred HhhcCCCEEEECCCC
Confidence 455567677766444
No 468
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=29.56 E-value=4.8e+02 Score=28.50 Aligned_cols=88 Identities=16% Similarity=0.193 Sum_probs=55.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEe---------------CCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHH
Q 036525 64 VGAITAIIKAFGWREAVPIYVD---------------NQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYK 128 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d---------------~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~ 128 (783)
+..++..|...|..++.++-.| ++-|+..++.+.+.+++.+-.+.... ++...+..++. .
T Consensus 147 Gs~ia~~La~~Gvg~i~lvD~d~v~~sNl~Rq~l~~~~diG~~Ka~~~~~~l~~~np~v~v~~-~~~~~~~~~~~----~ 221 (376)
T PRK08762 147 GSPAALYLAAAGVGTLGIVDHDVVDRSNLQRQILHTEDRVGQPKVDSAAQRLAALNPDVQVEA-VQERVTSDNVE----A 221 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEeCCEecchhhccccccchhhCCCcHHHHHHHHHHHHCCCCEEEE-EeccCChHHHH----H
Confidence 5567777788899998887654 35688889999999987654433221 22122222322 2
Q ss_pred HhccCceEEEEEcChhhHHHHH-HHHHHcC
Q 036525 129 LFTMQTRVFIVHKLPSLGSRIF-EKANEIG 157 (783)
Q Consensus 129 l~~~~~dvii~~~~~~~~~~~~-~~a~~~g 157 (783)
+. .+.|+||.+......+..+ +.+++.+
T Consensus 222 ~~-~~~D~Vv~~~d~~~~r~~ln~~~~~~~ 250 (376)
T PRK08762 222 LL-QDVDVVVDGADNFPTRYLLNDACVKLG 250 (376)
T ss_pred HH-hCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence 22 3679988887776666545 4466666
No 469
>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=29.19 E-value=2.1e+02 Score=27.02 Aligned_cols=36 Identities=19% Similarity=0.374 Sum_probs=29.3
Q ss_pred cCCeEEEEccCCc--hhHHHHHcccCCCCccEEeeccC
Q 036525 6 NAQVRVMLGPEDS--MPTNFIIQPGNKSQVPILSFSAT 41 (783)
Q Consensus 6 ~~~V~aiIGp~~S--~~~~av~~~~~~~~vP~Is~~a~ 41 (783)
-++...++|+... .....+..++++.++|+++....
T Consensus 27 AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~ 64 (162)
T TIGR00315 27 AKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADT 64 (162)
T ss_pred CCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcc
Confidence 3578899998664 77889999999999999986643
No 470
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=29.13 E-value=1.9e+02 Score=30.85 Aligned_cols=88 Identities=10% Similarity=0.075 Sum_probs=62.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhh-CCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEc-
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHK- 141 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~-~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~- 141 (783)
...+++.....|..-+.++. |..|..+..+.+.+.-+. ..+.|.....+- + .-++.+.+..++|+|++..
T Consensus 141 p~~iA~~Ye~~GA~aISVLT-d~~~F~Gs~e~L~~vr~~~v~lPvLrKDFII---D----~yQI~eAr~~GADAVLLIaa 212 (338)
T PLN02460 141 PVEIAQAYEKGGAACLSVLT-DEKYFQGSFENLEAIRNAGVKCPLLCKEFIV---D----AWQIYYARSKGADAILLIAA 212 (338)
T ss_pred HHHHHHHHHhCCCcEEEEec-CcCcCCCCHHHHHHHHHcCCCCCEeeccccC---C----HHHHHHHHHcCCCcHHHHHH
Confidence 35566767778998889888 666667888888766554 555555444332 1 2467788889999888753
Q ss_pred --ChhhHHHHHHHHHHcCcc
Q 036525 142 --LPSLGSRIFEKANEIGLM 159 (783)
Q Consensus 142 --~~~~~~~~~~~a~~~g~~ 159 (783)
...+...+++.|+++||.
T Consensus 213 iL~~~~L~~l~~~A~~LGme 232 (338)
T PLN02460 213 VLPDLDIKYMLKICKSLGMA 232 (338)
T ss_pred hCCHHHHHHHHHHHHHcCCe
Confidence 345799999999999984
No 471
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=29.06 E-value=4.7e+02 Score=30.25 Aligned_cols=97 Identities=10% Similarity=-0.071 Sum_probs=55.6
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCC---ChhHHHHHHHHHhcc---CceEEEE
Q 036525 66 AITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLA---TDDQIEKELYKLFTM---QTRVFIV 139 (783)
Q Consensus 66 ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~---~~~d~~~~l~~l~~~---~~dvii~ 139 (783)
.+.++++.++ .++++|..+... ...+.+.+.+++.|+++. ...++... +.+.....+..+.+. ++|+||.
T Consensus 200 ~l~~~l~~~g-~k~~iV~d~~v~--~~~~~l~~~L~~~g~~v~-~~v~p~~E~~ksl~~v~~~~~~l~~~~~~r~D~IIA 275 (542)
T PRK14021 200 HLPQVLGPKP-VKVALIHTQPVQ--RHSDRARTLLRQGGYEVS-DIVIPDAEAGKTIEVANGIWQRLGNEGFTRSDAIVG 275 (542)
T ss_pred HHHHHHHhcC-CeEEEEECccHH--HHHHHHHHHHHhCCCceE-EEEeCCCcccCCHHHHHHHHHHHHhcCCCCCcEEEE
Confidence 3455566566 456666543332 245677788888887643 33344322 223444555666655 5888887
Q ss_pred EcChh--hHHHHHHHHHHcCccccceEEEEeC
Q 036525 140 HKLPS--LGSRIFEKANEIGLMNKGCVWIMTD 169 (783)
Q Consensus 140 ~~~~~--~~~~~~~~a~~~g~~~~~~~~i~~~ 169 (783)
.|.+. |++.++......|+ .|+-|-|.
T Consensus 276 IGGGsv~D~AKfvA~~y~rGi---~~i~vPTT 304 (542)
T PRK14021 276 LGGGAATDLAGFVAATWMRGI---RYVNCPTS 304 (542)
T ss_pred EcChHHHHHHHHHHHHHHcCC---CEEEeCCh
Confidence 66554 78888877677774 34444443
No 472
>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=29.02 E-value=1.8e+02 Score=29.38 Aligned_cols=72 Identities=4% Similarity=-0.047 Sum_probs=48.4
Q ss_pred EEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHHHHc
Q 036525 79 AVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKANEI 156 (783)
Q Consensus 79 vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a~~~ 156 (783)
|+++.. ++.|...+...+.+++++.|..+.....- +....+..+...++|.|++.....+. ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-------~~~~~~~~l~~~~vdgii~~~~~~~~-~~~~~~~~~ 73 (261)
T cd06272 2 IGLIWPSVSRVALTELVTGINQAISKNGYNMNVSITP-------SLAEAEDLFKENRFDGVIIFGESASD-VEYLYKIKL 73 (261)
T ss_pred EEEEecCCCchhHHHHHHHHHHHHHHcCCEEEEEecc-------cHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHHHc
Confidence 556664 46788888999999999999887654321 22345666778899988876543332 235666676
Q ss_pred Cc
Q 036525 157 GL 158 (783)
Q Consensus 157 g~ 158 (783)
|.
T Consensus 74 ~i 75 (261)
T cd06272 74 AI 75 (261)
T ss_pred CC
Confidence 63
No 473
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=29.01 E-value=2.3e+02 Score=28.08 Aligned_cols=85 Identities=12% Similarity=0.131 Sum_probs=53.5
Q ss_pred hHHHHHHHHHHcC--CeEEEEEEEeCCcCCcchHHHHHHHhhC-CceEeEEEecCCCCChhHHHHHHHHHhccCceEEEE
Q 036525 63 QVGAITAIIKAFG--WREAVPIYVDNQYGEAMIPSLTDALHAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIV 139 (783)
Q Consensus 63 ~~~ai~~~l~~~g--w~~vaii~~d~~~G~~~~~~~~~~l~~~-g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~ 139 (783)
....+.+++.... -.++++|-.....-....+.+.+++++. |.++.....++ +.+.. .+| ..+|+|++
T Consensus 16 ~~~~l~~~l~~~~~~~~~i~~IptAs~~~~~~~~~~~~a~~~l~G~~~~~~~~~~----~~~~~---~~l--~~ad~I~l 86 (212)
T cd03146 16 ALPAIDDLLLSLTKARPKVLFVPTASGDRDEYTARFYAAFESLRGVEVSHLHLFD----TEDPL---DAL--LEADVIYV 86 (212)
T ss_pred chHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHhhccCcEEEEEeccC----cccHH---HHH--hcCCEEEE
Confidence 3456667776653 4577777655444456678889999999 88776544322 22222 333 37899999
Q ss_pred EcChhhHHHHHHHHHHcCc
Q 036525 140 HKLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 140 ~~~~~~~~~~~~~a~~~g~ 158 (783)
.+ + +...+++.+++.|+
T Consensus 87 ~G-G-~~~~~~~~l~~~~l 103 (212)
T cd03146 87 GG-G-NTFNLLAQWREHGL 103 (212)
T ss_pred CC-c-hHHHHHHHHHHcCH
Confidence 88 3 56666666666554
No 474
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=28.96 E-value=83 Score=28.14 Aligned_cols=11 Identities=9% Similarity=0.347 Sum_probs=3.8
Q ss_pred ccccchhHHHH
Q 036525 642 LGLNSFWGLFL 652 (783)
Q Consensus 642 L~l~~l~g~F~ 652 (783)
++-..+.|+.+
T Consensus 61 fs~~~i~~Ii~ 71 (122)
T PF01102_consen 61 FSEPAIIGIIF 71 (122)
T ss_dssp SS-TCHHHHHH
T ss_pred ccccceeehhH
Confidence 33334444333
No 475
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=28.94 E-value=3.2e+02 Score=32.40 Aligned_cols=90 Identities=12% Similarity=0.080 Sum_probs=56.0
Q ss_pred chhhHHHHHHHHHH----cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCCh--hHHHHHHHHHhccC
Q 036525 60 DSSQVGAITAIIKA----FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATD--DQIEKELYKLFTMQ 133 (783)
Q Consensus 60 ~~~~~~ai~~~l~~----~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~--~d~~~~l~~l~~~~ 133 (783)
....++.+++.+.. ..-++|.++. |....+.+.+.|++.|.+|.....|...... ......+.++...+
T Consensus 119 ~~~~se~Ll~~l~~~~~~~~g~rVLi~r-----G~~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l~~~ 193 (656)
T PRK06975 119 ARYDSEALFAEIDAAFGALAGKRVLIVR-----GDGGREWLAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALLSGA 193 (656)
T ss_pred CccchHHHHHhHHHhccCCCCCEEEEEc-----CCCCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHHhCC
Confidence 44567888888753 3457777766 5556777889999999998776665421111 11112333344446
Q ss_pred ceEEEEEcChhhHHHHHHHHHH
Q 036525 134 TRVFIVHKLPSLGSRIFEKANE 155 (783)
Q Consensus 134 ~dvii~~~~~~~~~~~~~~a~~ 155 (783)
.|+|+ ++++..+..|+..+.+
T Consensus 194 idav~-fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 194 PHAWL-LTSSEAVRNLDELARA 214 (656)
T ss_pred CcEEE-ECCHHHHHHHHHHHHh
Confidence 77654 6677778888776544
No 476
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=28.88 E-value=3.1e+02 Score=27.25 Aligned_cols=88 Identities=17% Similarity=0.026 Sum_probs=57.9
Q ss_pred eEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh----hhHHHHHHH
Q 036525 77 REAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP----SLGSRIFEK 152 (783)
Q Consensus 77 ~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~----~~~~~~~~~ 152 (783)
.+|.+-....+...-...-+...|+..|.+|.+--. +.+ ....+..+.+.+||+|.+.+.. .....++++
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~---~vp---~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i~~ 162 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGV---MVP---IEKILEAAKEHKADIIGLSGLLVPSLDEMVEVAEE 162 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCC---CCC---HHHHHHHHHHcCCCEEEEccchhccHHHHHHHHHH
Confidence 466666555555555567777888999999866431 222 3345566677889999887543 367778888
Q ss_pred HHHcCccccceEEEEeCCcc
Q 036525 153 ANEIGLMNKGCVWIMTDGMT 172 (783)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~~ 172 (783)
.++.|. .-.+|+++...+
T Consensus 163 L~~~~~--~~~i~vGG~~~~ 180 (213)
T cd02069 163 MNRRGI--KIPLLIGGAATS 180 (213)
T ss_pred HHhcCC--CCeEEEEChhcC
Confidence 888875 445667665543
No 477
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=28.86 E-value=1.3e+02 Score=19.32 Aligned_cols=23 Identities=9% Similarity=-0.018 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 036525 652 LIAGIAAILALIIFLAVFVHQHR 674 (783)
Q Consensus 652 ~il~~g~~ls~~vfl~E~~~~~~ 674 (783)
+.+.+|.++|+.+-++--+|..+
T Consensus 4 faWilG~~lA~~~~i~~a~wlE~ 26 (28)
T PF08173_consen 4 FAWILGVLLACAFGILNAMWLEK 26 (28)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Confidence 45666777777666666555443
No 478
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=28.79 E-value=5.4e+02 Score=26.42 Aligned_cols=87 Identities=14% Similarity=0.114 Sum_probs=61.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcCh
Q 036525 64 VGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLP 143 (783)
Q Consensus 64 ~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~ 143 (783)
...+++.....|..-+.++.+...||- ..+.+...-+...+.|.....+. . .+ ++...+..++|+|.+.+..
T Consensus 72 ~~~~A~~~~~~GA~aisvlte~~~f~g-~~~~l~~v~~~v~iPvl~kdfi~---~--~~--qi~~a~~~GAD~VlLi~~~ 143 (260)
T PRK00278 72 PVEIAKAYEAGGAACLSVLTDERFFQG-SLEYLRAARAAVSLPVLRKDFII---D--PY--QIYEARAAGADAILLIVAA 143 (260)
T ss_pred HHHHHHHHHhCCCeEEEEecccccCCC-CHHHHHHHHHhcCCCEEeeeecC---C--HH--HHHHHHHcCCCEEEEEecc
Confidence 345666677788888887776555554 46777766666677776533221 1 22 6788889999998887644
Q ss_pred ---hhHHHHHHHHHHcCc
Q 036525 144 ---SLGSRIFEKANEIGL 158 (783)
Q Consensus 144 ---~~~~~~~~~a~~~g~ 158 (783)
.....++..+++.|+
T Consensus 144 l~~~~l~~li~~a~~lGl 161 (260)
T PRK00278 144 LDDEQLKELLDYAHSLGL 161 (260)
T ss_pred CCHHHHHHHHHHHHHcCC
Confidence 478999999999996
No 479
>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=28.78 E-value=34 Score=30.10 Aligned_cols=32 Identities=19% Similarity=0.371 Sum_probs=29.0
Q ss_pred eEEEEccCCchhHHHHHcccCCCCccEEeecc
Q 036525 9 VRVMLGPEDSMPTNFIIQPGNKSQVPILSFSA 40 (783)
Q Consensus 9 V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~a 40 (783)
|.+|.||.+|+=+..+..+++++++++|+...
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 57899999999999999999999999998765
No 480
>PRK10848 phosphohistidine phosphatase; Provisional
Probab=28.28 E-value=2.4e+02 Score=26.49 Aligned_cols=95 Identities=8% Similarity=0.005 Sum_probs=52.7
Q ss_pred ecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCce--EeEEEecCCCCChhHHHHHHHHHhccCc
Q 036525 57 ALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTR--VPYRSVISPLATDDQIEKELYKLFTMQT 134 (783)
Q Consensus 57 ~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~--v~~~~~i~~~~~~~d~~~~l~~l~~~~~ 134 (783)
.+....|++.+++++...++.-=.|+.+.-.-.+..++.+.+.+ +.. +.....+-++.........+..+.+.+.
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~---~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~~~ 100 (159)
T PRK10848 24 TTCGCDESRLMANWLKGQKVDIERVLVSPYLRAEQTLEVVGECL---NLPASAEVLPELTPCGDVGLVSAYLQALANEGV 100 (159)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCHHHHHHHHHHHHHHh---CCCCceEEccCCCCCCCHHHHHHHHHHHHhcCC
Confidence 44556788899999887665322344444433344444444333 332 3222222222222234556666665555
Q ss_pred eEEEEEcChhhHHHHHHHHH
Q 036525 135 RVFIVHKLPSLGSRIFEKAN 154 (783)
Q Consensus 135 dvii~~~~~~~~~~~~~~a~ 154 (783)
+-+++.+..+....++.+.-
T Consensus 101 ~~vllVgH~P~l~~l~~~L~ 120 (159)
T PRK10848 101 ASVLVISHLPLVGYLVAELC 120 (159)
T ss_pred CeEEEEeCcCcHHHHHHHHh
Confidence 67778888888888876664
No 481
>PTZ00413 lipoate synthase; Provisional
Probab=28.21 E-value=7.7e+02 Score=26.95 Aligned_cols=97 Identities=13% Similarity=0.193 Sum_probs=56.2
Q ss_pred ecCchhhHHHHHHHHHHcCCeEEEEEEEe-CC---cCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhcc
Q 036525 57 ALNDSSQVGAITAIIKAFGWREAVPIYVD-NQ---YGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTM 132 (783)
Q Consensus 57 ~p~~~~~~~ai~~~l~~~gw~~vaii~~d-~~---~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~ 132 (783)
.+-|..+....|+.++.+|.+.+.|-..+ |+ .|.+......+++++....+.....++.-..+ ...+.+|+++
T Consensus 175 ~~lD~eEp~~vA~av~~~Gl~~~VVTSv~RDDL~D~ga~~~a~~I~~Ir~~~p~~~IevligDf~g~---~e~l~~L~eA 251 (398)
T PTZ00413 175 PPLDPNEPEKVAKAVAEMGVDYIVMTMVDRDDLPDGGASHVARCVELIKESNPELLLEALVGDFHGD---LKSVEKLANS 251 (398)
T ss_pred CCCCHHHHHHHHHHHHHcCCCEEEEEEEcCCCCChhhHHHHHHHHHHHHccCCCCeEEEcCCccccC---HHHHHHHHhc
Confidence 45577788888998899999865444443 33 33333333444444432223223333311111 3588899999
Q ss_pred CceEEEEE---------------cChhhHHHHHHHHHHc
Q 036525 133 QTRVFIVH---------------KLPSLGSRIFEKANEI 156 (783)
Q Consensus 133 ~~dvii~~---------------~~~~~~~~~~~~a~~~ 156 (783)
++|++--. ....+...+++.|++.
T Consensus 252 G~dvynHNLETv~rLyp~VRt~~atYe~sLe~Lr~AKe~ 290 (398)
T PTZ00413 252 PLSVYAHNIECVERITPYVRDRRASYRQSLKVLEHVKEF 290 (398)
T ss_pred CCCEEecccccCHhHHHHHccCcCCHHHHHHHHHHHHHH
Confidence 99876322 2455677788888876
No 482
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=28.20 E-value=1.4e+02 Score=19.41 Aligned_cols=24 Identities=8% Similarity=-0.088 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 036525 652 LIAGIAAILALIIFLAVFVHQHRN 675 (783)
Q Consensus 652 ~il~~g~~ls~~vfl~E~~~~~~~ 675 (783)
+.+.+|.++++.+-++--+|..++
T Consensus 4 faWilG~~lA~~~~v~~a~w~E~~ 27 (30)
T TIGR02106 4 FAWILGTLLACAFGVLNAMWLELR 27 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456667777777777776666543
No 483
>PRK09492 treR trehalose repressor; Provisional
Probab=28.12 E-value=3.3e+02 Score=28.41 Aligned_cols=63 Identities=10% Similarity=0.007 Sum_probs=44.2
Q ss_pred eEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 77 REAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 77 ~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
+.|+++.. ++.|...+.+.+.+++++.|..+..... +.+.......+..+.+.+.|.+|+...
T Consensus 63 ~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~ 127 (315)
T PRK09492 63 KVVGIIVSRLDSLSENQAVRTMLPAFYEQGYDPIIMES---QFSPEKVNEHLGVLKRRNVDGVILFGF 127 (315)
T ss_pred CeEEEEecCCcCcccHHHHHHHHHHHHHcCCeEEEEec---CCChHHHHHHHHHHHhcCCCEEEEeCC
Confidence 46888886 3567778899999999999988754321 122223345667778888998888653
No 484
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=28.09 E-value=1.3e+02 Score=28.73 Aligned_cols=85 Identities=13% Similarity=0.146 Sum_probs=50.1
Q ss_pred cCCeEEEEccCCch---hHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCC------
Q 036525 6 NAQVRVMLGPEDSM---PTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGW------ 76 (783)
Q Consensus 6 ~~~V~aiIGp~~S~---~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw------ 76 (783)
-++...++|..... ....+..++++.++|+++...+...+..++ ..+. ....-.+..++..-+|
T Consensus 34 AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kg------v~~~-~~~lg~lg~~~~~p~~e~~~g~ 106 (171)
T PRK00945 34 AKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKG------VDAK-YINLHELTNYLKDPNWKGLDGN 106 (171)
T ss_pred CCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCC------ccCC-cccHHHHHhhccCchhhhhcCC
Confidence 35788899987644 677899999999999998776555555421 1111 2223445555543333
Q ss_pred ---eEEEEEEEeCCcCCcchHHHH
Q 036525 77 ---REAVPIYVDNQYGEAMIPSLT 97 (783)
Q Consensus 77 ---~~vaii~~d~~~G~~~~~~~~ 97 (783)
.-|.++..+..|....+..++
T Consensus 107 ~~~DlvlfvG~~~~~~~~~l~~lk 130 (171)
T PRK00945 107 GNYDLVIFIGVTYYYASQGLSALK 130 (171)
T ss_pred CCcCEEEEecCCchhHHHHHHHHh
Confidence 344455556655444444433
No 485
>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=27.95 E-value=28 Score=31.68 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=27.0
Q ss_pred eEEEEccCCchhHHHHHcccCCCCccEEeec
Q 036525 9 VRVMLGPEDSMPTNFIIQPGNKSQVPILSFS 39 (783)
Q Consensus 9 V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~ 39 (783)
|+.++||.+|+=+..+..++...+.++|+.-
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~D 31 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQD 31 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeHH
Confidence 5789999999999999999988888888754
No 486
>PRK14749 hypothetical protein; Provisional
Probab=27.89 E-value=1.4e+02 Score=19.24 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 036525 651 FLIAGIAAILALIIFLAVFVHQHR 674 (783)
Q Consensus 651 F~il~~g~~ls~~vfl~E~~~~~~ 674 (783)
++.+.+|+.+++.+-++-.+|...
T Consensus 3 YfaWiLG~~lAc~f~ilna~w~E~ 26 (30)
T PRK14749 3 YLLWFVGILLMCSLSTLVLVWLDP 26 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777887777777777653
No 487
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=27.86 E-value=2.6e+02 Score=29.41 Aligned_cols=64 Identities=6% Similarity=0.086 Sum_probs=45.3
Q ss_pred CeEEEEEEE--eCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 76 WREAVPIYV--DNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 76 w~~vaii~~--d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
-+.|+++.. ++.|...+.+.+.+++++.|..+..... ..+.......+..+.+.++|.||+...
T Consensus 56 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdGiI~~~~ 121 (327)
T PRK10423 56 TRTIGMLITASTNPFYSELVRGVERSCFERGYSLVLCNT---EGDEQRMNRNLETLMQKRVDGLLLLCT 121 (327)
T ss_pred CCeEEEEeCCCCCCcHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 357888885 3567788899999999999988754321 122233446677778889998888653
No 488
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=27.71 E-value=4.5e+02 Score=29.90 Aligned_cols=89 Identities=19% Similarity=0.116 Sum_probs=67.7
Q ss_pred cCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHHH
Q 036525 74 FGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEKA 153 (783)
Q Consensus 74 ~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~a 153 (783)
..-++|.|+...|.=|......+.+.|+..|..+.+. +|..-. ..+- .+.+++..+.+.||.+-.+......+..+
T Consensus 34 ~~~~~I~I~~d~DaDGitS~ail~~~L~~~g~~~~~~--ip~~~~-~~~g-~~~~~~~~~~~liItvD~G~~~~~~i~~~ 109 (491)
T COG0608 34 EKGEKILIYGDYDADGITSAAILAKALRRLGADVDYY--IPNRFE-EGYG-AIRKLKEEGADLIITVDNGSGSLEEIARA 109 (491)
T ss_pred HcCCEEEEEEecCcccHHHHHHHHHHHHHcCCceEEE--eCCCcc-ccch-HHHHHHhcCCCEEEEECCCcccHHHHHHH
Confidence 3557888888889999999999999999999776443 332222 2333 45678889999999998888888888888
Q ss_pred HHcCccccceEEEEeCCc
Q 036525 154 NEIGLMNKGCVWIMTDGM 171 (783)
Q Consensus 154 ~~~g~~~~~~~~i~~~~~ 171 (783)
++.|. . .|++|.-
T Consensus 110 ~~~g~--~---vIVtDHH 122 (491)
T COG0608 110 KELGI--D---VIVTDHH 122 (491)
T ss_pred HhCCC--c---EEEECCC
Confidence 88875 3 6777743
No 489
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=27.48 E-value=2.8e+02 Score=28.90 Aligned_cols=74 Identities=9% Similarity=0.022 Sum_probs=46.4
Q ss_pred eEEEEEEEeCCcC----CcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHH
Q 036525 77 REAVPIYVDNQYG----EAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEK 152 (783)
Q Consensus 77 ~~vaii~~d~~~G----~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~ 152 (783)
+++.+|+ |..-| ....+.+.+.+++.|.++....... .+ +....+.+..+.++|+|++.+.-.....++..
T Consensus 2 ~~~~ii~-Np~sg~~~~~~~~~~i~~~l~~~~~~~~~~~t~~--~~--~~~~~~~~~~~~~~d~ivv~GGDGTl~~v~~~ 76 (293)
T TIGR00147 2 AEAPAIL-NPTAGKSNDNKPLREVIMLLREEGMEIHVRVTWE--KG--DAARYVEEARKFGVDTVIAGGGDGTINEVVNA 76 (293)
T ss_pred ceEEEEE-CCCccchhhHHHHHHHHHHHHHCCCEEEEEEecC--cc--cHHHHHHHHHhcCCCEEEEECCCChHHHHHHH
Confidence 5777776 33323 2445667888888998875544322 22 33334445555678988888877777777777
Q ss_pred HHH
Q 036525 153 ANE 155 (783)
Q Consensus 153 a~~ 155 (783)
+.+
T Consensus 77 l~~ 79 (293)
T TIGR00147 77 LIQ 79 (293)
T ss_pred Hhc
Confidence 654
No 490
>PF13362 Toprim_3: Toprim domain
Probab=27.28 E-value=1.4e+02 Score=25.11 Aligned_cols=52 Identities=12% Similarity=0.029 Sum_probs=38.4
Q ss_pred cCCeEEEEEEEeCCc--CCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHH
Q 036525 74 FGWREAVPIYVDNQY--GEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYK 128 (783)
Q Consensus 74 ~gw~~vaii~~d~~~--G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~ 128 (783)
.+.++|.|..++|.- |+..+..+.+.+++.|..+.... + .....|+...+.+
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~--p-~~~g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVE--P-GPEGKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEEC--C-CCCCchHHHHHHh
Confidence 367899888888888 89999999999999998875443 2 2233488776654
No 491
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=27.09 E-value=1.8e+02 Score=29.76 Aligned_cols=121 Identities=8% Similarity=0.029 Sum_probs=60.6
Q ss_pred cCCeEEEEccCCchhHHHHHcccCCCCccEEeec-cCCCCC-CCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEE
Q 036525 6 NAQVRVMLGPEDSMPTNFIIQPGNKSQVPILSFS-ATSPSL-TSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIY 83 (783)
Q Consensus 6 ~~~V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~-a~s~~l-s~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~ 83 (783)
+.++.+|+=|-.+..+.+.-.+-++.++|+|+.. .+...+ .....+-+--.+...+......-+.++.++.+-+ +.
T Consensus 59 ~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~~~~--v~ 136 (251)
T TIGR00067 59 RHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIANDLL--VE 136 (251)
T ss_pred hCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCCCCE--EE
Confidence 5678888767677666777777788899999843 111111 1111122323333444555555566666665421 22
Q ss_pred EeCCcCCcchHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcC
Q 036525 84 VDNQYGEAMIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 84 ~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~ 142 (783)
+. . ...+.... +.|.. ........+...+..+++.++|.+|+.|.
T Consensus 137 ~~-----~-~~~lv~~I-e~g~~-------~~~~~~~~l~~~l~~l~~~~~d~lILGCT 181 (251)
T TIGR00067 137 ML-----A-CPELVPLA-EAGLL-------GEDYALECLKRYLRPLLDTLPDTVVLGCT 181 (251)
T ss_pred ec-----C-CHHHHHHH-HcCCc-------CCHHHHHHHHHHHHHHhcCCCCEEEECcC
Confidence 10 1 11122222 22310 00011234667777777778888887554
No 492
>PRK14974 cell division protein FtsY; Provisional
Probab=27.02 E-value=5.9e+02 Score=27.35 Aligned_cols=19 Identities=26% Similarity=0.251 Sum_probs=9.5
Q ss_pred eEEEEccCCchhHHHHHcc
Q 036525 9 VRVMLGPEDSMPTNFIIQP 27 (783)
Q Consensus 9 V~aiIGp~~S~~~~av~~~ 27 (783)
+.+++|+.+++=+..++.+
T Consensus 142 vi~~~G~~GvGKTTtiakL 160 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKL 160 (336)
T ss_pred EEEEEcCCCCCHHHHHHHH
Confidence 4555555555544444433
No 493
>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=26.94 E-value=45 Score=32.00 Aligned_cols=31 Identities=19% Similarity=0.008 Sum_probs=27.8
Q ss_pred eEEEEccCCchhHHHHHcccCCCCccEEeec
Q 036525 9 VRVMLGPEDSMPTNFIIQPGNKSQVPILSFS 39 (783)
Q Consensus 9 V~aiIGp~~S~~~~av~~~~~~~~vP~Is~~ 39 (783)
|..|+||.+|+-+.....+++++++++|+.+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 5789999999999999999999999999853
No 494
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=26.91 E-value=5e+02 Score=26.71 Aligned_cols=78 Identities=18% Similarity=0.098 Sum_probs=48.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEe-------CCcCCcchHHHHHHHhhCCceEeEEEe-----cCCCCChh--------HHHH
Q 036525 65 GAITAIIKAFGWREAVPIYVD-------NQYGEAMIPSLTDALHAIDTRVPYRSV-----ISPLATDD--------QIEK 124 (783)
Q Consensus 65 ~ai~~~l~~~gw~~vaii~~d-------~~~G~~~~~~~~~~l~~~g~~v~~~~~-----i~~~~~~~--------d~~~ 124 (783)
....+.++..|++.|-+-..+ ..+.....+.+++.+++.|++|..... +++...+. .+..
T Consensus 24 ~e~~~~~~~~G~~~iEl~~~~~~~~~~~~~~~~~~~~~l~~~l~~~gl~i~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~ 103 (283)
T PRK13209 24 LEKLAIAKTAGFDFVEMSVDESDERLARLDWSREQRLALVNALVETGFRVNSMCLSAHRRFPLGSEDDAVRAQALEIMRK 103 (283)
T ss_pred HHHHHHHHHcCCCeEEEecCccccchhccCCCHHHHHHHHHHHHHcCCceeEEecccccccCCCCCCHHHHHHHHHHHHH
Confidence 445666788999988875432 123455688899999999999865331 12222111 2344
Q ss_pred HHHHHhccCceEEEEEcC
Q 036525 125 ELYKLFTMQTRVFIVHKL 142 (783)
Q Consensus 125 ~l~~l~~~~~dvii~~~~ 142 (783)
.+...+..++..|.+.+.
T Consensus 104 ~i~~a~~lG~~~i~~~~~ 121 (283)
T PRK13209 104 AIQLAQDLGIRVIQLAGY 121 (283)
T ss_pred HHHHHHHcCCCEEEECCc
Confidence 555556778887776543
No 495
>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain. 4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate
Probab=26.80 E-value=5.6e+02 Score=26.28 Aligned_cols=132 Identities=11% Similarity=0.001 Sum_probs=70.0
Q ss_pred CCchhHHHHHcccCCCCccEEeeccCCCCCCCCCCCeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHH
Q 036525 16 EDSMPTNFIIQPGNKSQVPILSFSATSPSLTSIRSPYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPS 95 (783)
Q Consensus 16 ~~S~~~~av~~~~~~~~vP~Is~~a~s~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~ 95 (783)
.+......+++...+.+|..|..+-.+. +....+ +..+......+.+..+.+..+-.+++++. + .+....+.
T Consensus 19 ~~~~~k~~i~~~L~~~Gv~~iEvg~~~~-~~~~~~----~~~~~~~~~~e~i~~~~~~~~~~~~~~~~-~--~~~~~~~~ 90 (263)
T cd07943 19 FTLEQVRAIARALDAAGVPLIEVGHGDG-LGGSSL----NYGFAAHTDEEYLEAAAEALKQAKLGVLL-L--PGIGTVDD 90 (263)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEeecCCC-CCCccc----ccCCCCCChHHHHHHHHHhccCCEEEEEe-c--CCccCHHH
Confidence 4566778888888999999998763221 111111 11121111223343443444445655554 2 23333455
Q ss_pred HHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEE-----cChhhHHHHHHHHHHcCc
Q 036525 96 LTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVH-----KLPSLGSRIFEKANEIGL 158 (783)
Q Consensus 96 ~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~-----~~~~~~~~~~~~a~~~g~ 158 (783)
+..+ .+.|+.+... .++.+ ....+...+..+++.+-.+.+.. ...+....+++++.+.|.
T Consensus 91 i~~a-~~~g~~~iri-~~~~s-~~~~~~~~i~~ak~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~ 155 (263)
T cd07943 91 LKMA-ADLGVDVVRV-ATHCT-EADVSEQHIGAARKLGMDVVGFLMMSHMASPEELAEQAKLMESYGA 155 (263)
T ss_pred HHHH-HHcCCCEEEE-Eechh-hHHHHHHHHHHHHHCCCeEEEEEEeccCCCHHHHHHHHHHHHHcCC
Confidence 5444 4457665432 22211 22356667777777776655543 234567778888888873
No 496
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=26.75 E-value=4.6e+02 Score=23.32 Aligned_cols=26 Identities=19% Similarity=0.055 Sum_probs=16.7
Q ss_pred chhhHHHHHHHHHHcCCeEEEEEEEeC
Q 036525 60 DSSQVGAITAIIKAFGWREAVPIYVDN 86 (783)
Q Consensus 60 ~~~~~~ai~~~l~~~gw~~vaii~~d~ 86 (783)
-..|-+.+-+++...||.-+. ++.|.
T Consensus 16 ~~~Q~~~~~~~a~~~g~~i~~-~~~d~ 41 (137)
T cd00338 16 LERQREALREYAARNGLEVVG-EYEDA 41 (137)
T ss_pred HHHHHHHHHHHHHHCCCEEEE-EEEeC
Confidence 346777777788777886544 44443
No 497
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=26.67 E-value=4.5e+02 Score=24.86 Aligned_cols=82 Identities=11% Similarity=0.184 Sum_probs=41.5
Q ss_pred CeEEEeecCchhhHHHHHHHHHHcCCeEEEEEEEeCCcCCcchHHHHHHHhhCCceEeEEEecCCC-----CChhHHHHH
Q 036525 51 PYFFRGALNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEAMIPSLTDALHAIDTRVPYRSVISPL-----ATDDQIEKE 125 (783)
Q Consensus 51 ~~~fr~~p~~~~~~~ai~~~l~~~gw~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~~~~~i~~~-----~~~~d~~~~ 125 (783)
+.+||-+..+. .-..+|+.+|.|.|.-+..++. .+...+.+++.|+++.....-... .+.+.+...
T Consensus 12 ~~vYRS~~P~~----~n~~fL~~L~LKTII~L~~e~~-----~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~a 82 (164)
T PF03162_consen 12 PGVYRSAQPTP----ANFPFLERLGLKTIINLRPEPP-----SQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEA 82 (164)
T ss_dssp TTEEEESS--H----HHHHHHHHHT-SEEEE--SS--------HHHHHHHHHTT-EEEE-------GGG----HHHHHHH
T ss_pred CCccCCCCCCh----hhHHHHHHCCCceEEEecCCCC-----CHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHH
Confidence 46888877653 2345788899999988884332 244555778899988654332211 134456666
Q ss_pred HHHHhccCceEEEEEc
Q 036525 126 LYKLFTMQTRVFIVHK 141 (783)
Q Consensus 126 l~~l~~~~~dvii~~~ 141 (783)
|.-|.+...--|+++|
T Consensus 83 L~~ild~~n~PvLiHC 98 (164)
T PF03162_consen 83 LEIILDPRNYPVLIHC 98 (164)
T ss_dssp HHHHH-GGG-SEEEE-
T ss_pred HHHHhCCCCCCEEEEe
Confidence 6666655555566666
No 498
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=26.62 E-value=3.8e+02 Score=26.35 Aligned_cols=69 Identities=9% Similarity=-0.009 Sum_probs=41.1
Q ss_pred cchHHHHHHHhhCCc--eEeEEEecCCCCChhHHHHHHHHHhccCceEEEEE----cChhhHHHHHHHHHHcCccccceE
Q 036525 91 AMIPSLTDALHAIDT--RVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVH----KLPSLGSRIFEKANEIGLMNKGCV 164 (783)
Q Consensus 91 ~~~~~~~~~l~~~g~--~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~----~~~~~~~~~~~~a~~~g~~~~~~~ 164 (783)
-..+.++..++..+. +++... . +....+..+.+..||++++. ....+...++++.++.. +.-.+
T Consensus 11 ~~~~gl~~~L~~~~~~~~vv~~~-----~---~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~~~i~~i~~~~--p~~~i 80 (207)
T PRK15411 11 YTRLGLTGYLLSRGVKKREINDI-----E---TVDDLAIACDSLRPSVVFINEDCFIHDASNSQRIKQIINQH--PNTLF 80 (207)
T ss_pred HHHHHHHHHHHhCCCcceEEEec-----C---CHHHHHHHHhccCCCEEEEeCcccCCCCChHHHHHHHHHHC--CCCeE
Confidence 356677777766543 343221 1 33334455667789999999 55556677888887755 23344
Q ss_pred EEEeC
Q 036525 165 WIMTD 169 (783)
Q Consensus 165 ~i~~~ 169 (783)
.+.+.
T Consensus 81 ivlt~ 85 (207)
T PRK15411 81 IVFMA 85 (207)
T ss_pred EEEEC
Confidence 55554
No 499
>PRK13337 putative lipid kinase; Reviewed
Probab=26.47 E-value=3.6e+02 Score=28.33 Aligned_cols=75 Identities=11% Similarity=0.074 Sum_probs=48.0
Q ss_pred eEEEEEEEeCCcCCc----chHHHHHHHhhCCceEeEEEecCCCCChhHHHHHHHHHhccCceEEEEEcChhhHHHHHHH
Q 036525 77 REAVPIYVDNQYGEA----MIPSLTDALHAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIVHKLPSLGSRIFEK 152 (783)
Q Consensus 77 ~~vaii~~d~~~G~~----~~~~~~~~l~~~g~~v~~~~~i~~~~~~~d~~~~l~~l~~~~~dvii~~~~~~~~~~~~~~ 152 (783)
+++.+|+ |-.-|.. ....+.+.+++.|+++....+- ..+ +......++.+.+.|+|++.+.......++..
T Consensus 2 ~r~~~I~-Np~aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~--~~~--~a~~~a~~~~~~~~d~vvv~GGDGTl~~vv~g 76 (304)
T PRK13337 2 KRARIIY-NPTSGRELFKKNLPDVLQKLEQAGYETSAHATT--GPG--DATLAAERAVERKFDLVIAAGGDGTLNEVVNG 76 (304)
T ss_pred ceEEEEE-CCcccchhHHHHHHHHHHHHHHcCCEEEEEEec--CCC--CHHHHHHHHHhcCCCEEEEEcCCCHHHHHHHH
Confidence 4667777 4444543 3445677888999876544332 122 55555666666778988888877777777776
Q ss_pred HHHc
Q 036525 153 ANEI 156 (783)
Q Consensus 153 a~~~ 156 (783)
....
T Consensus 77 l~~~ 80 (304)
T PRK13337 77 IAEK 80 (304)
T ss_pred HhhC
Confidence 6544
No 500
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=26.34 E-value=1.1e+02 Score=24.76 Aligned_cols=33 Identities=18% Similarity=0.345 Sum_probs=24.0
Q ss_pred CeEEEEEEEeCCcCCcchHHHHHHHhhCCceEe
Q 036525 76 WREAVPIYVDNQYGEAMIPSLTDALHAIDTRVP 108 (783)
Q Consensus 76 w~~vaii~~d~~~G~~~~~~~~~~l~~~g~~v~ 108 (783)
.++|.+.+++|.-|+..+..+.+.+...|++|.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 589999999999999999999999998887763
Done!