Query 004136
Match_columns 771
No_of_seqs 341 out of 3143
Neff 9.9
Searched_HMMs 46136
Date Thu Mar 28 18:11:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004136.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004136hhsearch_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 6.4E-81 1.4E-85 630.1 44.2 679 32-769 24-764 (897)
2 KOG4440 NMDA selective glutama 100.0 1.4E-76 3.1E-81 601.3 43.4 657 32-770 33-779 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 3.7E-72 8.1E-77 589.9 53.2 622 73-770 77-780 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 4.1E-51 8.8E-56 470.8 45.8 502 224-770 6-546 (656)
5 cd06361 PBP1_GPC6A_like Ligand 100.0 5.8E-43 1.3E-47 377.4 38.7 330 47-405 33-395 (403)
6 cd06366 PBP1_GABAb_receptor Li 100.0 3.6E-42 7.8E-47 368.8 37.9 338 36-408 1-347 (350)
7 cd06362 PBP1_mGluR Ligand bind 100.0 4E-42 8.6E-47 380.7 38.3 361 33-407 1-450 (452)
8 cd06364 PBP1_CaSR Ligand-bindi 100.0 8.2E-42 1.8E-46 378.6 39.6 360 31-404 9-494 (510)
9 cd06374 PBP1_mGluR_groupI Liga 100.0 5.4E-42 1.2E-46 379.8 38.0 358 32-403 7-464 (472)
10 cd06365 PBP1_Pheromone_recepto 100.0 4.1E-42 8.9E-47 378.8 36.3 358 34-404 2-453 (469)
11 cd06386 PBP1_NPR_C_like Ligand 100.0 1.2E-41 2.7E-46 367.3 38.4 348 37-404 2-379 (387)
12 cd06393 PBP1_iGluR_Kainate_Glu 100.0 2.3E-41 5E-46 365.4 38.1 356 34-408 2-382 (384)
13 cd06376 PBP1_mGluR_groupIII Li 100.0 2.3E-41 5E-46 374.2 38.9 358 33-403 1-452 (463)
14 cd06375 PBP1_mGluR_groupII Lig 100.0 3.8E-41 8.3E-46 369.6 38.9 355 33-403 1-454 (458)
15 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 9.1E-41 2E-45 360.7 37.4 317 33-404 18-364 (377)
16 cd06373 PBP1_NPR_like Ligand b 100.0 5.1E-41 1.1E-45 365.4 35.7 358 36-405 1-390 (396)
17 cd06367 PBP1_iGluR_NMDA N-term 100.0 4.7E-41 1E-45 361.3 34.6 321 34-403 2-351 (362)
18 cd06372 PBP1_GC_G_like Ligand- 100.0 1.5E-40 3.3E-45 361.1 38.7 358 36-405 1-387 (391)
19 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.3E-40 2.7E-45 360.8 37.9 350 36-407 1-381 (382)
20 cd06363 PBP1_Taste_receptor Li 100.0 1.3E-40 2.7E-45 363.0 37.6 340 32-404 4-396 (410)
21 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.6E-40 3.5E-45 362.4 38.1 355 36-405 1-392 (405)
22 cd06370 PBP1_Speract_GC_like L 100.0 1.2E-40 2.6E-45 362.5 36.7 350 35-397 1-388 (404)
23 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 2.2E-40 4.7E-45 351.1 36.6 342 36-407 1-363 (364)
24 cd06352 PBP1_NPR_GC_like Ligan 100.0 4.9E-40 1.1E-44 357.6 37.9 358 36-406 1-384 (389)
25 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 1.4E-39 3E-44 347.8 37.5 348 36-408 1-369 (370)
26 cd06384 PBP1_NPR_B Ligand-bind 100.0 5.6E-39 1.2E-43 349.0 38.0 355 36-405 1-393 (399)
27 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 9.5E-39 2.1E-43 340.3 38.2 345 36-408 1-370 (371)
28 cd06371 PBP1_sensory_GC_DEF_li 100.0 5.1E-39 1.1E-43 346.0 35.2 343 36-401 1-369 (382)
29 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.5E-38 3.1E-43 336.6 37.8 355 36-408 1-399 (400)
30 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 3.4E-38 7.4E-43 333.1 38.4 345 37-407 2-371 (372)
31 cd06382 PBP1_iGluR_Kainate N-t 100.0 9.4E-39 2E-43 338.8 31.5 319 36-407 1-326 (327)
32 cd06391 PBP1_iGluR_delta_2 N-t 100.0 9E-38 2E-42 334.6 38.1 353 36-408 1-399 (400)
33 PRK15404 leucine ABC transport 100.0 1.6E-37 3.6E-42 332.7 36.9 334 32-393 23-362 (369)
34 cd06394 PBP1_iGluR_Kainate_KA1 100.0 5E-38 1.1E-42 326.7 29.0 325 36-408 1-332 (333)
35 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.5E-36 3.2E-41 323.7 34.5 327 36-390 1-334 (334)
36 KOG1056 Glutamate-gated metabo 100.0 3.8E-36 8.3E-41 330.3 36.3 382 31-447 28-494 (878)
37 cd06338 PBP1_ABC_ligand_bindin 100.0 4.2E-36 9.1E-41 321.4 32.8 327 36-389 1-344 (345)
38 cd06345 PBP1_ABC_ligand_bindin 100.0 7.4E-36 1.6E-40 319.0 33.6 320 36-381 1-337 (344)
39 cd06346 PBP1_ABC_ligand_bindin 100.0 4.3E-36 9.4E-41 315.8 29.9 303 36-387 1-310 (312)
40 PF01094 ANF_receptor: Recepto 100.0 5.4E-36 1.2E-40 321.5 30.1 330 50-391 1-348 (348)
41 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.6E-35 3.5E-40 313.9 33.1 319 36-407 1-323 (324)
42 cd06355 PBP1_FmdD_like Peripla 100.0 1.1E-34 2.4E-39 309.5 34.7 337 36-398 1-345 (348)
43 cd06348 PBP1_ABC_ligand_bindin 100.0 1.7E-34 3.6E-39 308.7 34.6 325 36-386 1-342 (344)
44 cd06340 PBP1_ABC_ligand_bindin 100.0 7.1E-35 1.5E-39 311.2 30.5 323 36-383 1-342 (347)
45 cd06381 PBP1_iGluR_delta_like 100.0 6.1E-34 1.3E-38 301.8 37.1 337 36-407 1-362 (363)
46 COG0683 LivK ABC-type branched 100.0 2.1E-34 4.5E-39 308.1 33.5 336 33-392 9-354 (366)
47 cd06343 PBP1_ABC_ligand_bindin 100.0 3.9E-34 8.5E-39 308.1 35.1 343 31-395 3-362 (362)
48 TIGR03669 urea_ABC_arch urea A 100.0 4.7E-34 1E-38 305.0 34.7 341 35-402 1-349 (374)
49 cd06350 PBP1_GPCR_family_C_lik 100.0 4.6E-34 1E-38 306.2 30.6 306 36-404 1-340 (348)
50 TIGR03407 urea_ABC_UrtA urea A 100.0 2.9E-33 6.2E-38 299.7 34.8 337 35-397 1-345 (359)
51 cd06344 PBP1_ABC_ligand_bindin 100.0 1E-33 2.2E-38 300.7 31.0 318 36-382 1-326 (332)
52 cd06349 PBP1_ABC_ligand_bindin 100.0 4.9E-33 1.1E-37 296.8 34.5 331 36-395 1-340 (340)
53 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.7E-33 3.7E-38 299.4 29.8 319 36-381 1-328 (334)
54 PF13458 Peripla_BP_6: Peripla 100.0 2E-33 4.2E-38 300.9 30.3 334 34-393 1-342 (343)
55 cd06331 PBP1_AmiC_like Type I 100.0 4E-33 8.7E-38 296.5 32.1 320 36-381 1-326 (333)
56 cd06347 PBP1_ABC_ligand_bindin 100.0 8.9E-33 1.9E-37 294.6 34.8 319 36-382 1-328 (334)
57 cd06329 PBP1_SBP_like_3 Peripl 100.0 6.6E-33 1.4E-37 295.6 31.8 314 36-377 1-331 (342)
58 cd06359 PBP1_Nba_like Type I p 100.0 1.5E-32 3.2E-37 292.0 33.2 327 36-389 1-332 (333)
59 cd06357 PBP1_AmiC Periplasmic 100.0 4.4E-32 9.5E-37 290.7 35.8 342 36-401 1-349 (360)
60 cd06336 PBP1_ABC_ligand_bindin 100.0 1.1E-32 2.5E-37 294.2 29.9 321 36-383 1-342 (347)
61 cd06360 PBP1_alkylbenzenes_lik 100.0 5.3E-32 1.1E-36 288.8 33.6 325 36-383 1-330 (336)
62 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 2.9E-32 6.2E-37 288.5 30.7 324 34-404 2-351 (362)
63 cd06328 PBP1_SBP_like_2 Peripl 100.0 5.6E-32 1.2E-36 287.0 32.7 314 36-377 1-322 (333)
64 cd06330 PBP1_Arsenic_SBP_like 100.0 2.7E-32 5.8E-37 292.0 30.3 322 36-380 1-336 (346)
65 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1.5E-31 3.3E-36 283.8 32.3 316 36-380 1-326 (334)
66 cd06358 PBP1_NHase Type I peri 100.0 1.9E-31 4.1E-36 283.5 32.8 316 36-379 1-324 (333)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 4.1E-31 8.9E-36 282.2 31.9 323 36-379 1-337 (347)
68 cd06334 PBP1_ABC_ligand_bindin 100.0 1.5E-31 3.3E-36 284.5 27.4 325 36-380 1-348 (351)
69 cd06332 PBP1_aromatic_compound 100.0 1.8E-30 4E-35 276.7 33.4 325 36-387 1-330 (333)
70 cd06383 PBP1_iGluR_AMPA_Like N 100.0 6E-31 1.3E-35 279.5 26.5 317 45-387 8-357 (368)
71 cd06337 PBP1_ABC_ligand_bindin 100.0 1.9E-30 4.1E-35 277.9 29.0 329 36-395 1-357 (357)
72 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 8.1E-30 1.7E-34 271.2 33.2 315 36-403 1-322 (328)
73 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 3.2E-29 6.9E-34 260.2 35.9 321 32-405 16-372 (382)
74 KOG1055 GABA-B ion channel rec 100.0 2.3E-30 5.1E-35 274.7 19.5 376 30-447 37-452 (865)
75 PF13433 Peripla_BP_5: Peripla 100.0 5.3E-29 1.2E-33 252.1 28.4 337 35-398 1-346 (363)
76 cd06326 PBP1_STKc_like Type I 100.0 1.6E-28 3.6E-33 261.9 31.7 320 35-379 1-329 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 1.1E-28 2.4E-33 261.6 23.9 303 36-381 1-330 (336)
78 cd06341 PBP1_ABC_ligand_bindin 100.0 5.9E-27 1.3E-31 250.2 29.8 328 36-389 1-340 (341)
79 TIGR03863 PQQ_ABC_bind ABC tra 100.0 2.5E-27 5.4E-32 249.4 25.5 300 47-390 9-315 (347)
80 cd06269 PBP1_glutamate_recepto 100.0 3.8E-26 8.3E-31 239.2 28.3 279 36-403 1-291 (298)
81 cd04509 PBP1_ABC_transporter_G 99.9 1.5E-25 3.2E-30 234.8 26.5 280 36-338 1-290 (299)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 5.1E-25 1.1E-29 232.1 29.5 278 36-340 1-293 (312)
83 cd06369 PBP1_GC_C_enterotoxin_ 99.9 5.3E-24 1.2E-28 214.7 28.0 324 46-406 15-367 (380)
84 cd06268 PBP1_ABC_transporter_L 99.9 2.9E-23 6.2E-28 217.3 28.2 279 36-340 1-287 (298)
85 PRK10797 glutamate and asparta 99.8 8.3E-19 1.8E-23 181.8 17.1 199 449-770 36-244 (302)
86 PRK11917 bifunctional adhesin/ 99.8 1.7E-18 3.7E-23 175.9 17.0 200 446-771 31-235 (259)
87 PRK11260 cystine transporter s 99.8 2.6E-18 5.7E-23 176.1 17.5 202 445-771 33-235 (266)
88 PRK09495 glnH glutamine ABC tr 99.8 4.8E-18 1E-22 172.2 18.1 191 451-768 23-215 (247)
89 PRK15010 ABC transporter lysin 99.8 2.5E-17 5.4E-22 168.2 17.7 197 451-771 24-228 (260)
90 PF00497 SBP_bac_3: Bacterial 99.8 1.7E-17 3.6E-22 165.9 16.0 194 455-770 1-197 (225)
91 PRK15007 putative ABC transpor 99.7 3.4E-17 7.3E-22 165.8 17.1 191 451-770 19-215 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.7 4.4E-17 9.6E-22 165.8 17.0 204 442-771 14-225 (250)
93 PRK15437 histidine ABC transpo 99.7 1.3E-16 2.7E-21 162.9 17.1 196 451-770 24-227 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.7 1.1E-16 2.5E-21 164.6 16.9 201 447-770 27-234 (275)
95 PRK10859 membrane-bound lytic 99.7 3.2E-16 6.9E-21 173.2 17.0 201 444-770 34-239 (482)
96 TIGR03870 ABC_MoxJ methanol ox 99.6 3.8E-15 8.2E-20 150.4 16.7 188 454-771 1-219 (246)
97 cd01391 Periplasmic_Binding_Pr 99.6 5.2E-14 1.1E-18 144.3 23.6 217 36-272 1-221 (269)
98 PF00060 Lig_chan: Ligand-gate 99.6 3.4E-16 7.3E-21 145.0 3.0 107 577-683 1-115 (148)
99 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 3.8E-14 8.3E-19 142.3 17.7 187 455-770 2-204 (232)
100 PRK09959 hybrid sensory histid 99.6 3E-14 6.5E-19 177.5 17.1 193 451-771 300-495 (1197)
101 PRK09959 hybrid sensory histid 99.5 3.6E-14 7.8E-19 176.7 15.7 198 448-771 51-252 (1197)
102 COG0834 HisJ ABC-type amino ac 99.5 2E-13 4.3E-18 141.1 17.2 196 451-767 32-233 (275)
103 TIGR02285 conserved hypothetic 99.5 5.3E-13 1.1E-17 136.9 16.2 199 452-768 17-230 (268)
104 smart00062 PBPb Bacterial peri 99.5 2E-12 4.3E-17 127.8 17.5 188 454-769 1-192 (219)
105 cd00134 PBPb Bacterial peripla 99.4 3.2E-12 6.9E-17 126.4 17.9 187 455-769 1-191 (218)
106 PF04348 LppC: LppC putative l 99.4 8.6E-12 1.9E-16 137.9 20.3 311 33-392 218-535 (536)
107 COG4623 Predicted soluble lyti 99.2 3E-10 6.4E-15 112.6 12.4 198 446-768 16-217 (473)
108 PF10613 Lig_chan-Glu_bd: Liga 99.1 2.7E-11 5.9E-16 90.7 3.1 57 467-526 1-65 (65)
109 TIGR01098 3A0109s03R phosphate 98.9 2.2E-08 4.8E-13 101.9 14.0 170 486-767 46-238 (254)
110 cd01537 PBP1_Repressors_Sugar_ 98.9 1.2E-07 2.7E-12 96.8 19.3 198 36-258 1-203 (264)
111 cd01536 PBP1_ABC_sugar_binding 98.8 4.2E-07 9E-12 93.2 21.6 207 36-269 1-216 (267)
112 smart00079 PBPe Eukaryotic hom 98.8 1.8E-08 3.8E-13 91.4 9.0 95 672-769 1-106 (134)
113 COG3107 LppC Putative lipoprot 98.7 7.9E-07 1.7E-11 92.8 18.4 313 33-398 256-603 (604)
114 cd06267 PBP1_LacI_sugar_bindin 98.7 1E-06 2.2E-11 90.0 18.7 198 36-259 1-203 (264)
115 cd06300 PBP1_ABC_sugar_binding 98.7 3.6E-06 7.8E-11 86.6 22.2 203 36-260 1-211 (272)
116 cd06320 PBP1_allose_binding Pe 98.7 4.4E-06 9.4E-11 86.2 22.7 212 36-269 1-217 (275)
117 cd06325 PBP1_ABC_uncharacteriz 98.6 4E-06 8.6E-11 86.7 19.9 201 36-257 1-208 (281)
118 COG2984 ABC-type uncharacteriz 98.6 2.4E-05 5.3E-10 77.9 23.6 202 32-257 28-240 (322)
119 cd06282 PBP1_GntR_like_2 Ligan 98.5 1.3E-05 2.9E-10 82.0 19.7 204 36-267 1-211 (266)
120 PRK10653 D-ribose transporter 98.4 6.8E-05 1.5E-09 78.1 24.6 210 34-269 26-241 (295)
121 cd06323 PBP1_ribose_binding Pe 98.4 4.6E-05 1E-09 78.1 21.6 205 37-269 2-215 (268)
122 PRK00489 hisG ATP phosphoribos 98.3 4.5E-06 9.8E-11 85.8 12.1 138 516-769 52-193 (287)
123 PF13407 Peripla_BP_4: Peripla 98.3 6.2E-05 1.3E-09 76.7 20.2 203 37-260 1-209 (257)
124 cd06319 PBP1_ABC_sugar_binding 98.3 9.3E-05 2E-09 76.3 21.0 208 36-269 1-220 (277)
125 cd06317 PBP1_ABC_sugar_binding 98.3 6.2E-05 1.3E-09 77.5 19.5 212 37-269 2-222 (275)
126 cd06310 PBP1_ABC_sugar_binding 98.3 0.00019 4E-09 73.9 22.4 211 36-269 1-218 (273)
127 cd06301 PBP1_rhizopine_binding 98.2 0.00016 3.5E-09 74.3 21.6 214 36-270 1-220 (272)
128 cd06312 PBP1_ABC_sugar_binding 98.2 0.00016 3.5E-09 74.2 21.6 209 36-269 1-218 (271)
129 cd06309 PBP1_YtfQ_like Peripla 98.1 0.00031 6.7E-09 72.2 20.6 214 36-269 1-222 (273)
130 cd06273 PBP1_GntR_like_1 This 98.1 0.0002 4.4E-09 73.3 19.1 205 36-268 1-214 (268)
131 cd01545 PBP1_SalR Ligand-bindi 98.1 0.00028 6.1E-09 72.3 19.9 211 37-269 2-216 (270)
132 PRK10936 TMAO reductase system 98.1 0.0017 3.6E-08 69.2 26.0 204 32-259 44-256 (343)
133 cd06311 PBP1_ABC_sugar_binding 98.1 0.00087 1.9E-08 68.9 22.5 213 37-269 2-220 (274)
134 PRK09701 D-allose transporter 98.0 0.0025 5.5E-08 66.8 26.0 217 36-269 26-251 (311)
135 COG1879 RbsB ABC-type sugar tr 98.0 0.0022 4.9E-08 67.6 24.4 219 34-270 33-255 (322)
136 cd06305 PBP1_methylthioribose_ 98.0 0.00084 1.8E-08 68.9 20.6 209 36-269 1-218 (273)
137 PRK15395 methyl-galactoside AB 98.0 0.0022 4.9E-08 67.8 24.0 207 33-257 23-249 (330)
138 cd06298 PBP1_CcpA_like Ligand- 97.9 0.00072 1.6E-08 69.2 19.5 208 36-269 1-214 (268)
139 cd06303 PBP1_LuxPQ_Quorum_Sens 97.9 0.0017 3.7E-08 67.0 22.2 216 36-269 1-225 (280)
140 TIGR03431 PhnD phosphonate ABC 97.9 0.00013 2.8E-09 75.6 12.9 94 673-768 127-234 (288)
141 cd01539 PBP1_GGBP Periplasmic 97.9 0.0023 5E-08 66.9 22.3 219 36-269 1-241 (303)
142 cd06322 PBP1_ABC_sugar_binding 97.9 0.0028 6E-08 64.8 22.5 202 37-267 2-211 (267)
143 cd06308 PBP1_sensor_kinase_lik 97.9 0.0023 5.1E-08 65.5 21.9 211 36-270 1-218 (270)
144 cd06289 PBP1_MalI_like Ligand- 97.9 0.00081 1.8E-08 68.8 18.2 209 36-269 1-215 (268)
145 cd06321 PBP1_ABC_sugar_binding 97.9 0.0017 3.8E-08 66.5 20.6 207 36-269 1-215 (271)
146 cd06271 PBP1_AglR_RafR_like Li 97.9 0.0015 3.3E-08 66.8 20.0 209 37-269 2-218 (268)
147 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.0012 2.6E-08 67.5 19.1 205 37-268 2-212 (267)
148 PF00532 Peripla_BP_1: Peripla 97.8 0.00071 1.5E-08 69.6 16.7 202 36-262 3-210 (279)
149 PRK15408 autoinducer 2-binding 97.8 0.012 2.5E-07 62.4 25.5 201 35-258 24-234 (336)
150 cd01542 PBP1_TreR_like Ligand- 97.8 0.0018 4E-08 65.8 19.0 200 37-266 2-206 (259)
151 PRK10355 xylF D-xylose transpo 97.8 0.0095 2.1E-07 63.0 24.5 202 33-258 24-236 (330)
152 cd01540 PBP1_arabinose_binding 97.8 0.0039 8.5E-08 64.6 21.4 216 36-269 1-230 (289)
153 cd06306 PBP1_TorT-like TorT-li 97.8 0.0039 8.4E-08 63.9 21.1 202 36-266 1-215 (268)
154 cd06316 PBP1_ABC_sugar_binding 97.7 0.006 1.3E-07 63.4 22.3 214 36-269 1-220 (294)
155 cd01574 PBP1_LacI Ligand-bindi 97.7 0.0052 1.1E-07 62.7 21.4 207 36-268 1-210 (264)
156 cd06278 PBP1_LacI_like_2 Ligan 97.7 0.003 6.6E-08 64.4 19.3 191 37-256 2-197 (266)
157 cd06275 PBP1_PurR Ligand-bindi 97.7 0.0033 7.1E-08 64.3 19.3 206 37-267 2-213 (269)
158 cd06288 PBP1_sucrose_transcrip 97.7 0.0026 5.6E-08 65.1 18.5 208 36-268 1-213 (269)
159 cd06281 PBP1_LacI_like_5 Ligan 97.7 0.0022 4.7E-08 65.8 17.8 208 36-268 1-212 (269)
160 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0028 6.2E-08 64.7 18.7 206 37-268 2-213 (268)
161 cd06295 PBP1_CelR Ligand bindi 97.7 0.0038 8.2E-08 64.2 19.4 207 34-269 3-223 (275)
162 cd06283 PBP1_RegR_EndR_KdgR_li 97.7 0.0053 1.1E-07 62.7 20.4 208 37-268 2-214 (267)
163 cd06274 PBP1_FruR Ligand bindi 97.7 0.0061 1.3E-07 62.2 20.7 207 36-268 1-214 (264)
164 PRK11303 DNA-binding transcrip 97.7 0.008 1.7E-07 63.6 22.1 206 33-266 60-272 (328)
165 COG1609 PurR Transcriptional r 97.6 0.0097 2.1E-07 62.8 22.1 207 33-267 57-272 (333)
166 cd06318 PBP1_ABC_sugar_binding 97.6 0.011 2.4E-07 60.9 22.2 210 36-268 1-224 (282)
167 cd06313 PBP1_ABC_sugar_binding 97.6 0.011 2.3E-07 60.8 21.7 198 49-269 15-217 (272)
168 cd06324 PBP1_ABC_sugar_binding 97.6 0.0087 1.9E-07 62.6 21.4 213 37-269 2-239 (305)
169 TIGR01481 ccpA catabolite cont 97.6 0.0053 1.1E-07 65.0 20.0 210 33-268 58-272 (329)
170 cd06277 PBP1_LacI_like_1 Ligan 97.6 0.0066 1.4E-07 62.1 19.9 208 37-269 2-214 (268)
171 cd06299 PBP1_LacI_like_13 Liga 97.6 0.0057 1.2E-07 62.4 19.2 198 36-259 1-201 (265)
172 cd06296 PBP1_CatR_like Ligand- 97.6 0.0062 1.4E-07 62.3 19.6 207 37-269 2-215 (270)
173 cd01538 PBP1_ABC_xylose_bindin 97.6 0.014 3E-07 60.4 22.3 202 36-259 1-216 (288)
174 cd06270 PBP1_GalS_like Ligand 97.6 0.0094 2E-07 60.9 20.7 210 36-269 1-214 (268)
175 cd06314 PBP1_tmGBP Periplasmic 97.5 0.023 5E-07 58.2 23.1 207 36-269 1-214 (271)
176 cd06294 PBP1_ycjW_transcriptio 97.5 0.0076 1.6E-07 61.6 19.4 211 36-269 1-220 (270)
177 TIGR02417 fruct_sucro_rep D-fr 97.5 0.0097 2.1E-07 62.9 20.6 211 33-269 59-274 (327)
178 cd06293 PBP1_LacI_like_11 Liga 97.5 0.011 2.3E-07 60.5 20.1 201 36-260 1-204 (269)
179 PRK10014 DNA-binding transcrip 97.5 0.0095 2.1E-07 63.5 20.3 205 33-260 63-270 (342)
180 TIGR02955 TMAO_TorT TMAO reduc 97.5 0.021 4.6E-07 59.3 22.3 198 36-258 1-208 (295)
181 cd06292 PBP1_LacI_like_10 Liga 97.5 0.011 2.4E-07 60.6 20.0 201 37-259 2-207 (273)
182 cd06291 PBP1_Qymf_like Ligand 97.4 0.012 2.6E-07 60.0 19.5 201 36-267 1-208 (265)
183 cd06286 PBP1_CcpB_like Ligand- 97.4 0.0091 2E-07 60.7 18.1 204 36-267 1-210 (260)
184 PF04392 ABC_sub_bind: ABC tra 97.4 0.0087 1.9E-07 62.1 17.7 185 36-242 1-194 (294)
185 cd06285 PBP1_LacI_like_7 Ligan 97.4 0.012 2.7E-07 59.9 18.6 205 36-269 1-212 (265)
186 PRK10703 DNA-binding transcrip 97.3 0.019 4.1E-07 61.1 20.3 203 33-260 58-266 (341)
187 cd01541 PBP1_AraR Ligand-bindi 97.3 0.012 2.6E-07 60.3 17.8 199 37-260 2-210 (273)
188 PRK10423 transcriptional repre 97.3 0.02 4.3E-07 60.6 19.9 210 33-268 55-271 (327)
189 cd06280 PBP1_LacI_like_4 Ligan 97.3 0.021 4.5E-07 58.2 19.1 203 36-269 1-209 (263)
190 cd06302 PBP1_LsrB_Quorum_Sensi 97.3 0.049 1.1E-06 56.7 22.2 211 36-267 1-218 (298)
191 PRK09492 treR trehalose repres 97.2 0.036 7.8E-07 58.2 20.8 192 33-257 61-256 (315)
192 cd06290 PBP1_LacI_like_9 Ligan 97.2 0.023 5E-07 57.9 18.7 208 36-268 1-212 (265)
193 cd06304 PBP1_BmpA_like Peripla 97.2 0.028 6E-07 57.2 19.0 207 36-269 1-210 (260)
194 cd06307 PBP1_uncharacterized_s 97.2 0.082 1.8E-06 54.2 22.5 213 36-269 1-220 (275)
195 cd06279 PBP1_LacI_like_3 Ligan 97.2 0.027 5.9E-07 58.1 18.7 202 37-268 2-231 (283)
196 cd01543 PBP1_XylR Ligand-bindi 97.2 0.026 5.6E-07 57.6 18.3 205 36-269 1-208 (265)
197 PRK09526 lacI lac repressor; R 97.2 0.074 1.6E-06 56.6 22.3 209 33-268 62-276 (342)
198 cd06297 PBP1_LacI_like_12 Liga 97.2 0.029 6.4E-07 57.4 18.5 204 37-269 2-217 (269)
199 PRK11553 alkanesulfonate trans 97.1 0.0029 6.4E-08 66.5 11.1 69 673-744 121-193 (314)
200 TIGR02634 xylF D-xylose ABC tr 97.1 0.077 1.7E-06 55.3 21.2 197 37-258 1-209 (302)
201 TIGR01729 taurine_ABC_bnd taur 97.1 0.0024 5.2E-08 66.6 9.4 69 673-744 92-164 (300)
202 cd06272 PBP1_hexuronate_repres 97.0 0.036 7.7E-07 56.4 17.8 205 36-269 1-209 (261)
203 PRK10727 DNA-binding transcrip 97.0 0.046 1E-06 58.2 19.2 208 33-267 58-272 (343)
204 TIGR02637 RhaS rhamnose ABC tr 97.0 0.14 3.1E-06 53.3 22.3 201 37-259 1-211 (302)
205 PRK14987 gluconate operon tran 97.0 0.084 1.8E-06 55.9 20.6 209 33-268 62-275 (331)
206 PF12974 Phosphonate-bd: ABC t 97.0 0.0064 1.4E-07 61.2 11.2 92 673-767 97-201 (243)
207 cd06354 PBP1_BmpA_PnrA_like Pe 96.9 0.11 2.4E-06 53.0 20.1 196 36-256 1-206 (265)
208 PRK10401 DNA-binding transcrip 96.9 0.12 2.7E-06 55.0 20.9 209 33-268 58-273 (346)
209 PRK11041 DNA-binding transcrip 96.8 0.13 2.7E-06 53.8 19.9 203 33-259 34-239 (309)
210 TIGR02405 trehalos_R_Ecol treh 96.7 0.18 3.9E-06 52.8 20.4 191 33-257 58-253 (311)
211 PF13379 NMT1_2: NMT1-like fam 96.7 0.0082 1.8E-07 60.8 9.4 74 673-746 106-189 (252)
212 cd06315 PBP1_ABC_sugar_binding 96.6 0.25 5.5E-06 50.7 20.2 205 36-260 2-216 (280)
213 PF09084 NMT1: NMT1/THI5 like; 96.5 0.037 7.9E-07 54.5 12.8 69 673-743 85-157 (216)
214 TIGR03427 ABC_peri_uca ABC tra 96.5 0.012 2.6E-07 61.5 9.6 70 673-744 98-170 (328)
215 cd01544 PBP1_GalR Ligand-bindi 96.5 0.18 3.9E-06 51.5 17.8 197 36-269 1-216 (270)
216 cd06353 PBP1_BmpA_Med_like Per 96.2 0.28 6.1E-06 49.7 17.0 197 36-257 1-201 (258)
217 COG4213 XylF ABC-type xylose t 95.9 0.98 2.1E-05 45.3 18.4 203 33-260 24-244 (341)
218 TIGR02122 TRAP_TAXI TRAP trans 95.9 0.083 1.8E-06 55.6 12.3 58 673-734 133-197 (320)
219 PF14503 YhfZ_C: YhfZ C-termin 95.8 0.032 6.9E-07 54.1 7.5 135 486-736 25-166 (232)
220 TIGR01728 SsuA_fam ABC transpo 95.6 0.081 1.8E-06 54.6 10.8 69 673-744 93-165 (288)
221 COG3221 PhnD ABC-type phosphat 95.5 0.2 4.3E-06 51.4 12.5 96 672-769 135-244 (299)
222 COG1744 Med Uncharacterized AB 95.4 3 6.5E-05 44.0 21.2 206 33-259 34-246 (345)
223 PRK11480 tauA taurine transpor 94.8 0.18 4E-06 53.0 10.4 66 673-741 114-183 (320)
224 cd06287 PBP1_LacI_like_8 Ligan 94.7 3.6 7.8E-05 41.9 19.3 148 95-260 54-205 (269)
225 PF12727 PBP_like: PBP superfa 94.5 0.7 1.5E-05 44.3 12.5 91 672-768 82-179 (193)
226 TIGR00787 dctP tripartite ATP- 94.3 0.88 1.9E-05 46.1 13.5 88 671-767 126-214 (257)
227 PF07885 Ion_trans_2: Ion chan 94.1 0.25 5.3E-06 39.6 7.3 55 611-665 22-78 (79)
228 TIGR02990 ectoine_eutA ectoine 93.6 0.65 1.4E-05 46.0 10.7 98 151-255 104-204 (239)
229 COG2358 Imp TRAP-type uncharac 93.4 1 2.2E-05 46.2 11.8 77 673-753 129-214 (321)
230 TIGR01256 modA molybdenum ABC 92.8 0.87 1.9E-05 44.7 10.3 74 487-564 4-83 (216)
231 PRK10339 DNA-binding transcrip 92.3 6.8 0.00015 41.2 17.1 199 33-269 62-271 (327)
232 PF02608 Bmp: Basic membrane p 92.1 8.3 0.00018 40.1 17.1 200 35-258 2-213 (306)
233 COG1638 DctP TRAP-type C4-dica 91.8 0.38 8.3E-06 50.3 6.6 68 672-747 158-229 (332)
234 PF03480 SBP_bac_7: Bacterial 91.4 3.8 8.2E-05 42.2 13.5 88 670-766 125-213 (286)
235 COG1910 Periplasmic molybdate- 91.2 1.5 3.2E-05 41.7 9.0 90 672-768 88-184 (223)
236 cd06353 PBP1_BmpA_Med_like Per 90.9 2.9 6.3E-05 42.3 11.8 88 36-130 122-209 (258)
237 PF13531 SBP_bac_11: Bacterial 90.8 0.67 1.5E-05 46.0 7.0 174 486-770 8-204 (230)
238 PF12683 DUF3798: Protein of u 90.6 19 0.00042 35.8 16.9 210 34-257 2-224 (275)
239 PF03466 LysR_substrate: LysR 90.5 6.7 0.00015 37.4 13.8 71 488-566 18-89 (209)
240 cd06276 PBP1_FucR_like Ligand- 89.8 23 0.0005 35.4 19.2 193 37-268 2-198 (247)
241 cd05466 PBP2_LTTR_substrate Th 89.7 12 0.00026 34.6 14.8 72 488-566 12-83 (197)
242 COG0715 TauA ABC-type nitrate/ 89.4 1.4 3.1E-05 46.5 8.6 71 673-745 128-202 (335)
243 COG3473 Maleate cis-trans isom 88.9 8.3 0.00018 36.4 11.7 95 155-257 106-205 (238)
244 cd08442 PBP2_YofA_SoxR_like Th 88.2 14 0.0003 34.5 14.0 71 488-566 12-83 (193)
245 cd08459 PBP2_DntR_NahR_LinR_li 87.0 11 0.00023 35.7 12.5 71 488-566 12-83 (201)
246 cd08418 PBP2_TdcA The C-termin 86.9 20 0.00042 33.7 14.3 72 488-565 12-84 (201)
247 cd08426 PBP2_LTTR_like_5 The C 85.8 24 0.00051 33.1 14.2 70 489-566 13-83 (199)
248 PRK10200 putative racemase; Pr 85.5 6.6 0.00014 38.8 10.1 88 80-201 58-146 (230)
249 KOG1419 Voltage-gated K+ chann 84.8 2.5 5.3E-05 45.7 6.8 88 578-665 234-323 (654)
250 cd08468 PBP2_Pa0477 The C-term 84.3 31 0.00068 32.6 14.3 74 488-566 12-86 (202)
251 PF01177 Asp_Glu_race: Asp/Glu 84.1 10 0.00023 36.9 10.8 130 89-255 58-199 (216)
252 cd08433 PBP2_Nac The C-teminal 83.3 38 0.00082 31.7 14.4 69 489-565 13-82 (198)
253 cd08421 PBP2_LTTR_like_1 The C 83.2 40 0.00086 31.5 14.7 70 489-566 13-83 (198)
254 cd08434 PBP2_GltC_like The sub 82.8 34 0.00074 31.7 13.8 70 489-566 13-83 (195)
255 COG1464 NlpA ABC-type metal io 82.4 5.6 0.00012 39.5 7.7 75 1-87 1-75 (268)
256 cd08419 PBP2_CbbR_RubisCO_like 82.4 42 0.00091 31.2 15.3 69 489-565 12-81 (197)
257 cd08412 PBP2_PAO1_like The C-t 82.1 41 0.0009 31.3 14.1 71 488-566 12-83 (198)
258 PF03808 Glyco_tran_WecB: Glyc 81.9 21 0.00046 33.4 11.4 100 153-270 35-136 (172)
259 cd08462 PBP2_NodD The C-termin 81.5 29 0.00063 32.7 12.8 69 489-566 13-82 (200)
260 cd08414 PBP2_LTTR_aromatics_li 81.3 46 0.001 30.9 15.0 70 488-565 12-82 (197)
261 cd08427 PBP2_LTTR_like_2 The C 81.3 34 0.00073 31.8 13.1 72 488-565 12-84 (195)
262 TIGR00035 asp_race aspartate r 80.8 5.9 0.00013 39.2 7.6 46 81-127 59-104 (229)
263 PF13377 Peripla_BP_3: Peripla 80.6 7.2 0.00016 35.7 7.8 100 159-268 1-104 (160)
264 cd08460 PBP2_DntR_like_1 The C 80.5 15 0.00033 34.7 10.5 70 488-566 12-82 (200)
265 PF02608 Bmp: Basic membrane p 80.5 8.5 0.00018 40.1 9.0 90 36-130 128-222 (306)
266 cd08438 PBP2_CidR The C-termin 80.1 50 0.0011 30.6 14.7 72 488-566 12-83 (197)
267 cd08417 PBP2_Nitroaromatics_li 80.1 31 0.00068 32.3 12.5 71 488-566 12-83 (200)
268 cd08440 PBP2_LTTR_like_4 TThe 79.4 53 0.0011 30.4 15.6 71 488-566 12-83 (197)
269 COG0725 ModA ABC-type molybdat 79.2 35 0.00076 34.3 12.5 167 493-770 46-229 (258)
270 cd08415 PBP2_LysR_opines_like 78.9 53 0.0011 30.5 13.6 70 488-565 12-82 (196)
271 TIGR00363 lipoprotein, YaeC fa 78.4 11 0.00024 38.0 8.7 67 672-740 107-195 (258)
272 cd08436 PBP2_LTTR_like_3 The C 78.4 56 0.0012 30.2 16.4 71 488-565 12-83 (194)
273 COG1454 EutG Alcohol dehydroge 78.4 19 0.0004 38.3 10.6 95 155-256 17-112 (377)
274 cd08453 PBP2_IlvR The C-termin 78.3 59 0.0013 30.4 14.7 73 489-566 13-86 (200)
275 cd08420 PBP2_CysL_like C-termi 78.2 58 0.0013 30.2 14.3 71 488-566 12-83 (201)
276 PRK11063 metQ DL-methionine tr 78.0 18 0.00039 36.8 10.2 66 673-740 121-208 (271)
277 PRK11151 DNA-binding transcrip 77.9 59 0.0013 33.6 14.6 70 489-566 104-174 (305)
278 PRK11233 nitrogen assimilation 77.7 41 0.00088 34.9 13.2 69 489-565 105-174 (305)
279 TIGR01098 3A0109s03R phosphate 77.7 12 0.00025 37.6 8.9 93 1-105 1-93 (254)
280 PRK09860 putative alcohol dehy 77.4 17 0.00037 39.1 10.4 90 155-251 19-109 (383)
281 cd08423 PBP2_LTTR_like_6 The C 77.2 57 0.0012 30.4 13.3 73 489-566 13-88 (200)
282 COG1744 Med Uncharacterized AB 77.1 36 0.00079 36.0 12.5 92 34-130 161-252 (345)
283 cd08463 PBP2_DntR_like_4 The C 76.4 71 0.0015 30.3 14.9 72 488-566 12-84 (203)
284 PRK10677 modA molybdate transp 76.4 22 0.00048 35.9 10.3 74 489-566 39-118 (257)
285 CHL00180 rbcR LysR transcripti 75.9 81 0.0017 32.6 14.9 73 489-566 108-181 (305)
286 cd08467 PBP2_SyrM The C-termin 75.5 63 0.0014 30.4 13.1 70 488-565 12-82 (200)
287 PF13407 Peripla_BP_4: Peripla 75.3 7 0.00015 39.3 6.5 79 170-257 1-81 (257)
288 cd08461 PBP2_DntR_like_3 The C 75.1 59 0.0013 30.3 12.8 70 488-565 12-82 (198)
289 cd08466 PBP2_LeuO The C-termin 74.7 60 0.0013 30.3 12.7 71 488-566 12-83 (200)
290 cd08192 Fe-ADH7 Iron-containin 74.3 24 0.00052 37.9 10.5 92 155-253 12-104 (370)
291 PRK11242 DNA-binding transcrip 73.3 94 0.002 31.8 14.6 72 488-566 103-174 (296)
292 PRK12684 transcriptional regul 73.3 70 0.0015 33.2 13.7 71 489-566 106-177 (313)
293 cd08435 PBP2_GbpR The C-termin 73.3 79 0.0017 29.4 14.6 73 489-566 13-85 (201)
294 cd06533 Glyco_transf_WecG_TagA 73.2 29 0.00063 32.4 9.6 100 152-269 32-133 (171)
295 COG0426 FpaA Uncharacterized f 73.1 74 0.0016 33.8 13.2 151 34-204 212-363 (388)
296 cd06354 PBP1_BmpA_PnrA_like Pe 72.5 76 0.0017 32.0 13.4 122 35-162 122-243 (265)
297 TIGR02424 TF_pcaQ pca operon t 72.5 53 0.0011 33.8 12.5 73 489-566 106-178 (300)
298 PRK15408 autoinducer 2-binding 72.4 14 0.00029 39.1 8.0 84 166-258 22-107 (336)
299 cd08189 Fe-ADH5 Iron-containin 72.3 29 0.00063 37.3 10.6 93 155-254 14-107 (374)
300 cd08441 PBP2_MetR The C-termin 72.3 84 0.0018 29.3 15.2 69 489-565 13-82 (198)
301 PLN03192 Voltage-dependent pot 72.2 8.5 0.00018 46.3 7.1 54 613-666 250-305 (823)
302 cd08411 PBP2_OxyR The C-termin 72.1 85 0.0019 29.2 14.9 69 489-565 14-83 (200)
303 PRK10537 voltage-gated potassi 71.9 14 0.00029 39.9 7.8 53 612-664 167-221 (393)
304 PRK10624 L-1,2-propanediol oxi 71.5 28 0.00061 37.5 10.3 89 155-251 18-108 (382)
305 PF13685 Fe-ADH_2: Iron-contai 71.4 19 0.00042 36.0 8.2 92 157-257 9-100 (250)
306 PRK09508 leuO leucine transcri 71.2 44 0.00095 34.8 11.5 70 489-566 125-195 (314)
307 cd08448 PBP2_LTTR_aromatics_li 71.0 88 0.0019 28.9 14.4 70 488-565 12-82 (197)
308 PRK12682 transcriptional regul 70.2 1.4E+02 0.003 30.9 15.4 72 488-566 105-177 (309)
309 PRK10341 DNA-binding transcrip 70.0 83 0.0018 32.6 13.3 71 489-565 110-181 (312)
310 KOG3713 Voltage-gated K+ chann 69.7 4.2 9.2E-05 43.6 3.3 60 592-655 360-421 (477)
311 cd08469 PBP2_PnbR The C-termin 69.5 65 0.0014 30.8 11.9 71 488-566 12-83 (221)
312 cd08413 PBP2_CysB_like The C-t 69.4 93 0.002 29.1 12.7 72 488-566 12-84 (198)
313 cd08429 PBP2_NhaR The C-termin 68.3 1.1E+02 0.0024 29.0 14.7 71 488-563 12-83 (204)
314 cd08416 PBP2_MdcR The C-termin 67.8 1E+02 0.0023 28.5 15.7 73 488-566 12-85 (199)
315 cd06305 PBP1_methylthioribose_ 67.8 20 0.00044 36.2 8.0 79 169-258 1-82 (273)
316 PRK11063 metQ DL-methionine tr 67.5 15 0.00034 37.3 6.8 81 1-102 5-85 (271)
317 cd06312 PBP1_ABC_sugar_binding 66.0 20 0.00044 36.2 7.6 80 169-257 1-83 (271)
318 PRK09791 putative DNA-binding 66.0 1.3E+02 0.0028 31.0 13.7 73 489-566 108-180 (302)
319 PRK15454 ethanol dehydrogenase 65.5 30 0.00064 37.5 8.9 89 155-251 37-127 (395)
320 PF06506 PrpR_N: Propionate ca 65.1 1.1E+02 0.0024 28.6 11.8 129 81-259 18-146 (176)
321 cd08450 PBP2_HcaR The C-termin 64.9 1E+02 0.0022 28.6 11.9 71 488-566 12-83 (196)
322 cd08190 HOT Hydroxyacid-oxoaci 64.8 29 0.00062 37.9 8.7 88 155-250 11-100 (414)
323 cd08185 Fe-ADH1 Iron-containin 64.6 52 0.0011 35.5 10.6 90 155-252 14-105 (380)
324 TIGR03339 phn_lysR aminoethylp 64.4 1.6E+02 0.0035 29.6 15.7 69 490-566 98-167 (279)
325 cd08437 PBP2_MleR The substrat 64.0 1.2E+02 0.0027 28.1 15.2 72 489-566 13-85 (198)
326 cd02071 MM_CoA_mut_B12_BD meth 63.7 77 0.0017 27.6 9.7 64 183-258 13-80 (122)
327 cd06301 PBP1_rhizopine_binding 63.3 23 0.00051 35.7 7.4 80 169-258 1-83 (272)
328 cd08193 HVD 5-hydroxyvalerate 63.2 32 0.00069 37.0 8.7 90 155-252 14-105 (376)
329 cd06304 PBP1_BmpA_like Peripla 63.2 1.1E+02 0.0024 30.6 12.3 126 35-169 121-246 (260)
330 cd00755 YgdL_like Family of ac 63.1 59 0.0013 32.1 9.7 117 46-178 61-183 (231)
331 PRK12681 cysB transcriptional 62.5 1.4E+02 0.0029 31.3 13.2 71 489-565 106-176 (324)
332 cd08551 Fe-ADH iron-containing 62.4 37 0.0008 36.4 9.0 91 155-253 11-103 (370)
333 PRK00865 glutamate racemase; P 62.4 1.1E+02 0.0023 31.0 11.8 39 87-126 58-96 (261)
334 PF07287 DUF1446: Protein of u 62.1 1.4E+02 0.003 31.7 12.7 106 45-179 6-112 (362)
335 cd08456 PBP2_LysR The C-termin 62.0 1.3E+02 0.0029 27.7 14.7 70 488-565 12-82 (196)
336 cd08425 PBP2_CynR The C-termin 61.5 1.4E+02 0.003 27.7 14.9 71 489-566 14-84 (197)
337 cd08194 Fe-ADH6 Iron-containin 61.3 43 0.00092 36.0 9.2 89 155-251 11-101 (375)
338 cd08464 PBP2_DntR_like_2 The C 61.1 1.4E+02 0.003 27.7 13.3 70 488-565 12-82 (200)
339 KOG0025 Zn2+-binding dehydroge 60.4 63 0.0014 32.6 9.1 98 141-257 161-258 (354)
340 TIGR02638 lactal_redase lactal 60.2 43 0.00093 36.1 9.0 90 155-252 17-108 (379)
341 cd08176 LPO Lactadehyde:propan 60.2 55 0.0012 35.2 9.8 89 155-251 16-106 (377)
342 cd06302 PBP1_LsrB_Quorum_Sensi 60.1 30 0.00066 35.6 7.7 79 170-258 2-83 (298)
343 cd08443 PBP2_CysB The C-termin 59.3 1.5E+02 0.0033 27.6 13.0 71 489-566 13-84 (198)
344 cd01538 PBP1_ABC_xylose_bindin 59.0 29 0.00062 35.6 7.2 78 170-257 2-81 (288)
345 cd08446 PBP2_Chlorocatechol Th 58.9 1.5E+02 0.0033 27.4 13.7 70 489-566 14-84 (198)
346 PRK12683 transcriptional regul 58.8 1.7E+02 0.0037 30.3 13.1 71 489-566 106-177 (309)
347 cd06310 PBP1_ABC_sugar_binding 58.7 31 0.00067 34.8 7.4 80 169-257 1-83 (273)
348 cd06316 PBP1_ABC_sugar_binding 58.2 28 0.0006 35.7 7.0 81 169-258 1-83 (294)
349 cd08444 PBP2_Cbl The C-termina 58.2 1.6E+02 0.0035 27.4 15.1 72 488-566 12-84 (198)
350 PRK15116 sulfur acceptor prote 57.0 2.1E+02 0.0046 29.0 12.6 117 46-178 80-209 (268)
351 cd08458 PBP2_NocR The C-termin 56.8 1.7E+02 0.0036 27.2 14.4 69 489-565 13-82 (196)
352 PRK03692 putative UDP-N-acetyl 56.7 1E+02 0.0022 30.7 10.2 89 152-255 91-180 (243)
353 PRK10094 DNA-binding transcrip 56.5 1.7E+02 0.0037 30.2 12.6 72 490-566 107-178 (308)
354 TIGR02122 TRAP_TAXI TRAP trans 56.5 1.6E+02 0.0034 30.6 12.5 39 1-44 1-41 (320)
355 cd08430 PBP2_IlvY The C-termin 56.4 1.7E+02 0.0036 27.1 13.4 70 489-565 13-83 (199)
356 TIGR01276 thiB thiamine ABC tr 56.2 2.3E+02 0.005 29.2 13.6 39 493-534 21-63 (309)
357 PRK15395 methyl-galactoside AB 55.9 1.4E+02 0.003 31.3 11.9 123 33-164 161-293 (330)
358 PRK00945 acetyl-CoA decarbonyl 55.6 56 0.0012 30.5 7.5 53 81-138 23-78 (171)
359 PRK12679 cbl transcriptional r 55.5 2.3E+02 0.0049 29.4 13.4 71 489-566 106-177 (316)
360 cd08451 PBP2_BudR The C-termin 55.3 1.7E+02 0.0037 26.9 13.0 69 490-565 15-84 (199)
361 cd08486 PBP2_CbnR The C-termin 55.2 1.8E+02 0.0039 27.1 11.8 70 488-565 13-83 (198)
362 PRK11482 putative DNA-binding 55.2 2.6E+02 0.0057 29.0 14.7 69 489-566 130-198 (317)
363 TIGR03414 ABC_choline_bnd chol 55.1 1.3E+02 0.0029 30.8 11.2 44 489-536 21-64 (290)
364 cd06318 PBP1_ABC_sugar_binding 55.1 35 0.00077 34.6 7.1 78 170-258 2-82 (282)
365 COG3340 PepE Peptidase E [Amin 54.7 97 0.0021 29.8 9.0 88 154-257 20-107 (224)
366 cd06267 PBP1_LacI_sugar_bindin 54.6 34 0.00074 34.0 6.8 77 170-258 2-80 (264)
367 cd01540 PBP1_arabinose_binding 54.0 33 0.00073 34.9 6.8 78 169-258 1-81 (289)
368 cd08457 PBP2_OccR The C-termin 53.8 1.8E+02 0.004 26.8 13.8 69 489-565 13-82 (196)
369 PRK14498 putative molybdopteri 53.7 92 0.002 36.2 10.9 68 165-241 184-261 (633)
370 COG3221 PhnD ABC-type phosphat 53.7 2.7E+02 0.0059 28.7 14.8 171 30-237 32-203 (299)
371 cd06322 PBP1_ABC_sugar_binding 53.7 47 0.001 33.3 7.7 77 170-257 2-81 (267)
372 TIGR00696 wecB_tagA_cpsF bacte 53.6 1.3E+02 0.0028 28.3 9.9 87 152-254 34-122 (177)
373 cd08188 Fe-ADH4 Iron-containin 53.3 69 0.0015 34.4 9.2 89 155-251 16-106 (377)
374 cd01536 PBP1_ABC_sugar_binding 52.9 50 0.0011 32.9 7.8 79 169-257 1-81 (267)
375 cd01539 PBP1_GGBP Periplasmic 52.6 51 0.0011 34.0 7.9 80 169-258 1-84 (303)
376 cd06306 PBP1_TorT-like TorT-li 52.1 49 0.0011 33.4 7.5 81 169-258 1-83 (268)
377 TIGR02370 pyl_corrinoid methyl 52.1 1.5E+02 0.0032 28.5 10.3 89 168-270 85-177 (197)
378 PRK09701 D-allose transporter 52.0 93 0.002 32.3 9.8 86 164-258 21-109 (311)
379 TIGR00315 cdhB CO dehydrogenas 51.3 1.6E+02 0.0034 27.3 9.7 47 81-130 16-64 (162)
380 cd08449 PBP2_XapR The C-termin 51.0 2E+02 0.0044 26.4 16.2 71 489-565 13-84 (197)
381 cd01537 PBP1_Repressors_Sugar_ 50.8 33 0.00071 34.1 6.0 78 169-257 1-80 (264)
382 COG1179 Dinucleotide-utilizing 50.8 86 0.0019 30.9 8.1 102 45-162 79-181 (263)
383 PRK10936 TMAO reductase system 50.7 57 0.0012 34.5 8.0 82 167-257 46-129 (343)
384 KOG3857 Alcohol dehydrogenase, 50.5 83 0.0018 32.5 8.2 96 139-242 38-137 (465)
385 cd06300 PBP1_ABC_sugar_binding 50.2 68 0.0015 32.3 8.3 80 169-257 1-86 (272)
386 PF00465 Fe-ADH: Iron-containi 49.4 49 0.0011 35.4 7.3 91 155-255 11-103 (366)
387 PRK07475 hypothetical protein; 49.1 89 0.0019 31.2 8.5 46 80-126 61-106 (245)
388 cd06289 PBP1_MalI_like Ligand- 49.1 60 0.0013 32.5 7.6 78 170-258 2-81 (268)
389 cd01545 PBP1_SalR Ligand-bindi 49.1 61 0.0013 32.5 7.7 78 170-257 2-81 (270)
390 PRK14174 bifunctional 5,10-met 49.0 3.2E+02 0.0069 28.1 13.9 175 35-240 32-214 (295)
391 PRK07377 hypothetical protein; 49.0 48 0.001 30.8 5.8 45 487-534 91-135 (184)
392 cd08191 HHD 6-hydroxyhexanoate 48.4 97 0.0021 33.4 9.4 89 156-253 12-102 (386)
393 PRK15421 DNA-binding transcrip 48.2 3.4E+02 0.0073 28.2 14.8 69 490-566 103-172 (317)
394 TIGR00070 hisG ATP phosphoribo 48.2 1.6E+02 0.0036 27.7 9.5 75 673-757 101-176 (182)
395 PRK10837 putative DNA-binding 48.1 3.1E+02 0.0067 27.8 15.3 70 489-566 102-172 (290)
396 cd06282 PBP1_GntR_like_2 Ligan 48.1 62 0.0013 32.3 7.6 78 170-258 2-81 (266)
397 PF13377 Peripla_BP_3: Peripla 48.0 1.5E+02 0.0032 26.7 9.5 119 36-164 11-136 (160)
398 cd06320 PBP1_allose_binding Pe 47.6 68 0.0015 32.3 7.8 80 169-257 1-83 (275)
399 cd08182 HEPD Hydroxyethylphosp 47.6 1.2E+02 0.0026 32.5 9.8 86 156-252 12-99 (367)
400 cd06317 PBP1_ABC_sugar_binding 46.8 60 0.0013 32.7 7.2 79 170-258 2-83 (275)
401 PRK05452 anaerobic nitric oxid 46.8 3.6E+02 0.0077 30.1 13.6 143 101-271 198-349 (479)
402 cd08181 PPD-like 1,3-propanedi 46.5 1E+02 0.0022 32.8 9.1 87 156-250 15-103 (357)
403 cd00578 L-fuc_L-ara-isomerases 46.2 2.8E+02 0.0062 30.6 12.8 90 36-130 2-97 (452)
404 cd08445 PBP2_BenM_CatM_CatR Th 45.9 2.5E+02 0.0055 26.1 13.4 71 488-566 13-84 (203)
405 PF00205 TPP_enzyme_M: Thiamin 45.9 24 0.00052 31.5 3.6 55 89-146 5-61 (137)
406 cd06303 PBP1_LuxPQ_Quorum_Sens 45.2 66 0.0014 32.6 7.3 81 170-257 2-85 (280)
407 PRK11074 putative DNA-binding 45.0 2E+02 0.0043 29.6 10.9 72 489-566 105-177 (300)
408 PRK10014 DNA-binding transcrip 45.0 96 0.0021 32.5 8.7 81 166-257 63-145 (342)
409 PRK11303 DNA-binding transcrip 44.9 82 0.0018 32.8 8.1 81 166-257 60-142 (328)
410 PRK03601 transcriptional regul 44.9 3.4E+02 0.0074 27.3 13.6 70 488-565 101-171 (275)
411 cd06315 PBP1_ABC_sugar_binding 44.8 1.1E+02 0.0023 31.1 8.8 79 168-257 1-82 (280)
412 cd06277 PBP1_LacI_like_1 Ligan 44.7 87 0.0019 31.4 8.0 75 170-257 2-81 (268)
413 cd02067 B12-binding B12 bindin 44.4 2E+02 0.0044 24.6 10.2 63 183-257 13-79 (119)
414 cd06319 PBP1_ABC_sugar_binding 43.8 71 0.0015 32.2 7.2 78 169-257 1-81 (277)
415 TIGR01501 MthylAspMutase methy 43.8 2E+02 0.0044 25.6 8.9 73 183-269 15-91 (134)
416 cd06299 PBP1_LacI_like_13 Liga 43.7 93 0.002 31.0 8.1 77 170-258 2-80 (265)
417 cd08186 Fe-ADH8 Iron-containin 43.6 1.7E+02 0.0037 31.5 10.3 91 156-252 12-106 (383)
418 TIGR00363 lipoprotein, YaeC fa 43.3 49 0.0011 33.3 5.7 55 33-102 18-72 (258)
419 TIGR02667 moaB_proteo molybden 43.2 1.4E+02 0.003 27.6 8.3 84 166-257 3-93 (163)
420 PRK10653 D-ribose transporter 43.1 1.3E+02 0.0027 30.9 9.0 80 167-257 26-108 (295)
421 TIGR00640 acid_CoA_mut_C methy 43.1 2.4E+02 0.0052 25.0 10.6 64 183-258 16-83 (132)
422 PF03401 TctC: Tripartite tric 43.1 1.5E+02 0.0032 30.3 9.2 68 673-742 90-167 (274)
423 PRK00072 hemC porphobilinogen 43.0 3.3E+02 0.0072 28.0 11.4 62 674-739 113-174 (295)
424 PRK11119 proX glycine betaine 42.8 1.5E+02 0.0033 31.1 9.4 46 489-538 42-88 (331)
425 cd08452 PBP2_AlsR The C-termin 42.7 2.8E+02 0.006 25.7 13.4 69 489-565 13-82 (197)
426 cd06307 PBP1_uncharacterized_s 42.6 80 0.0017 31.8 7.4 83 169-258 1-85 (275)
427 TIGR03850 bind_CPR_0540 carboh 42.4 86 0.0019 34.4 8.1 25 52-76 47-71 (437)
428 COG1794 RacX Aspartate racemas 42.4 96 0.0021 30.1 7.0 87 81-202 59-146 (230)
429 cd06314 PBP1_tmGBP Periplasmic 42.3 71 0.0015 32.1 7.0 78 170-257 2-80 (271)
430 COG1879 RbsB ABC-type sugar tr 42.2 93 0.002 32.4 8.0 83 168-258 34-118 (322)
431 cd08431 PBP2_HupR The C-termin 42.1 2.7E+02 0.0058 25.6 10.6 71 488-565 12-83 (195)
432 PF00448 SRP54: SRP54-type pro 42.1 1.2E+02 0.0026 29.1 7.9 74 157-242 20-93 (196)
433 PRK15424 propionate catabolism 42.0 3.5E+02 0.0077 30.6 12.6 141 71-266 40-180 (538)
434 cd01391 Periplasmic_Binding_Pr 41.5 71 0.0015 31.4 6.8 78 169-257 1-83 (269)
435 cd08170 GlyDH Glycerol dehydro 41.2 96 0.0021 32.9 7.9 85 156-251 12-98 (351)
436 cd08197 DOIS 2-deoxy-scyllo-in 41.1 2.5E+02 0.0055 29.8 10.9 103 156-268 12-119 (355)
437 PF07302 AroM: AroM protein; 40.3 1.5E+02 0.0033 28.9 8.2 83 35-128 126-209 (221)
438 PRK12680 transcriptional regul 40.2 4.5E+02 0.0098 27.4 12.9 71 489-566 106-177 (327)
439 cd02069 methionine_synthase_B1 40.2 2.4E+02 0.0052 27.4 9.8 87 168-270 89-179 (213)
440 PRK10355 xylF D-xylose transpo 40.1 1.2E+02 0.0026 31.8 8.4 80 167-257 25-107 (330)
441 PRK09423 gldA glycerol dehydro 40.0 1.2E+02 0.0025 32.6 8.3 85 155-250 18-104 (366)
442 cd06287 PBP1_LacI_like_8 Ligan 39.8 2.9E+02 0.0063 27.7 11.0 120 36-163 120-245 (269)
443 cd06281 PBP1_LacI_like_5 Ligan 39.7 1.1E+02 0.0024 30.7 7.9 77 170-257 2-80 (269)
444 cd06323 PBP1_ribose_binding Pe 39.7 89 0.0019 31.2 7.2 77 170-257 2-81 (268)
445 PRK02261 methylaspartate mutas 39.6 2.8E+02 0.006 24.8 10.7 85 169-268 5-93 (137)
446 PF09600 Cyd_oper_YbgE: Cyd op 39.6 1.6E+02 0.0034 23.7 6.7 72 584-657 7-79 (82)
447 TIGR00067 glut_race glutamate 39.4 3.6E+02 0.0077 27.0 11.1 34 95-128 59-92 (251)
448 cd06295 PBP1_CelR Ligand bindi 39.4 1.1E+02 0.0025 30.6 8.0 79 166-258 2-89 (275)
449 PRK09861 cytoplasmic membrane 39.3 1.9E+02 0.0041 29.4 9.3 41 490-533 45-86 (272)
450 cd00494 HMBS Hydroxymethylbila 38.8 4.1E+02 0.0089 27.3 11.3 62 674-739 109-170 (292)
451 cd06324 PBP1_ABC_sugar_binding 38.7 88 0.0019 32.3 7.1 77 170-257 2-83 (305)
452 cd08171 GlyDH-like2 Glycerol d 38.7 96 0.0021 32.8 7.4 87 156-252 12-100 (345)
453 cd06321 PBP1_ABC_sugar_binding 38.6 1E+02 0.0022 31.0 7.4 77 170-257 2-83 (271)
454 PRK09986 DNA-binding transcrip 38.6 4.3E+02 0.0094 26.7 16.9 72 489-566 110-182 (294)
455 TIGR00212 hemC porphobilinogen 38.5 4E+02 0.0087 27.3 11.2 62 674-739 109-170 (292)
456 PF00625 Guanylate_kin: Guanyl 38.4 3.2E+02 0.0069 25.6 10.3 94 96-202 2-98 (183)
457 TIGR02637 RhaS rhamnose ABC tr 38.3 1E+02 0.0023 31.6 7.5 79 171-257 2-82 (302)
458 PRK09861 cytoplasmic membrane 38.2 1.1E+02 0.0023 31.2 7.2 55 33-102 32-86 (272)
459 cd06309 PBP1_YtfQ_like Peripla 38.0 68 0.0015 32.3 6.0 73 176-258 10-82 (273)
460 PRK07239 bifunctional uroporph 38.0 2.3E+02 0.005 30.4 10.3 100 151-257 124-225 (381)
461 TIGR02634 xylF D-xylose ABC tr 37.9 1.1E+02 0.0023 31.7 7.5 71 176-257 9-80 (302)
462 TIGR02417 fruct_sucro_rep D-fr 37.8 1.5E+02 0.0032 30.9 8.7 81 166-257 59-141 (327)
463 cd00886 MogA_MoaB MogA_MoaB fa 37.5 1.6E+02 0.0035 26.7 7.8 64 169-240 2-69 (152)
464 cd06270 PBP1_GalS_like Ligand 37.4 1.4E+02 0.003 29.9 8.1 76 170-257 2-79 (268)
465 cd06296 PBP1_CatR_like Ligand- 37.4 1E+02 0.0022 30.8 7.3 76 170-257 2-79 (270)
466 KOG0498 K+-channel ERG and rel 37.3 46 0.00099 38.6 4.8 54 613-666 294-349 (727)
467 cd06308 PBP1_sensor_kinase_lik 36.5 1.2E+02 0.0026 30.5 7.5 77 170-257 2-82 (270)
468 cd08187 BDH Butanol dehydrogen 36.4 1.5E+02 0.0033 31.9 8.5 88 156-251 18-107 (382)
469 PRK00002 aroB 3-dehydroquinate 36.4 2.8E+02 0.0062 29.5 10.5 105 142-256 9-118 (358)
470 cd08465 PBP2_ToxR The C-termin 36.3 1.2E+02 0.0026 28.4 7.1 70 488-565 12-82 (200)
471 TIGR00854 pts-sorbose PTS syst 36.0 2.6E+02 0.0056 25.5 8.6 81 154-250 13-93 (151)
472 PF02602 HEM4: Uroporphyrinoge 36.0 1.1E+02 0.0025 29.8 7.1 93 148-255 97-190 (231)
473 cd06325 PBP1_ABC_uncharacteriz 36.0 3.8E+02 0.0083 26.7 11.3 115 33-164 130-247 (281)
474 cd08177 MAR Maleylacetate redu 35.6 79 0.0017 33.4 6.1 87 155-252 11-99 (337)
475 COG0078 ArgF Ornithine carbamo 35.4 5.1E+02 0.011 26.6 14.5 167 34-244 44-217 (310)
476 PF00072 Response_reg: Respons 35.4 1.6E+02 0.0035 24.4 7.1 59 184-257 9-70 (112)
477 PF13380 CoA_binding_2: CoA bi 35.4 51 0.0011 28.5 3.8 88 168-268 1-88 (116)
478 PRK09906 DNA-binding transcrip 35.3 4.9E+02 0.011 26.4 16.9 71 489-566 103-173 (296)
479 COG0552 FtsY Signal recognitio 35.3 3.3E+02 0.0071 28.5 9.9 121 140-271 137-269 (340)
480 cd06291 PBP1_Qymf_like Ligand 35.2 3.1E+02 0.0068 27.1 10.4 118 36-163 114-240 (265)
481 cd08178 AAD_C C-terminal alcoh 34.9 1.7E+02 0.0037 31.7 8.7 80 165-251 19-99 (398)
482 PRK11062 nhaR transcriptional 34.9 5.1E+02 0.011 26.4 14.5 74 488-565 105-178 (296)
483 PLN02821 1-hydroxy-2-methyl-2- 34.9 1.6E+02 0.0035 32.0 8.0 89 35-125 299-392 (460)
484 PRK10481 hypothetical protein; 34.4 1.9E+02 0.0041 28.4 7.9 83 35-128 130-213 (224)
485 PRK00856 pyrB aspartate carbam 34.4 5.5E+02 0.012 26.6 11.9 136 35-203 46-187 (305)
486 COG1609 PurR Transcriptional r 34.2 4.2E+02 0.0092 27.8 11.3 122 35-162 176-303 (333)
487 cd08175 G1PDH Glycerol-1-phosp 33.9 1.4E+02 0.003 31.7 7.7 88 156-251 12-101 (348)
488 cd00001 PTS_IIB_man PTS_IIB, P 33.8 2.9E+02 0.0063 25.2 8.6 81 154-250 12-92 (151)
489 PLN02522 ATP citrate (pro-S)-l 33.5 7.9E+02 0.017 28.3 13.8 207 33-267 37-259 (608)
490 cd01542 PBP1_TreR_like Ligand- 33.5 1.4E+02 0.003 29.6 7.4 76 170-257 2-79 (259)
491 cd06278 PBP1_LacI_like_2 Ligan 33.4 1.2E+02 0.0025 30.2 6.9 76 170-258 2-79 (266)
492 PF07881 Fucose_iso_N1: L-fuco 33.4 3.8E+02 0.0083 24.8 8.9 37 66-103 45-82 (171)
493 PRK09756 PTS system N-acetylga 33.3 3.1E+02 0.0067 25.2 8.7 80 154-250 17-97 (158)
494 cd01574 PBP1_LacI Ligand-bindi 33.1 1.7E+02 0.0037 29.0 8.0 77 170-257 2-80 (264)
495 PF04392 ABC_sub_bind: ABC tra 33.1 1.2E+02 0.0027 31.1 7.0 114 34-164 131-247 (294)
496 cd08447 PBP2_LTTR_aromatics_li 33.0 3.9E+02 0.0084 24.5 13.0 70 488-565 12-82 (198)
497 COG4521 TauA ABC-type taurine 32.9 2.5E+02 0.0054 27.7 8.1 64 673-739 122-189 (334)
498 cd06292 PBP1_LacI_like_10 Liga 32.8 1.6E+02 0.0036 29.4 7.9 78 170-258 2-85 (273)
499 PRK14987 gluconate operon tran 32.7 2.4E+02 0.0051 29.4 9.3 81 166-258 62-144 (331)
500 COG4143 TbpA ABC-type thiamine 32.6 3.8E+02 0.0082 27.8 9.8 147 1-194 1-153 (336)
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=6.4e-81 Score=630.11 Aligned_cols=679 Identities=19% Similarity=0.312 Sum_probs=550.2
Q ss_pred CCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCC--C--cEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEcCCc
Q 004136 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSR--N--HKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMET 106 (771)
Q Consensus 32 ~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~--g--~~i~l~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~ 106 (771)
+.+|.||.+||... .+...|+++|+...|.... . .++..++.. ...+......+.|+.. +++|.||+|-..
T Consensus 24 ~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~-s~Gv~Aifg~yd 99 (897)
T KOG1054|consen 24 PNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQF-SRGVYAIFGFYD 99 (897)
T ss_pred CCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHH-hhhHhhheeccc
Confidence 46799999999974 4567899999998887541 2 333333322 2257778888899988 899999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (771)
-.....+..+|...++|+|+++.. .+...++..++.|+ +-.++++++.||+|.++.++|+.+. | ....
T Consensus 100 ~ks~~~ltsfc~aLh~~~vtpsfp------~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~lyD~~r-g--~s~L 167 (897)
T KOG1054|consen 100 KKSVNTLTSFCGALHVSFVTPSFP------TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLYDTDR-G--LSIL 167 (897)
T ss_pred ccchhhhhhhccceeeeeecccCC------cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEEcccc-h--HHHH
Confidence 999999999999999999988765 34556899999998 5789999999999999999998876 5 7778
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+++-+.+.+++ +.|...-.-...+ ...++.+++.+...+.+-|++ .|..+....++.++-+.+-..++|+++.
T Consensus 168 qai~~~a~~~n-w~VtA~~v~~~~d-----~~~yr~~f~~l~~r~e~rv~i-Dce~~~~~~il~q~i~~~k~~~~YHYvl 240 (897)
T KOG1054|consen 168 QAIMEAAAQNN-WQVTAINVGNIND-----VKEYRMLFEMLDRRQENRVLI-DCESERRNRILLQVIELGKHVKGYHYVL 240 (897)
T ss_pred HHHHHHHHhcC-ceEEEEEcCCccc-----HHHHHHHHHHHhccccceEEE-EcccHHHHHHHHHHHHHhhhccceEEEE
Confidence 88888998889 8888764332222 145999999999888888888 8999998999999888888889999999
Q ss_pred eCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 267 TNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
.+......+. ........++.++.....++ |..++|.++|++.-..+++...+..+..-++.+|||++++++|++.+
T Consensus 241 aNl~f~d~dl--~~f~~g~aNitgFqivn~~~-~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~ 317 (897)
T KOG1054|consen 241 ANLGFTDIDL--ERFQHGGANITGFQIVNKNN-PMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSL 317 (897)
T ss_pred eeCCCchhhH--HHHhcCCcceeEEEEecCCC-hHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 8875433322 22234456788888877777 89999999999877667776656667778999999999999999987
Q ss_pred ccC--------------------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCC
Q 004136 347 NYN--------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFG 406 (771)
Q Consensus 347 ~~~--------------------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~ 406 (771)
..+ |..|..+.++|+++.++|+||.|.||..|.|.|.+.+|++++.++..++|.|+...+
T Consensus 318 ~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~ 397 (897)
T KOG1054|consen 318 RRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEG 397 (897)
T ss_pred HHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCc
Confidence 643 567888999999999999999999999999999999999999999999999999988
Q ss_pred CccccCCCccccccCccccCCCCcceecCCCCCCCCCCccccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcc
Q 004136 407 FSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLR 486 (771)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~p~~~~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~ 486 (771)
+....... . .++ +..-..+.+ +.|.+... .||+|.+++-+. ..| |++
T Consensus 398 fv~~~t~a------------~-------~~~-------d~~~~~n~t-vvvttiL~---spyvm~kkn~~~-~eg--n~r 444 (897)
T KOG1054|consen 398 FVPGSTVA------------Q-------SRN-------DQASKENRT-VVVTTILE---SPYVMLKKNHEQ-LEG--NER 444 (897)
T ss_pred eeeccccc------------c-------ccc-------cccccccce-EEEEEecC---CchhHHHhhHHH-hcC--Ccc
Confidence 76432110 0 000 001112333 34444433 357888876422 234 678
Q ss_pred cccchHHHHHHHHHHCCCcccEEEecC--------CCC-hHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccE
Q 004136 487 YDGFSIELFRLVVDHLNYDLPYEFVPH--------DGV-YDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGF 557 (771)
Q Consensus 487 ~~G~~~~l~~~~a~~l~f~~~~~~~~~--------~~~-~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~ 557 (771)
++|||+||+.+||+..+++|++.++.+ +++ |+||+++|..|++|++++++|||.+|++++|||.||+..|+
T Consensus 445 yEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGI 524 (897)
T KOG1054|consen 445 YEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGI 524 (897)
T ss_pred cceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCe
Confidence 999999999999999999987777744 455 99999999999999999999999999999999999999999
Q ss_pred EEEEecCCCC--CccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCc-------------ccchHHHHHHHHH
Q 004136 558 SMIVPAKQEE--STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT-------------LKDQISNILWFAF 622 (771)
Q Consensus 558 ~~~v~~~~~~--~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~ 622 (771)
+||+++|.+. +.|+|+.|+..++|+||+.+++.+++++++..|++|.+++.. ...++.||+|+++
T Consensus 525 SIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsL 604 (897)
T KOG1054|consen 525 SIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSL 604 (897)
T ss_pred EEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHH
Confidence 9999999765 799999999999999999999999999999999998776432 1235889999999
Q ss_pred HHhhccC-cccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhh-hCCceEEEecChHHHHHHHH
Q 004136 623 STIFFSH-RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLK-SGNLKVGCVDDSFVKKYLEE 700 (771)
Q Consensus 623 ~~~~~~~-~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~-~~~~~~g~~~~s~~~~~l~~ 700 (771)
++++||| -..|++.|+|++.++||||+|||+++||||||||||++++.+||+|.|||+ ++.+.+|+..+.....|++.
T Consensus 605 gAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~ 684 (897)
T KOG1054|consen 605 GAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRR 684 (897)
T ss_pred HHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhh
Confidence 9999999 457899999999999999999999999999999999999999999999998 56899999888888888876
Q ss_pred h--------cCCCC-CCcccCCCCHHHHHHHHHc-CCceEEEecchhHHHHHHh-cCCceeEeeeeeeceEEEEEecCCC
Q 004136 701 V--------LGFRS-GNIVPFGNTEANYIQKFEN-NTIDSLFLERPYEKVFLDK-YCKKYTAINTYRFGGLGFVSNIIYS 769 (771)
Q Consensus 701 ~--------~~~~~-~~~~~~~~~~~~~~~~v~~-~~~~a~i~~~~~~~~~~~~-~c~~l~~~~~~~~~~~g~~~~k~s~ 769 (771)
. ..++. .....|..+..|++++|++ ++.|||+.|++.-+|.-++ .|+.+++.+.+.+.+||+|.||||.
T Consensus 685 Skiavy~kMW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gss 764 (897)
T KOG1054|consen 685 SKIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSS 764 (897)
T ss_pred hhHHHHHHHHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCcc
Confidence 3 11111 1222233358999999995 4469999999999987765 6994444449999999999999995
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.4e-76 Score=601.30 Aligned_cols=657 Identities=20% Similarity=0.341 Sum_probs=540.2
Q ss_pred CCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEec--CCCCHHHHHHHHHHHHhcCCeEEEEc-C-Cch
Q 004136 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAG-M-ETW 107 (771)
Q Consensus 32 ~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D--~~~~~~~a~~~~~~li~~~~v~aviG-p-~~s 107 (771)
+++++||.++.-. ..++-+.-++.++|++.+..++.+.... ...++...+..+|+-+-+.+|.+|+- + ..|
T Consensus 33 p~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~Ts 107 (993)
T KOG4440|consen 33 PKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHGSWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPTS 107 (993)
T ss_pred ccceeeeeeeech-----hHHHHHHHHHHHhhccccceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEecCCCCC
Confidence 5889999998663 5677899999999988766777664433 44567777777665444788887764 2 222
Q ss_pred H---hHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCc
Q 004136 108 E---ETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS 183 (771)
Q Consensus 108 ~---~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~ 183 (771)
. .-.++.-.+..++||++..... +..+++ +-++.|.|+.|++..++....+.+++|.|++|.++.++|.-| +
T Consensus 108 ~d~f~p~~vSYT~gFY~iPV~G~~~R--da~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g--r 183 (993)
T KOG4440|consen 108 NDHFTPTPVSYTAGFYRIPVLGLTTR--DAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG--R 183 (993)
T ss_pred Ccccccccceeeccceeeeeeeeeeh--hhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc--h
Confidence 1 2234556778899999999988 889998 678999999999999999999999999999999999999888 7
Q ss_pred chHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004136 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (771)
Q Consensus 184 ~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (771)
.....++...++.. -++.....|.+.. .+++..|-.+|..++|++++ ..+.+++..+++.|..++|++++|+
T Consensus 184 a~~~r~qt~~e~~~-~~~e~v~~f~p~~------~~~t~~l~~~k~~~~rv~~~-~as~dDA~~ifr~Ag~lnmTG~G~V 255 (993)
T KOG4440|consen 184 AAQKRLQTLLEERE-SKAEKVLQFDPGT------KNVTALLMEAKELEARVIIL-SASEDDAATIFRAAGMLNMTGSGYV 255 (993)
T ss_pred hHHhHHHHHHHHHh-hhhhhheecCccc------chHHHHHhhhhhhhheeEEe-ecccchHHHHHHhhhhhcccCceEE
Confidence 77777877777665 5666666777776 57999999999999999999 9999999999999999999999999
Q ss_pred EEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
||.+..-... ....+|++|.......+ ..+..-|++.+++.|+
T Consensus 256 WiV~E~a~~~--------nn~PdG~LGlqL~~~~~-----------------------------~~~hirDsv~vlasAv 298 (993)
T KOG4440|consen 256 WIVGERAISG--------NNLPDGILGLQLINGKN-----------------------------ESAHIRDSVGVLASAV 298 (993)
T ss_pred EEEecccccc--------CCCCCceeeeEeecCcc-----------------------------ccceehhhHHHHHHHH
Confidence 9998763221 13458888887754433 1245679999999999
Q ss_pred HhhccC----------------CCChHHHHHHHHcCc-eeceeeeEEEeCCCCCCCCeEEEEEe-eCCceEEEEEecCCC
Q 004136 344 GRLNYN----------------ISSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELDFWLPNF 405 (771)
Q Consensus 344 ~~~~~~----------------~~~~~~l~~~l~~~~-f~G~tG~v~Fd~~g~~~~~~~~I~~~-~~~~~~~vg~w~~~~ 405 (771)
+++..+ |.++..+.+.+.... .+|.||+|.||++|+|....|+|+|+ ++.+.+.+|.|+...
T Consensus 299 ~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r 378 (993)
T KOG4440|consen 299 HELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTR 378 (993)
T ss_pred HHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcccccee
Confidence 987653 567888888888755 47999999999999999999999999 556666677776532
Q ss_pred CCccccCCCccccccCccccCCCCcceecCCCCCCCCCCccccCCCCCceEEEeccCCCccceEEeccC--C---CCCC-
Q 004136 406 GFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDD--P---LNGN- 479 (771)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~p~~~~~~~~~~~~~v~~~~~~~~~p~~~~~~~--~---~~~~- 479 (771)
... ++ .+|+|||+.+ +.|.+..+| +||||.+.+++|| +|.+.- + .+++
T Consensus 379 ---~~~-------------nd---~~IiWpGg~~-~KP~gi~~p---thLrivTi~~~PF---VYv~p~~sd~~c~eef~ 432 (993)
T KOG4440|consen 379 ---VIP-------------ND---RKIIWPGGET-EKPRGIQMP---THLRIVTIHQEPF---VYVKPTLSDGTCKEEFT 432 (993)
T ss_pred ---ecc-------------CC---ceeecCCCCc-CCCcccccc---ceeEEEEeccCCe---EEEecCCCCcchhhhcc
Confidence 111 11 5799999999 999999888 4899999999765 555421 1 0111
Q ss_pred -----------CC-C----------CCcccccchHHHHHHHHHHCCCcccEEEecC---------------C-CChHHHH
Q 004136 480 -----------SN-D----------KNLRYDGFSIELFRLVVDHLNYDLPYEFVPH---------------D-GVYDDLI 521 (771)
Q Consensus 480 -----------~g-~----------~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~---------------~-~~~~~~i 521 (771)
+| | ...||.||||||+.++++++||+|+..++.+ + -.|+|||
T Consensus 433 ~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~i 512 (993)
T KOG4440|consen 433 VNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMI 512 (993)
T ss_pred ccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhh
Confidence 11 0 0458999999999999999999988877754 1 2799999
Q ss_pred HHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCC-CccccccCCCHHHHHHHHHHHHHHHHhhhhhcc
Q 004136 522 NGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE-STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEH 600 (771)
Q Consensus 522 ~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~ 600 (771)
++|.++++||++++++|++||.++++||.||...|+.|+.+++... ...+|++||+..+|+++++++.++++++++++|
T Consensus 513 GEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDr 592 (993)
T KOG4440|consen 513 GELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDR 592 (993)
T ss_pred hhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999998776 567999999999999999999999999999999
Q ss_pred ccCccC-c-------CcccchHHHHHHHHHHHhhccC--cccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccC
Q 004136 601 QSNPEF-R-------GTLKDQISNILWFAFSTIFFSH--RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLE 670 (771)
Q Consensus 601 ~~~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~ 670 (771)
+++.+. . ......++.++|++||.+++.| ...|+|.|.|++..+|+=|++||+++|||||||||..++.+
T Consensus 593 fSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe 672 (993)
T KOG4440|consen 593 FSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPE 672 (993)
T ss_pred cCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCcc
Confidence 987552 1 1123469999999999999988 56789999999999999999999999999999999999999
Q ss_pred CCCCChhHhh----hCCceEEEecChHHHHHHHHhcC----CCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHH
Q 004136 671 PNVTDIQSLK----SGNLKVGCVDDSFVKKYLEEVLG----FRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (771)
Q Consensus 671 ~~i~~~~dL~----~~~~~~g~~~~s~~~~~l~~~~~----~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~ 742 (771)
..++++.|-. ..++.++++++|....|+++... ++...-..|.+ -+|++++|++|+.+|||.|+.-++|..
T Consensus 673 ~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~-A~eAiq~v~~gkL~AFIWDS~rLEfEA 751 (993)
T KOG4440|consen 673 ERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYES-AAEAIQAVRDGKLHAFIWDSARLEFEA 751 (993)
T ss_pred ccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhh-HHHHHHHHHcCceeEEEeecceeeehh
Confidence 9999999964 45789999999999999988522 12223345676 999999999999999999999999999
Q ss_pred HhcCCceeEee-eeeeceEEEEEecCCCC
Q 004136 743 DKYCKKYTAIN-TYRFGGLGFVSNIIYSH 770 (771)
Q Consensus 743 ~~~c~~l~~~~-~~~~~~~g~~~~k~s~~ 770 (771)
+++|+ |...| .|...+|||+++|+||-
T Consensus 752 s~~Ce-LvT~GeLFgRSgyGIGlqK~SPW 779 (993)
T KOG4440|consen 752 SQKCE-LVTTGELFGRSGYGIGLQKDSPW 779 (993)
T ss_pred hcccc-eEeccccccccccccccccCCCC
Confidence 99999 88888 99999999999999984
No 3
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.7e-72 Score=589.94 Aligned_cols=622 Identities=19% Similarity=0.348 Sum_probs=495.9
Q ss_pred EEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchH---hHHHHHHhhccCCccEEeecCCCCCCCc-cCC-CCceEEEe
Q 004136 73 LQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE---ETAVVAEIASRVQVPILSFAAPAVTPLS-MSR-RWPYLIRM 147 (771)
Q Consensus 73 l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~---~~~~v~~~~~~~~iP~Is~~a~~~~~~l-~~~-~~p~~fr~ 147 (771)
+...++ .||..-+.++|+++..++|.+|+--..|. .++.+--+.....||+|+..+. +... +++ ....++++
T Consensus 77 ~l~~N~-tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg--~a~~~~~kd~gs~flQl 153 (1258)
T KOG1053|consen 77 LLPMNT-TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGG--AAMVLTPKDLGSTFLQL 153 (1258)
T ss_pred EeecCC-CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecC--ccceecCCCCcceEEEe
Confidence 344444 79999999999999999999777554444 3333445677889999999877 4443 343 33479999
Q ss_pred ecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc--cCCeEEEEeeecCCCCCCCCchHHHHHHHH
Q 004136 148 ASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELK 225 (771)
Q Consensus 148 ~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~--~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~ 225 (771)
.|+.++|++++.++|+.|+|..++++....++. ..+...+++.... .| +++.......... .| .......
T Consensus 154 g~Sieqqa~Vml~iL~~ydW~~Fs~vtt~~pg~--~~f~~~ir~~~d~s~vg-we~i~v~~l~~s~--~d---~~a~~q~ 225 (1258)
T KOG1053|consen 154 GPSIEQQAQVMLKILEEYDWYNFSLVTTQFPGN--RTFVSLIRQTNDNSHVG-WEMINVLTLDPST--DD---LLAKLQA 225 (1258)
T ss_pred CCcHHHHHHHHHHHHHHcCcceeEEEEeecCch--HHHHHHHHHhhhhcccc-ceeeeeeecCCCC--Cc---hHHHHHH
Confidence 999999999999999999999999999998865 7777877777654 45 6666655555444 11 2233334
Q ss_pred HhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHH
Q 004136 226 KVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEF 305 (771)
Q Consensus 226 ~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f 305 (771)
++++.++.||++ .|+.+++..++.+|.+.|+++++|.||.+....+.. +.....-.|.+.+.....
T Consensus 226 qLkki~a~Vill-yC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~~----~~pa~~P~GLisv~~~~w--------- 291 (1258)
T KOG1053|consen 226 QLKKIQAPVILL-YCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGLE----PRPAEFPLGLISVSYDTW--------- 291 (1258)
T ss_pred HHHhcCCcEEEE-EecHHHHHHHHHHHHhcCCcCCceEEEeehhccCCC----CCCccCccceeeeeccch---------
Confidence 555667889999 999999999999999999999999999977655420 111123345444432211
Q ss_pred HHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC------------------CCChHHHHHHHHcCceec
Q 004136 306 SALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN------------------ISSPEMLLRQMLSSDFSG 367 (771)
Q Consensus 306 ~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~------------------~~~~~~l~~~l~~~~f~G 367 (771)
...+.+..-|++.+++.|...+... ...++.+.++|.|+.|+|
T Consensus 292 -------------------~~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g 352 (1258)
T KOG1053|consen 292 -------------------RYSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG 352 (1258)
T ss_pred -------------------hhhHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc
Confidence 1124466788999999988876542 246788999999999999
Q ss_pred eeeeEEEeCCCCCCCCeEEEEEee-CCceEEEEEecCCCCCccccCCCccccccCccccCCCCcceecCCCCCCCCCCcc
Q 004136 368 LSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGW 446 (771)
Q Consensus 368 ~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~p~~~ 446 (771)
+.++|+++|-..++..-|+.+. +..|.+||.|..+. +. | .-.+||.- .+..+
T Consensus 353 --~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~-------------------M-~y~vWPr~----~~~~q 405 (1258)
T KOG1053|consen 353 --RDLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LV-------------------M-KYPVWPRY----HKFLQ 405 (1258)
T ss_pred --cceeecCCceeeccceEEEecCCCcchheeceecCCe-EE-------------------E-eccccccc----cCccC
Confidence 8999999999998888888774 57899999998865 22 3 34689943 22333
Q ss_pred ccCCCCCceEEEeccCCCccceEEecc-CCCCC-C----------------CC---CC--CcccccchHHHHHHHHHHCC
Q 004136 447 AMPSNQEPMRIGVPTRTFFEKFVVIKD-DPLNG-N----------------SN---DK--NLRYDGFSIELFRLVVDHLN 503 (771)
Q Consensus 447 ~~~~~~~~~~v~~~~~~~~~p~~~~~~-~~~~~-~----------------~g---~~--~~~~~G~~~~l~~~~a~~l~ 503 (771)
+.+ ...|++|++.+++|| +...+ |+... . .+ |. +.||+||||||+++||+..|
T Consensus 406 ~~~-d~~HL~VvTLeE~PF---Vive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~ 481 (1258)
T KOG1053|consen 406 PVP-DKLHLTVVTLEERPF---VIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVK 481 (1258)
T ss_pred CCC-CcceeEEEEeccCCe---EEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcC
Confidence 333 556999999998765 44432 43211 0 11 11 56999999999999999999
Q ss_pred CcccEEEecC-------CCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCC-CccccccC
Q 004136 504 YDLPYEFVPH-------DGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE-STWMFTKP 575 (771)
Q Consensus 504 f~~~~~~~~~-------~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~-~~~~~~~p 575 (771)
|+|+++++.+ ||.|+|||++|..+++||++++++|+.||.++||||.||.++|+.+||++.+.. ++.+|+.|
T Consensus 482 FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLeP 561 (1258)
T KOG1053|consen 482 FTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEP 561 (1258)
T ss_pred cceEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCC
Confidence 9988888854 789999999999999999999999999999999999999999999999998887 89999999
Q ss_pred CCHHHHHHHHHHHHHHH-HhhhhhccccCccCcCc---------ccchHHHHHHHHHHHhhccC--cccccchhhHHHHH
Q 004136 576 FTWEMWMVTAASFIYTM-FIVWLLEHQSNPEFRGT---------LKDQISNILWFAFSTIFFSH--RANIQSNLTRVVVV 643 (771)
Q Consensus 576 F~~~vW~~i~~~~~~~~-~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~--~~~~~~~s~Rl~~~ 643 (771)
|++.||+++++++++++ +.+++++++++..+... ...+++.++|..|+.+|+.+ .+.|+++.+|++..
T Consensus 562 fs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~ 641 (1258)
T KOG1053|consen 562 FSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVL 641 (1258)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHH
Confidence 99999999998888774 66678899887665322 13468999999999999988 77889999999999
Q ss_pred HHHHHHHHHHHHhhcccccceeecccCCCCCChhHhh-----hC--CceEEEecChHHHHHHHHhcCCCCCCcccCCC-C
Q 004136 644 LWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLK-----SG--NLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGN-T 715 (771)
Q Consensus 644 ~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~-----~~--~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~-~ 715 (771)
+|.||++++.++|||||||||..+++...+.++.|-+ ++ .+++|++.++..+.++++++..+.+.++.|+. .
T Consensus 642 VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~ 721 (1258)
T KOG1053|consen 642 VWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPG 721 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCc
Confidence 9999999999999999999999999999999999974 22 78999999999999999987777777777764 5
Q ss_pred HHHHHHHHHcCCceEEEecchhHHHHHHh--cCCceeEee---eeeeceEEEEEecCCCC
Q 004136 716 EANYIQKFENNTIDSLFLERPYEKVFLDK--YCKKYTAIN---TYRFGGLGFVSNIIYSH 770 (771)
Q Consensus 716 ~~~~~~~v~~~~~~a~i~~~~~~~~~~~~--~c~~l~~~~---~~~~~~~g~~~~k~s~~ 770 (771)
.+|+++.||+|+.||||+|...+.|...+ .|+ |..+| .|..++|||++|||||.
T Consensus 722 v~dal~sLK~gKLDAFIyDaAVLnY~agkDegCK-LvTIGsgKvFAttGYGIal~k~Spw 780 (1258)
T KOG1053|consen 722 VEDALESLKNGKLDAFIYDAAVLNYMAGKDEGCK-LVTIGSGKVFATTGYGIALPKNSPW 780 (1258)
T ss_pred hHHHHHHHhcccchhHHHHHHHHHHhhccCCCce-EEEecCCceeeecceeeecCCCCcc
Confidence 89999999999999999999999999876 599 55554 99999999999999985
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=4.1e-51 Score=470.81 Aligned_cols=502 Identities=28% Similarity=0.500 Sum_probs=416.8
Q ss_pred HHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccC-hhhhhccccEEEEEeeccCCChhH
Q 004136 224 LKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLN-TTVISSMEGTLGIKSYYSDDSSPY 302 (771)
Q Consensus 224 l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~ 302 (771)
+..++....+++++ .+.+..+..++.++.++||....|+|+.+.......+... ....+...+.+....+.+.. ...
T Consensus 6 ~~~~~~~~~~~~v~-~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s-~~~ 83 (656)
T KOG1052|consen 6 LLKLKAMRTRVFVL-HMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRS-ELL 83 (656)
T ss_pred HHHhhccCceEEEE-eCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCcc-HHH
Confidence 34455567888888 7779999999999999999999999999987765544433 22334555666666555554 456
Q ss_pred HHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc------------CCCChHHHHHHHHcCcee---c
Q 004136 303 KEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------------NISSPEMLLRQMLSSDFS---G 367 (771)
Q Consensus 303 ~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------------~~~~~~~l~~~l~~~~f~---G 367 (771)
+.|..+++.. +...+..+..+||++++++.|++.... .|.++..+.+.++..... |
T Consensus 84 ~~~~~~~~~~---------~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (656)
T KOG1052|consen 84 QNFVTRWQTS---------NVELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLSG 154 (656)
T ss_pred HHHHHHHhhc---------cccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcccc
Confidence 6666666554 123567889999999999999988762 145677788887775443 4
Q ss_pred eeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCCccccCCCccccccCccccCCCCcceecCCCCCCCCCCccc
Q 004136 368 LSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWA 447 (771)
Q Consensus 368 ~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~p~~~~ 447 (771)
.+|.+.++.++.+....++|+++.+.+...||.|++..| +.|.||+... .+|+++.
T Consensus 155 ~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~~-~~~~~~~ 210 (656)
T KOG1052|consen 155 VTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKDY-FVPKGWF 210 (656)
T ss_pred ceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCcc-cCcCCcc
Confidence 567788887888888999999998888888999999763 3589999998 9999998
Q ss_pred cCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecC-------CCChHHH
Q 004136 448 MPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH-------DGVYDDL 520 (771)
Q Consensus 448 ~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~-------~~~~~~~ 520 (771)
.+.++++++|++...+|| .+..++. . ..++++++.|+|+||++++++++||+++++.+++ +|+|+|+
T Consensus 211 ~~~~~~~l~v~~~~~~P~---~~~~~~~-~--~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~ 284 (656)
T KOG1052|consen 211 FPTNGKPLRVGVVTEPPF---VDLVEDL-A--ILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGL 284 (656)
T ss_pred ccCCCceEEEEEeccCCc---eeeeecc-c--ccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHH
Confidence 888899999999998875 3433332 0 1123558999999999999999999998888765 2689999
Q ss_pred HHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCC-ccccccCCCHHHHHHHHHHHHHHHHhhhhhc
Q 004136 521 INGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES-TWMFTKPFTWEMWMVTAASFIYTMFIVWLLE 599 (771)
Q Consensus 521 i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~-~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~ 599 (771)
+++|.+|++|++ ++++++.+|++++|||.||++.++.+++++++... .|.|++||++.||++++++++++++++|+++
T Consensus 285 v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~ 363 (656)
T KOG1052|consen 285 VGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILE 363 (656)
T ss_pred HHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999 99999999999999999999999999999998764 6999999999999999999999999999999
Q ss_pred cccCccCcCc----ccchHHHHHHHHHHHhhccC-cccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCC
Q 004136 600 HQSNPEFRGT----LKDQISNILWFAFSTIFFSH-RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVT 674 (771)
Q Consensus 600 ~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~ 674 (771)
|+.+.+++.. ....+.+++|.+++++++|+ ...|++.++|++.++||||+++++++|||+|+|+||.+++.++|+
T Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~ 443 (656)
T KOG1052|consen 364 RLSPYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPID 443 (656)
T ss_pred ccccccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCccc
Confidence 9887776111 11235678999999999998 667899999999999999999999999999999999999999999
Q ss_pred ChhHhh-hCCceEEEecChHHHHHHHHh---cCCCCC-CcccCCCCHHHHHHHHHcCC--ceEEEecchhHHHHHHhc--
Q 004136 675 DIQSLK-SGNLKVGCVDDSFVKKYLEEV---LGFRSG-NIVPFGNTEANYIQKFENNT--IDSLFLERPYEKVFLDKY-- 745 (771)
Q Consensus 675 ~~~dL~-~~~~~~g~~~~s~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~~v~~~~--~~a~i~~~~~~~~~~~~~-- 745 (771)
+++||+ +++.++|...+++...++++. ..+... ....+.+ .+|+++++++|. .++++.+...+.+...++
T Consensus 444 ~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 522 (656)
T KOG1052|consen 444 SLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLAS-PEEGVERVRKGPSGGYAFASDELYLAYLFLRDEI 522 (656)
T ss_pred CHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCC-HHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCC
Confidence 999999 589999999999999999885 334444 5556777 999999999995 589999999988887776
Q ss_pred CCceeEee-eeeeceEEEEEecCCCC
Q 004136 746 CKKYTAIN-TYRFGGLGFVSNIIYSH 770 (771)
Q Consensus 746 c~~l~~~~-~~~~~~~g~~~~k~s~~ 770 (771)
|+ ++.++ .+...+|| ++|||||+
T Consensus 523 c~-~~~v~~~~~~~~~~-~~~~~Spl 546 (656)
T KOG1052|consen 523 CD-LTEVGEPFLYKGYG-AFPKGSPL 546 (656)
T ss_pred Cc-eEEeCCcccCCCcc-eecCCCcc
Confidence 87 99999 99999999 99999997
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=5.8e-43 Score=377.39 Aligned_cols=330 Identities=20% Similarity=0.251 Sum_probs=283.4
Q ss_pred CchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhc------------------CCeEEEEcCCc
Q 004136 47 MGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINK------------------EKVKVIAGMET 106 (771)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~------------------~~v~aviGp~~ 106 (771)
.|.+...|+.+|+|+||+++ +|++|+++++|+|+++..|+..+.+|+++ ++|.+||||.+
T Consensus 33 ~g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 33 KGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 47889999999999999998 79999999999999999999999999964 58999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
|..+.+++++++.++||+|+++++ ++.+++ .+|||+||+.|++..+++++++++++++|++|++|+.+++|| +..
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~at--s~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG--~~~ 188 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYAST--AEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYG--RSA 188 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcC--CcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchH--HHH
Confidence 999999999999999999999999 999997 689999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCC-chHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISD-PKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d-~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (771)
.+.|++++++.| +||+..+.++......+ ...++..+++.+++.++|+||+ .+...++..++++|+++|+ + ++|
T Consensus 189 ~~~f~~~~~~~G-icIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv-~~~~~~~~~l~~~a~~~g~-~--~~w 263 (403)
T cd06361 189 LETFIIQAEANG-VCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV-FARQFHVFLLFNKAIERNI-N--KVW 263 (403)
T ss_pred HHHHHHHHHHCC-eEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE-EeChHHHHHHHHHHHHhCC-C--eEE
Confidence 999999999999 99999988876532111 1135666667788889999999 9999999999999999999 3 699
Q ss_pred EeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHH
Q 004136 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (771)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~ 344 (771)
|+++.|................|++++.+..... +.|.+.+++.+ ...+||||+++|+||+
T Consensus 264 igs~~w~~~~~~~~~~~~~~~~g~ig~~~~~~~~----~~F~~~~~~~~---------------~~~v~~AVyaiA~Al~ 324 (403)
T cd06361 264 IASDNWSTAKKILTDPNVKKIGKVVGFTFKSGNI----SSFHQFLKNLL---------------IHSIQLAVFALAHAIR 324 (403)
T ss_pred EEECcccCccccccCCcccccceEEEEEecCCcc----chHHHHHHHhh---------------HHHHHHHHHHHHHHHH
Confidence 9999997644443333335677889988866544 44444444432 3457999999999999
Q ss_pred hhcc-------CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCC----ceEEEEEecCCC
Q 004136 345 RLNY-------NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGK----KYKELDFWLPNF 405 (771)
Q Consensus 345 ~~~~-------~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~----~~~~vg~w~~~~ 405 (771)
+++. ...++++|+++|++++|+|.+|++.||++|+.. ..|+|++++++ .|++||.|++.+
T Consensus 325 ~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~~-~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 325 DLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDLN-LGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred HhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCCC-cceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 9872 136899999999999999998899999999974 79999999862 489999999876
No 6
>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=3.6e-42 Score=368.80 Aligned_cols=338 Identities=39% Similarity=0.695 Sum_probs=298.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
|||+++|+| +..|.....|+++|+++||+++ +|++|+++++|++++|..+++.+++|+.+++|.+||||.+|..+.
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~ 80 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAE 80 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHH
Confidence 699999999 7789999999999999999997 589999999999999999999999999777999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
+++++++.+++|+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|+++++|+.+++|| ....+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~~ 156 (350)
T cd06366 81 FVAEVANEWNVPVLSFAAT--SPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYG--SGGLPDLV 156 (350)
T ss_pred HHHHHhhcCCeeEEeccCC--CccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCccc--chhHHHHH
Confidence 9999999999999999999 888855 678999999999999999999999999999999999999999 99999999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+.+++.| ++|+..+.++.... .+|+..+++++++.++|+|++ ++...++..++++++++|+..+.|+|+.++.+
T Consensus 157 ~~~~~~g-~~v~~~~~~~~~~~----~~d~~~~l~~i~~~~~dvvi~-~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 230 (350)
T cd06366 157 DALQEAG-IEISYRAAFPPSAN----DDDITDALKKLKEKDSRVIVV-HFSPDLARRVFCEAYKLGMMGKGYVWILTDWL 230 (350)
T ss_pred HHHHHcC-CEEEEEeccCCCCC----hhHHHHHHHHHhcCCCeEEEE-ECChHHHHHHHHHHHHcCCcCCCEEEEECcch
Confidence 9999999 99999888876521 168999999999999999999 99999999999999999999888999998876
Q ss_pred cccc----cccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 271 ANAL----DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 271 ~~~~----~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
...+ ........+..+|++++.++.+..++.+++|.++|++++....+. ...|+.+++.+|||+++
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~-------- 300 (350)
T cd06366 231 SSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA-------- 300 (350)
T ss_pred hhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee--------
Confidence 5432 122233446788999988877663378999999999998543211 22477889999999998
Q ss_pred ccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCCc
Q 004136 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (771)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~ 408 (771)
+.+|+|++|+++||++|++.+..++++++.++++++||.|++..|+.
T Consensus 301 ---------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 ---------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred ---------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 46899999999999999998899999999999999999999987664
No 7
>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=4e-42 Score=380.71 Aligned_cols=361 Identities=19% Similarity=0.301 Sum_probs=299.6
Q ss_pred CcEEEEEEEeCCC-------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhc-
Q 004136 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK- 95 (771)
Q Consensus 33 ~~I~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~- 95 (771)
+++.||++||.+. ..|.....|+++|+++||+++ +|++|++.++|+|+++..+++.+.+++.+
T Consensus 1 Gd~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~ 80 (452)
T cd06362 1 GDIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRAS 80 (452)
T ss_pred CCeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhh
Confidence 3589999999982 367888999999999999998 69999999999999999999999988843
Q ss_pred ---------------------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHH
Q 004136 96 ---------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSE 153 (771)
Q Consensus 96 ---------------------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~ 153 (771)
++|.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..|||+||+.|++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~st--s~~ls~~~~~~~~fR~~p~d~~ 158 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYAST--SPELSDKTRYDYFSRTVPPDSF 158 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccC--chhhccccccCCEEEecCChHH
Confidence 58999999999999999999999999999999999 888887 689999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-CCc
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQS 232 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~ 232 (771)
++.++++++++++|++|++|+++++|| ....+.+.+.+++.| ++|+..+.++.... ..++..+++++++ .++
T Consensus 159 ~~~a~~~~l~~~~w~~vaii~~~~~~G--~~~~~~~~~~~~~~g-i~i~~~~~~~~~~~----~~d~~~~l~~l~~~~~a 231 (452)
T cd06362 159 QAQAMVDIVKAFNWTYVSTVASEGNYG--EKGIEAFEKLAAERG-ICIAGSEKIPSSAT----EEEFDNIIRKLLSKPNA 231 (452)
T ss_pred HHHHHHHHHHHCCCcEEEEEEeCCHHH--HHHHHHHHHHHHHCC-eeEEEEEEcCCCCC----HHHHHHHHHHHhhcCCC
Confidence 999999999999999999999999999 999999999999999 99998888765321 1689999999987 479
Q ss_pred eEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHH---
Q 004136 233 RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALF--- 309 (771)
Q Consensus 233 ~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~--- 309 (771)
|+|++ .+...++..++++|+++|+++ .+.||+++.|....... .......+|++++.+..... +.+++|.+..
T Consensus 232 ~viil-~~~~~~~~~~~~~a~~~g~~~-~~~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i-~~f~~~l~~l~~~ 307 (452)
T cd06362 232 RVVVL-FCREDDIRGLLAAAKRLNAEG-HFQWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEV-PGFDEYFLSLTPE 307 (452)
T ss_pred eEEEE-EcChHHHHHHHHHHHHcCCcC-ceEEEEeccccccchhh-cccccccceEEEEEeccccc-ccHHHHhhhCCcC
Confidence 99999 999999999999999999984 47999999886532221 23346788888887766554 4555544221
Q ss_pred -------HHh-----cccCCCCCCC----------------CCCchhhhhHhHHHHHHHHHHHhhcc-------------
Q 004136 310 -------RRN-----FTSEYPEEDH----------------FHPSIHALRAHDSIKIITEAIGRLNY------------- 348 (771)
Q Consensus 310 -------~~~-----~~~~~~~~~~----------------~~~~~~a~~~YDav~~~a~Al~~~~~------------- 348 (771)
... +.+....... ...+.+++++||||+++|+||+++..
T Consensus 308 ~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~ 387 (452)
T cd06362 308 NNSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAM 387 (452)
T ss_pred cCCCChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCc
Confidence 222 2221111000 11345789999999999999998752
Q ss_pred CCCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEeeC----CceEEEEEecCCCCC
Q 004136 349 NISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFGF 407 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~~~----~~~~~vg~w~~~~~~ 407 (771)
.+.++..|.++|++++|.|++| +|.||++|++. ..|+|++++. .++++||.|+++.|+
T Consensus 388 ~~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 388 KPIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred cCCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1357899999999999999998 89999999987 6999999973 469999999887654
No 8
>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=8.2e-42 Score=378.60 Aligned_cols=360 Identities=19% Similarity=0.264 Sum_probs=301.8
Q ss_pred CCCcEEEEEEEeCCC----------------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHH
Q 004136 31 IEEVTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQA 85 (771)
Q Consensus 31 ~~~~I~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a 85 (771)
.++.|.||++||.+. ..|.+...|+.+|+++||+++ |+++|++.++|+|+++..+
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 357899999999982 468899999999999999988 6889999999999999999
Q ss_pred HHHHHHHHhcCC------------------eEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEE
Q 004136 86 ATAAQELINKEK------------------VKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIR 146 (771)
Q Consensus 86 ~~~~~~li~~~~------------------v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr 146 (771)
++.+.+++.+++ +.+||||.+|..+.+++++++.++||+|+++++ ++.+++ ..||++||
T Consensus 89 ~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~ss--s~~ls~~~~yp~ffR 166 (510)
T cd06364 89 LEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASS--SRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccC--CcccCCccccCCeeE
Confidence 999999986544 469999999999999999999999999999999 888887 68999999
Q ss_pred eecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHH
Q 004136 147 MASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (771)
Q Consensus 147 ~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~ 226 (771)
+.|++..+++++++++++++|++|++|+.+++|| +...+.|++.+++.| +||+..+.++... +..++.+++.+
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG--~~~~~~~~~~~~~~G-i~I~~~~~i~~~~----~~~d~~~~l~k 239 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYG--RPGIEKFREEAEERD-ICIDFSELISQYS----DEEEIQRVVEV 239 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcch--HHHHHHHHHHHHHCC-cEEEEEEEeCCCC----CHHHHHHHHHH
Confidence 9999999999999999999999999999999999 999999999999999 9999887776532 12689999999
Q ss_pred hhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHH
Q 004136 227 VQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFS 306 (771)
Q Consensus 227 l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~ 306 (771)
++++++|+||+ .+...++..++++|+++|+.++ +||+++.|............+.+.|++++.+..... +.+++|+
T Consensus 240 lk~~~a~vVvl-~~~~~~~~~ll~qa~~~g~~~~--iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i-~~f~~~l 315 (510)
T cd06364 240 IQNSTAKVIVV-FSSGPDLEPLIKEIVRRNITGK--IWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQI-PGFREFL 315 (510)
T ss_pred HHhcCCeEEEE-EeCcHHHHHHHHHHHHhCCCCc--EEEEEchhhcccccccCCccceeeEEEEEEECCCcC-ccHHHHH
Confidence 99999999999 9999999999999999999876 999999887544443344557788999998877666 5666666
Q ss_pred HHH---------------HHhcccCCCC----------------------------CCCCC----------------Cch
Q 004136 307 ALF---------------RRNFTSEYPE----------------------------EDHFH----------------PSI 327 (771)
Q Consensus 307 ~~~---------------~~~~~~~~~~----------------------------~~~~~----------------~~~ 327 (771)
+.. ...|.+..+. ...|. ...
T Consensus 316 ~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~ 395 (510)
T cd06364 316 QKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLR 395 (510)
T ss_pred HhCCcccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchh
Confidence 552 3333322110 00110 123
Q ss_pred hhhhHhHHHHHHHHHHHhhccC----------------CCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEe
Q 004136 328 HALRAHDSIKIITEAIGRLNYN----------------ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNV 390 (771)
Q Consensus 328 ~a~~~YDav~~~a~Al~~~~~~----------------~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~ 390 (771)
++...||||+++|+||+++..| ..++++|.++|++++|.|.+| +|.||++|+.. ..|+|+|+
T Consensus 396 ~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~-~~YdI~n~ 474 (510)
T cd06364 396 ISYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLV-GNYSIINW 474 (510)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCc-cceeEEEe
Confidence 4678999999999999998633 135889999999999999988 89999999986 89999999
Q ss_pred eC----C--ceEEEEEecCC
Q 004136 391 VG----K--KYKELDFWLPN 404 (771)
Q Consensus 391 ~~----~--~~~~vg~w~~~ 404 (771)
+. + .+++||.|++.
T Consensus 475 q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 475 HLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eecCCCCcEEEEEEEEEcCC
Confidence 83 2 37899999864
No 9
>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=5.4e-42 Score=379.82 Aligned_cols=358 Identities=19% Similarity=0.296 Sum_probs=297.0
Q ss_pred CCcEEEEEEEeCCC-----------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHH
Q 004136 32 EEVTKIGAIVDANS-----------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQE 91 (771)
Q Consensus 32 ~~~I~IG~i~p~s~-----------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~ 91 (771)
++.|.||++||.+. ..|.+...|+.+|+++||+++ ||++|++.++|+|+++..|++.+.+
T Consensus 7 ~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~ 86 (472)
T cd06374 7 DGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSIE 86 (472)
T ss_pred cCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHHH
Confidence 57899999999982 257889999999999999998 8999999999999999999999999
Q ss_pred HHh-------------------------cCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEE
Q 004136 92 LIN-------------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLI 145 (771)
Q Consensus 92 li~-------------------------~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~f 145 (771)
++. +.+|.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..|||+|
T Consensus 87 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~at--s~~ls~~~~~p~~f 164 (472)
T cd06374 87 FIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSAT--SIDLSDKTLFKYFL 164 (472)
T ss_pred HHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccC--chhhcccccCCceE
Confidence 985 248999999999999999999999999999999999 888987 5799999
Q ss_pred EeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHH
Q 004136 146 RMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELK 225 (771)
Q Consensus 146 r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~ 225 (771)
|+.|++..++.++++++++|+|++|++|+++++|| ....+.+++.+++.| ++|+..+.++.... ..++..++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~~----~~d~~~~l~ 237 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYG--ESGMEAFKELAAHEG-LCIAHSDKIYSNAG----EQSFDRLLR 237 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCCc----hHHHHHHHH
Confidence 99999999999999999999999999999999999 999999999999999 99998887754321 167999999
Q ss_pred HhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHH
Q 004136 226 KVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYK 303 (771)
Q Consensus 226 ~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 303 (771)
++++. ++++|++ .+...+++.++++++++|+.+ .++||+++.|........ ...+..+|++++.++.+.. +.++
T Consensus 238 ~lk~~~~da~vvv~-~~~~~~~~~~l~~a~~~g~~~-~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~~-~~F~ 313 (472)
T cd06374 238 KLRSRLPKARVVVC-FCEGMTVRGLLMAMRRLGVGG-EFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPEV-PSFD 313 (472)
T ss_pred HHHhcCCCcEEEEE-EechHHHHHHHHHHHHhcCCC-ceEEEEecccccchHhhh-cchhhhheeEEEEecCCCC-ccHH
Confidence 99975 4556666 678888999999999999974 479999998875322222 3346789999998887766 5677
Q ss_pred HHHHH---------------HHHhcccCCCC---CC-----CC----------CCchhhhhHhHHHHHHHHHHHhhccC-
Q 004136 304 EFSAL---------------FRRNFTSEYPE---ED-----HF----------HPSIHALRAHDSIKIITEAIGRLNYN- 349 (771)
Q Consensus 304 ~f~~~---------------~~~~~~~~~~~---~~-----~~----------~~~~~a~~~YDav~~~a~Al~~~~~~- 349 (771)
+|... |+..|.+..+. .. .+ ....+++++||||+++|+||+++..+
T Consensus 314 ~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~ 393 (472)
T cd06374 314 DYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDL 393 (472)
T ss_pred HHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhh
Confidence 76543 33333332210 00 01 11245679999999999999987521
Q ss_pred ------------CCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEeeC-----CceEEEEEecC
Q 004136 350 ------------ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (771)
Q Consensus 350 ------------~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~~~-----~~~~~vg~w~~ 403 (771)
+.++..|.++|++++|+|++| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 394 ~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 394 CPGHVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 246889999999999999999 89999999987 6999999984 46899999975
No 10
>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=4.1e-42 Score=378.82 Aligned_cols=358 Identities=17% Similarity=0.227 Sum_probs=297.2
Q ss_pred cEEEEEEEeCCC----------------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHH
Q 004136 34 VTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATA 88 (771)
Q Consensus 34 ~I~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~ 88 (771)
.|.||++||.+. ..|.+...|+.+|+++||++. ||++|++.++|+|+++..+++.
T Consensus 2 di~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~ 81 (469)
T cd06365 2 DLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALES 81 (469)
T ss_pred CeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHH
Confidence 578888888861 347788999999999999887 8999999999999999999999
Q ss_pred HHHHHhc-------------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHH
Q 004136 89 AQELINK-------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQ 154 (771)
Q Consensus 89 ~~~li~~-------------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~ 154 (771)
+.+++.. .++.++|||.+|..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..+
T Consensus 82 ~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~st--s~~lsd~~~yp~ffRt~psd~~q 159 (469)
T cd06365 82 SLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPF--DPLLSDRVQFPSLYQMAPKDTSL 159 (469)
T ss_pred HHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccC--CccccchhhCCcceEecCCchhH
Confidence 9999853 57999999999999999999999999999999998 889987 6789999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
+.++++++++|+|++|++|+.+++|| ....+.|.+++++.| +||+..+.++...... ..++..++++++++++|+
T Consensus 160 ~~ai~~li~~f~W~~Vaiv~~d~~yg--~~~~~~~~~~~~~~g-i~I~~~~~i~~~~~~~--~~~~~~~l~~i~~~~arv 234 (469)
T cd06365 160 PLGMVSLMLHFSWTWVGLVISDDDRG--EQFLSDLREEMQRNG-ICLAFVEKIPVNMQLY--LTRAEKYYNQIMTSSAKV 234 (469)
T ss_pred HHHHHHHHHhcCCeEEEEEEecChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCchhh--HHHHHHHHHHhhcCCCeE
Confidence 99999999999999999999999999 999999999999999 9999988887654211 136888999999999999
Q ss_pred EEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHH----
Q 004136 235 FIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFR---- 310 (771)
Q Consensus 235 Iv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~---- 310 (771)
||+ .++.+++..++.++.+++..+ ++||+++.|...... .....+.++|++++.++.+.. |.+++|.+++.
T Consensus 235 Ivl-~~~~~~~~~l~~~~~~~~~~~--~~wi~s~~w~~~~~~-~~~~~~~~~G~lg~~~~~~~~-~~f~~fl~~l~~~~~ 309 (469)
T cd06365 235 III-YGDTDSLLEVSFRLWQYLLIG--KVWITTSQWDVTTSP-KDFTLNSFHGTLIFSHHHSEI-PGFKDFLQTVNPSKY 309 (469)
T ss_pred EEE-EcCcHHHHHHHHHHHHhccCc--eEEEeeccccccccc-cccccceeeEEEEEEeccCcC-cchHHHhhccCcccC
Confidence 999 999888888777766666555 599999988653322 233447889999999988877 78888877632
Q ss_pred ------Hhccc-----CCCC--------CCC-------------CCCchhhhhHhHHHHHHHHHHHhhccC---------
Q 004136 311 ------RNFTS-----EYPE--------EDH-------------FHPSIHALRAHDSIKIITEAIGRLNYN--------- 349 (771)
Q Consensus 311 ------~~~~~-----~~~~--------~~~-------------~~~~~~a~~~YDav~~~a~Al~~~~~~--------- 349 (771)
..||+ ..+. +.. ......+.+.||||+++|+||+++..+
T Consensus 310 ~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~ 389 (469)
T cd06365 310 PEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENN 389 (469)
T ss_pred CCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCC
Confidence 22332 2110 000 001335788999999999999998653
Q ss_pred ----CCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEeeC-----CceEEEEEecCC
Q 004136 350 ----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLPN 404 (771)
Q Consensus 350 ----~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~~~-----~~~~~vg~w~~~ 404 (771)
..++++|.++|++++|.|.+| .|.||++|++. ..|+|++++. ..+++||.|++.
T Consensus 390 ~~~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 390 GKRLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKLD-TEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred CCCCCccHHHHHHHHHhccccCCCCCEEEecCCCCcC-ceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 146889999999999999998 79999999986 8999999972 358999999863
No 11
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=1.2e-41 Score=367.33 Aligned_cols=348 Identities=15% Similarity=0.219 Sum_probs=289.0
Q ss_pred EEEEEeCC---CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 37 IGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 37 IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|-+++|.+ .+.+.+...|+++|+++||+++ +|++|++++.|++|++..+...+..++ +++|.|||||.||..+
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~-~~~v~aiiGp~~s~~~ 80 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSC-ARKPDLILGPVCEYAA 80 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHH-hhCCCEEECCCCccHH
Confidence 34677766 3456889999999999999976 689999999999999887888888887 5799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC--CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch---
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK--- 185 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~--- 185 (771)
.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++++++++|+|+++++||++++|+ +..
T Consensus 81 ~~va~ia~~~~iP~Is~~a~--~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~--~~~~~~ 156 (387)
T cd06386 81 APVARLASHWNIPMISAGAL--AAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQE--RNCYFT 156 (387)
T ss_pred HHHHHHHHhCCCcEEccccC--chhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCC--ccceeh
Confidence 99999999999999999998 888875 468999999999999999999999999999999999999988 765
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+.+.+++.| ++|+....++... .++..+|+++++.+ |+||+ +++.+.++.++++|+++||++++|+||
T Consensus 157 ~~~l~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~~~-rvii~-~~~~~~~~~ll~~A~~~gm~~~~yv~i 227 (387)
T cd06386 157 LEGVHHVFQEEG-YHMSIYPFDETKD------LDLDEIIRAIQASE-RVVIM-CAGADTIRSIMLAAHRRGLTSGDYIFF 227 (387)
T ss_pred HHHHHHHHHhcC-ceEEEEecCCCCc------ccHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 889999999999 9998765544333 57999999999887 99999 999999999999999999999999999
Q ss_pred eeCcccc--c----c---cccC---hhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCC-CCCCchhhhhH
Q 004136 266 VTNTVAN--A----L---DSLN---TTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED-HFHPSIHALRA 332 (771)
Q Consensus 266 ~~~~~~~--~----~---~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~a~~~ 332 (771)
..+...+ . + ...+ ....+.+.++.++.+. . |.+++|.+++++++... +... ...++.+++.+
T Consensus 228 ~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~---~-~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~aa~~ 302 (387)
T cd06386 228 NIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV---K-PEFEKFSMEVKSSVEKA-GDLNDCDYVNMFVEGF 302 (387)
T ss_pred EEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC---C-hHHHHHHHHHHHHHHhC-CCCcccccchHHHHHH
Confidence 9976531 0 0 0111 1122334444444332 3 68999999999666433 2221 22466889999
Q ss_pred hHHHHHHHHHHHhh---ccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC---CceEEEEEecCC
Q 004136 333 HDSIKIITEAIGRL---NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG---KKYKELDFWLPN 404 (771)
Q Consensus 333 YDav~~~a~Al~~~---~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~---~~~~~vg~w~~~ 404 (771)
|||++++|+|++++ +..+.+|..|+++|++++|+|++|+++||++|+|. ..|.|+.+++ ++++.||.|..+
T Consensus 303 yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~~~~~~~ 379 (387)
T cd06386 303 HDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVVGNYFGK 379 (387)
T ss_pred HHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEEeEEccc
Confidence 99999999999998 43357899999999999999999999999999997 6999999964 789999999764
No 12
>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=2.3e-41 Score=365.44 Aligned_cols=356 Identities=19% Similarity=0.254 Sum_probs=289.2
Q ss_pred cEEEEEEEe-CC---CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEcCC
Q 004136 34 VTKIGAIVD-AN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGME 105 (771)
Q Consensus 34 ~I~IG~i~p-~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~-~~~~a~~~~~~li~~~~v~aviGp~ 105 (771)
.|+||+++| ++ +..|...+.|+++|+++||+++ ++..+.+...+.++ ++..+...+|+++ .++|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l-~~~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQL-ALGVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhccc-ccCcEEEECCC
Confidence 489999999 66 4567889999999999999988 67888888888544 6667888889887 68999999999
Q ss_pred chHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 004136 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 106 ~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
+|..+.+++++++.++||+|+++++ ++.+++. .++++|+.|++..++.++++++++++|+++++||+++. | ...
T Consensus 81 ~S~~~~av~~i~~~~~iP~Is~~~t--~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g--~~~ 154 (384)
T cd06393 81 QGSCTNAVQSICNALEVPHIQLRWK--HHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-G--LIR 154 (384)
T ss_pred ChHHHHHHHHHHhccCCCeEeccCC--CcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-h--HHH
Confidence 9999999999999999999999998 8888764 35778888998899999999999999999999998765 5 555
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+.+.+++.| ++|.. +.++.+. .|++.+|+++++.++++||+ .++..++..+++||+++||..+.|+|+
T Consensus 155 l~~~~~~~~~~g-~~v~~-~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 155 LQELIMAPSRYN-IRLKI-RQLPTDS------DDARPLLKEMKRGREFRIIF-DCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred HHHHHHhhhccC-ceEEE-EECCCCc------hHHHHHHHHHhhcCceEEEE-ECCHHHHHHHHHHHHHhccccCceEEE
Confidence 667888888889 99876 4455444 68999999999999999999 999999999999999999999999999
Q ss_pred eeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHh-cccCCCCCCC---CCCchhhhhHhHHHHHHHH
Q 004136 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRN-FTSEYPEEDH---FHPSIHALRAHDSIKIITE 341 (771)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~~~---~~~~~~a~~~YDav~~~a~ 341 (771)
.++......+. .........+.++....+.. +.+++|.++|+++ +........+ ..++..++++||||+++++
T Consensus 226 ~~~~~~~~~~~--~~~~~~~~~it~~~~~~~~~-~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~ 302 (384)
T cd06393 226 FTTLDLYALDL--EPYRYSGVNLTGFRILNVDN-PHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSV 302 (384)
T ss_pred EccCccccccc--hhhhcCcceEEEEEecCCCc-HHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHH
Confidence 87764332221 11101112235555555554 7899999999854 5432211111 1135689999999999999
Q ss_pred HHHhhccC------------CCChHHHHHHHHcCceeceeeeEEEeC-CCCCCCCeEEEEEeeCCceEEEEEecCCCCCc
Q 004136 342 AIGRLNYN------------ISSPEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (771)
Q Consensus 342 Al~~~~~~------------~~~~~~l~~~l~~~~f~G~tG~v~Fd~-~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~ 408 (771)
|++++... |..|..|+++|++++|+|+||+++||+ +|.|.+..++|+++.+.++++||.|++..|++
T Consensus 303 A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~g~~ 382 (384)
T cd06393 303 CYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNTGLN 382 (384)
T ss_pred HHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCCCcC
Confidence 99976431 456789999999999999999999996 67889999999999999999999999998875
No 13
>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=2.3e-41 Score=374.23 Aligned_cols=358 Identities=19% Similarity=0.306 Sum_probs=289.4
Q ss_pred CcEEEEEEEeCC--C-----------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHH----HHHHH
Q 004136 33 EVTKIGAIVDAN--S-----------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT----AAQEL 92 (771)
Q Consensus 33 ~~I~IG~i~p~s--~-----------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~----~~~~l 92 (771)
++|+||+++|.+ + ..|.+...|+++|+++||+++ ||++|+++++|+|+++..+.+ .+.++
T Consensus 1 Gdi~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l 80 (463)
T cd06376 1 GDITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQAL 80 (463)
T ss_pred CCeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhh
Confidence 369999999998 2 267778999999999999998 789999999999988764444 44444
Q ss_pred Hhc------------------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHH
Q 004136 93 INK------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSE 153 (771)
Q Consensus 93 i~~------------------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~ 153 (771)
+.+ ++|.|||||.+|..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~at--s~~ls~~~~~~~ffR~~p~d~~ 158 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYAST--APELSDDRRYDFFSRVVPPDSF 158 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccC--ChhhcccccCCceEEccCCHHH
Confidence 422 58999999999999999999999999999999999 899987 678999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-CCc
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQS 232 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~ 232 (771)
+++++++++++++|++|++|+.+++|| ....+.|.+.+++.|.++|...+.++.... ..++..+++++++ .++
T Consensus 159 ~~~ai~~~i~~~~w~~Vaii~~~~~yg--~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~----~~d~~~~l~~ik~~~~~ 232 (463)
T cd06376 159 QAQAMVDIVKALGWNYVSTLASEGNYG--ESGVEAFTQISREAGGVCIAQSIKIPREPR----PGEFDKIIKRLLETPNA 232 (463)
T ss_pred HHHHHHHHHHHcCCeEEEEEEeCChHH--HHHHHHHHHHHHHcCCceEEEEEecCCCCC----HHHHHHHHHHHhccCCC
Confidence 999999999999999999999999999 999999999998864167766555443321 1689999999986 699
Q ss_pred eEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHH-----
Q 004136 233 RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSA----- 307 (771)
Q Consensus 233 ~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~----- 307 (771)
|+||+ .++..++..++++|+++|+.+ .|+||+++.|........ .......|++++.+..... +.+++|..
T Consensus 233 ~vIvl-~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~-~~F~~~~~~l~~~ 308 (463)
T cd06376 233 RAVII-FANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASI-EGFDAYFTSRTLE 308 (463)
T ss_pred eEEEE-ecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEeccccc-hhHHHHHHhCCcc
Confidence 99999 999999999999999999987 489999999865433221 1235678999998876665 66777665
Q ss_pred ----------HHHHhcccCCC--CC---------CCC---------CCchhhhhHhHHHHHHHHHHHhhcc---------
Q 004136 308 ----------LFRRNFTSEYP--EE---------DHF---------HPSIHALRAHDSIKIITEAIGRLNY--------- 348 (771)
Q Consensus 308 ----------~~~~~~~~~~~--~~---------~~~---------~~~~~a~~~YDav~~~a~Al~~~~~--------- 348 (771)
.|...|.+..+ .. .+. .....++++||||+++|+||+++..
T Consensus 309 ~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~ 388 (463)
T cd06376 309 NNRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGV 388 (463)
T ss_pred cCCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCC
Confidence 23333333221 00 000 1123688999999999999998751
Q ss_pred C----CCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEeeC-----CceEEEEEecC
Q 004136 349 N----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (771)
Q Consensus 349 ~----~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~~~-----~~~~~vg~w~~ 403 (771)
+ +.++.+|.++|++++|+|.+| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 389 C~~~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 389 CPEMEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred CccCCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 1 357889999999999999999 89999999987 6899999872 47999999975
No 14
>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=3.8e-41 Score=369.56 Aligned_cols=355 Identities=16% Similarity=0.259 Sum_probs=297.4
Q ss_pred CcEEEEEEEeCCC-------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHh--
Q 004136 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELIN-- 94 (771)
Q Consensus 33 ~~I~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~-- 94 (771)
++|.||++||.+. ..|.+...|+.+||++||+++ ||++|++.++|+|+++..+++.+.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 3589999999981 468899999999999999998 7999999999999999999999988873
Q ss_pred ----------------------cCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCc
Q 004136 95 ----------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASND 151 (771)
Q Consensus 95 ----------------------~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~ 151 (771)
.++|.|||||.+|..+.+++++++.++||+|+++++ ++.|++ ..|||+||+.|++
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~st--s~~Ls~~~~~~~ffRt~psd 158 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYAST--SAKLSDKSRYDYFARTVPPD 158 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccC--ChhhcccccCCCeEEecCCc
Confidence 347999999999999999999999999999999999 899987 5799999999999
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-C
Q 004136 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-K 230 (771)
Q Consensus 152 ~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~ 230 (771)
..+++++++++++|+|++|++|+++++|| ....+.|.+.+++.| +||+..+.++.... ..++..+++++++ .
T Consensus 159 ~~qa~ai~~ll~~~~W~~Vaii~~~~~yG--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~~----~~d~~~~l~~l~~~~ 231 (458)
T cd06375 159 FYQAKAMAEILRFFNWTYVSTVASEGDYG--ETGIEAFEQEARLRN-ICIATSEKVGRSAD----RKSYDSVIRKLLQKP 231 (458)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEeCchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCCC----HHHHHHHHHHHhccC
Confidence 99999999999999999999999999999 999999999999999 99998888865431 1679999999875 6
Q ss_pred CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHH-
Q 004136 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALF- 309 (771)
Q Consensus 231 ~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~- 309 (771)
++|+||+ .+...++..++++|+++|++ +.||++++|....... .......+|++++.+..... |.+++|++.+
T Consensus 232 ~a~vVvl-~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~-~~~~~~~~G~i~~~~~~~~i-~~f~~yl~~l~ 305 (458)
T cd06375 232 NARVVVL-FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV-KGSEDVAEGAITIELASHPI-PDFDRYFQSLT 305 (458)
T ss_pred CCEEEEE-ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh-hccchhhceEEEEEeccccc-hhHHHHHHhCC
Confidence 8999999 99999999999999999997 4899999986432211 12335789999999988776 7788877663
Q ss_pred --------------HHhcccCCCCCC----CC------------CCchhhhhHhHHHHHHHHHHHhhccC----------
Q 004136 310 --------------RRNFTSEYPEED----HF------------HPSIHALRAHDSIKIITEAIGRLNYN---------- 349 (771)
Q Consensus 310 --------------~~~~~~~~~~~~----~~------------~~~~~a~~~YDav~~~a~Al~~~~~~---------- 349 (771)
+..|.+...... .+ .....+.+.||||+++|+||+++..+
T Consensus 306 p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~ 385 (458)
T cd06375 306 PETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCD 385 (458)
T ss_pred cCcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 222322221100 11 12456889999999999999998631
Q ss_pred ---CCChHHHH-HHHHcCcee-----ceee-eEEEeCCCCCCCCeEEEEEeeC--C----ceEEEEEecC
Q 004136 350 ---ISSPEMLL-RQMLSSDFS-----GLSG-KIRFKDGELLNADTLRIVNVVG--K----KYKELDFWLP 403 (771)
Q Consensus 350 ---~~~~~~l~-~~l~~~~f~-----G~tG-~v~Fd~~g~~~~~~~~I~~~~~--~----~~~~vg~w~~ 403 (771)
..+++++. ++|++++|. |.+| +|.||++|+.. ..|+|++++. + .+++||.|+.
T Consensus 386 ~~~~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 386 AMKPLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDGL-GRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCCC-cceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 24678999 599999999 9988 89999999976 7999999983 2 3789999954
No 15
>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=9.1e-41 Score=360.72 Aligned_cols=317 Identities=20% Similarity=0.343 Sum_probs=262.5
Q ss_pred CcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHH-HHHHHHHHHhcCCeEEEEc-CC-c
Q 004136 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQ-AATAAQELINKEKVKVIAG-ME-T 106 (771)
Q Consensus 33 ~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~-a~~~~~~li~~~~v~aviG-p~-~ 106 (771)
.+|+||+++|. ...+.|+++|++++|++. ++.++.-...+...++.. +...+.+|+ +++|.+||| +. +
T Consensus 18 ~~i~IG~i~~~-----~~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li-~~~V~aii~~~~~s 91 (377)
T cd06379 18 KTVNIGAVLSN-----KKHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLI-SNQVYAVIVSHPPT 91 (377)
T ss_pred cEEEEeEEecc-----hhHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHh-hcceEEEEEeCCCC
Confidence 67999999984 467899999999999953 122232211111235555 445455678 579999974 33 3
Q ss_pred hH---hHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCC
Q 004136 107 WE---ETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (771)
Q Consensus 107 s~---~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~ 182 (771)
+. .+.+++.+++.++||+|+++++ ++.+++ ..||++||+.|++..+++++++++++++|+++++|+++++||
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~--~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g-- 167 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTR--DSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEG-- 167 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccC--CccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcch--
Confidence 33 4667888999999999999998 788876 469999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHhccCCe----EEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 183 SGKLALLAEALQNVSSS----EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~----~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
....+.+++.+++.| + +++..+.++.+. +++..+++++++.++|+|++ .++..++..++++|+++||+
T Consensus 168 ~~~~~~~~~~~~~~g-~~~~~~v~~~~~~~~~~------~d~~~~l~~ik~~~~~vIvl-~~~~~~~~~l~~qa~~~g~~ 239 (377)
T cd06379 168 RAAQKRFETLLEERE-IEFKIKVEKVVEFEPGE------KNVTSLLQEAKELTSRVILL-SASEDDAAVIYRNAGMLNMT 239 (377)
T ss_pred hHHHHHHHHHHHhcC-CccceeeeEEEecCCch------hhHHHHHHHHhhcCCeEEEE-EcCHHHHHHHHHHHHHcCCC
Confidence 999999999999999 9 888877776554 67999999999999999999 99999999999999999999
Q ss_pred CCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHH
Q 004136 259 GKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (771)
Q Consensus 259 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (771)
+++|+||.++.+... .....|++++.+... ..+++++||||++
T Consensus 240 ~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~-----------------------------~~~~~~~yDAV~~ 282 (377)
T cd06379 240 GEGYVWIVSEQAGAA--------RNAPDGVLGLQLING-----------------------------KNESSHIRDAVAV 282 (377)
T ss_pred CCCEEEEEecccccc--------ccCCCceEEEEECCC-----------------------------CCHHHHHHHHHHH
Confidence 999999999987321 134578888876432 1245789999999
Q ss_pred HHHHHHhhcc----------------CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEec
Q 004136 339 ITEAIGRLNY----------------NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWL 402 (771)
Q Consensus 339 ~a~Al~~~~~----------------~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~ 402 (771)
+|+|++++.. .|.+|..+.++|++++|+|+||+|.||++|+|....|+|+++++.++++||.|+
T Consensus 283 ~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~ 362 (377)
T cd06379 283 LASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYN 362 (377)
T ss_pred HHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEc
Confidence 9999998742 134688999999999999999999999999998789999999999999999998
Q ss_pred CC
Q 004136 403 PN 404 (771)
Q Consensus 403 ~~ 404 (771)
+.
T Consensus 363 ~~ 364 (377)
T cd06379 363 GD 364 (377)
T ss_pred Cc
Confidence 74
No 16
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=5.1e-41 Score=365.43 Aligned_cols=358 Identities=18% Similarity=0.240 Sum_probs=293.4
Q ss_pred EEEEEEeCCC----cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCC----CHHHHHHHHHHHHhcCCeEEEEcC
Q 004136 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR----DPFQAATAAQELINKEKVKVIAGM 104 (771)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~----~~~~a~~~~~~li~~~~v~aviGp 104 (771)
+||+++|.|+ ..|.....|+++|+++||+++ +|++|++++.|+++ ++..++..+.+++.+++|.+||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999993 457788999999999999997 58999999999999 899999999998877899999999
Q ss_pred CchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCC-
Q 004136 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD- 182 (771)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~- 182 (771)
.||..+.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++++++++++|+++++|+.+++++..
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as--~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~ 158 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAP--AAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRP 158 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCC--ccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcch
Confidence 99999999999999999999999999 888887 67899999999999999999999999999999999998775300
Q ss_pred -cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 183 -SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 183 -~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
....+.+.+.+++.| ++|.... +..... ..++..+|++++++. |+|++ +++..+++.++++|+++|++..+
T Consensus 159 ~~~~~~~~~~~~~~~g-~~v~~~~-~~~~~~----~~d~~~~l~~ik~~~-~vii~-~~~~~~~~~~~~qa~~~g~~~~~ 230 (396)
T cd06373 159 CYFTLEGVYTVLKEEN-ITVSDFP-FDEDKE----LDDYKELLRDISKKG-RVVIM-CASPDTVREIMLAAHRLGLTSGE 230 (396)
T ss_pred HHHHHHHHHHHHhhcC-ceeeEEe-ecCCcc----ccCHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCc
Confidence 335788889999999 8887543 433210 146999999999865 99999 99999999999999999999999
Q ss_pred eEEEeeCcccccc-----c------ccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCC-CCCCCchhh
Q 004136 262 SVWIVTNTVANAL-----D------SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE-DHFHPSIHA 329 (771)
Q Consensus 262 ~~~i~~~~~~~~~-----~------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~a 329 (771)
|+||..+...... . .......+..++++.+....+.. +.+++|.++|+++...++... ....++.++
T Consensus 231 yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~-~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a 309 (396)
T cd06373 231 YVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDN-PEYKEFSLEVKERAKKKFNTTSDDSLVNFFA 309 (396)
T ss_pred EEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCC-hHHHHHHHHHHHHhhhcCCCCcchhHHHHHH
Confidence 9999876442110 0 00112234566777777666654 788999999988643333111 112466789
Q ss_pred hhHhHHHHHHHHHHHhhcc---CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEe---eCCceEEEEEecC
Q 004136 330 LRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKELDFWLP 403 (771)
Q Consensus 330 ~~~YDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~---~~~~~~~vg~w~~ 403 (771)
+.+|||++++++||+++.. .+.+++.|+++|++++|+|++|+++||++|++. ..|.|+++ ++++++.+|.|++
T Consensus 310 ~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~~~~~g~~~~~~~~~~ 388 (396)
T cd06373 310 GAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMTDTETGTFEVVANYNG 388 (396)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeeccCCCCceEEEEeeccc
Confidence 9999999999999998732 136899999999999999999999999999986 78888765 6799999999988
Q ss_pred CC
Q 004136 404 NF 405 (771)
Q Consensus 404 ~~ 405 (771)
.+
T Consensus 389 ~~ 390 (396)
T cd06373 389 SN 390 (396)
T ss_pred cc
Confidence 54
No 17
>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=4.7e-41 Score=361.34 Aligned_cols=321 Identities=18% Similarity=0.282 Sum_probs=279.7
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh-
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE- 109 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~- 109 (771)
.|+||.++|.++ ...+++.|+..+|.+. .+.+++++..|+.+||..++.++|+++.+++|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 489999999983 3477888888887665 5899999999999999999999999987789999999999998
Q ss_pred --HHHHHHhhccCCccEEeecCCCCCCCc-cC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 004136 110 --TAVVAEIASRVQVPILSFAAPAVTPLS-MS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 110 --~~~v~~~~~~~~iP~Is~~a~~~~~~l-~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
+.+++.+++.++||+|+++++ ++.+ ++ ..|||+||+.|++..+++++++++++|+|+++++||++++|| ...
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~--~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g--~~~ 152 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGR--ESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGY--RDF 152 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeecc--ccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCccc--HHH
Confidence 999999999999999999998 7888 76 689999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeE--EEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004136 186 LALLAEALQNVSSSE--IQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~--i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (771)
.+.+++.+++.| ++ ++....++.... +++...+.++++.++|+|++ .|+..++..++++|+++||++++|+
T Consensus 153 ~~~l~~~l~~~g-~~~~i~~~~~~~~~~~-----~~~~~~l~~l~~~~~~vivl-~~~~~~~~~il~~a~~~g~~~~~~~ 225 (362)
T cd06367 153 LDRVETTLEESF-VGWEFQLVLTLDLSDD-----DGDARLLRQLKKLESRVILL-YCSKEEAERIFEAAASLGLTGPGYV 225 (362)
T ss_pred HHHHHHHHHhcc-cceeeeeeEEeccCCC-----cchHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHHHcCCCCCCcE
Confidence 999999999999 88 776666655431 25788888999999999999 9999999999999999999999999
Q ss_pred EEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
||+++.+..... .......|++++.+... ..++++.||||+++|+|+
T Consensus 226 wI~~~~~~~~~~----~~~~~~~G~~g~~~~~~-----------------------------~~~~~~~~Dav~~~a~Al 272 (362)
T cd06367 226 WIVGELALGSGL----APEGLPVGLLGVGLDTW-----------------------------YSLEARVRDAVAIVARAA 272 (362)
T ss_pred EEECcccccccC----CccCCCCeeEEEEeccc-----------------------------ccHHHHHHHHHHHHHHHH
Confidence 999999864211 22245678888876421 135688999999999999
Q ss_pred HhhccC------------------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CCceEEEEEecC
Q 004136 344 GRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (771)
Q Consensus 344 ~~~~~~------------------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~ 403 (771)
+++..+ |.+|..|.++|++++|.|++|+|.||++|++.+..|+|++++ +.+|++||.|++
T Consensus 273 ~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 273 ESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 976431 467889999999999999999999999999988899999998 889999999975
No 18
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.5e-40 Score=361.06 Aligned_cols=358 Identities=12% Similarity=0.156 Sum_probs=287.1
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
+||++.|++ +..+.+...|+++|+++||+++ +|++|++++.|++|++..++..+++++.+++|.+||||.||..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999987 3467788899999999999987 5799999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcch
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGK 185 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~---~g~~~~~ 185 (771)
+.+++++++.+++|+|+++++ ++.+++ ..||+++|+.|++..++.++++++++++|++|++|+.++. ++.....
T Consensus 81 ~~av~~va~~~~iP~is~~s~--s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~ 158 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQ--TAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDEL 158 (391)
T ss_pred HHHHHHHHhccCccEEEeecC--CccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHH
Confidence 999999999999999999998 888987 6789999999999999999999999999999999996532 3200112
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+.+.++ .+ +++...+.++.+. .++...+.+.+++++|+|++ +++..+++.++++|+++||.++.|+||
T Consensus 159 ~~~~~~~~~-~~-~~i~~~~~~~~~~------~d~~~~~l~~~~~~~~vii~-~~~~~~~~~i~~~a~~~g~~~~~y~~i 229 (391)
T cd06372 159 WKAVENQLK-FH-FNITATVRYSSSN------PDLLQEKLRYISSVARVIIL-ICSSEDAKAILQAAEKLGLMKGKFVFF 229 (391)
T ss_pred HHHHHHHHh-hC-EEEEEEEecCCCC------hHHHHHHHHhhhccceEEEE-EcChHHHHHHHHHHHHcCCCCCCEEEE
Confidence 334555553 67 8888888776554 56666665666678999999 999999999999999999998889999
Q ss_pred eeCcccccccc------cChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCC---CCCCCchhhhhHhHHH
Q 004136 266 VTNTVANALDS------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE---DHFHPSIHALRAHDSI 336 (771)
Q Consensus 266 ~~~~~~~~~~~------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~---~~~~~~~~a~~~YDav 336 (771)
.+......... ......+..++++++.+......+...+|.++|++++....... .....+.+++++||||
T Consensus 230 ~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav 309 (391)
T cd06372 230 LLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAV 309 (391)
T ss_pred EehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHH
Confidence 96432211100 01123346778888777654333567889999888875322110 1123467899999999
Q ss_pred HHHHHHHHhhcc---CCCChHHHHHHHH---cCceeceeeeEEEeCCCCCCCCeEEEEEeeC----CceEEEEEecCCC
Q 004136 337 KIITEAIGRLNY---NISSPEMLLRQML---SSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNF 405 (771)
Q Consensus 337 ~~~a~Al~~~~~---~~~~~~~l~~~l~---~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~----~~~~~vg~w~~~~ 405 (771)
+++|+|++++.. .+.+|..+.++|+ +++|+|+||+|+||++|+|. +.|.|+++++ ..+++||.|+...
T Consensus 310 ~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~-~~y~i~~~~~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 310 LLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQ-MDYSVYALQKSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred HHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcc-eeEEEEeccccCCccceeeEEEecchh
Confidence 999999999544 2568999999999 68999999999999999996 8999999975 3599999998854
No 19
>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=1.3e-40 Score=360.76 Aligned_cols=350 Identities=17% Similarity=0.295 Sum_probs=283.7
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
+||+||+.+ +...+.|+++|++++|.+. ++.++.+.+.++ ++|+..+.+.+|+++ +++|.|||||.+|..+.
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll-~~~V~aiiGp~~s~~~~ 76 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQL-SRGVFAIFGSYDKSSVN 76 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHH-hcCcEEEEecCcHHHHH
Confidence 489999998 5789999999999999875 456666666665 579999999999999 67999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
+++++++.++||+|+++++ .+.++ ..++|+||+.|+. ..++++++++++|+++++||++++ | ....+.+.+
T Consensus 77 ~~~~~~~~~~iP~i~~~~~--~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~--~~~~~~~~~ 147 (382)
T cd06380 77 TLTSYSDALHVPFITPSFP--TNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-G--LLRLQQLLD 147 (382)
T ss_pred HHHHHHhcCCCCeEecCCC--cccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-c--hHHHHHHHH
Confidence 9999999999999999998 77774 4679999999863 458899999999999999998776 5 555677778
Q ss_pred HHhccCCeEEEEe-eecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 192 ALQNVSSSEIQSR-LVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 192 ~~~~~g~~~i~~~-~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
.+++.| .++... ..+.... ...|++.+|.++++.++|+||+ .++.+++..+++||+++||.++.|+||.++..
T Consensus 148 ~~~~~g-~~i~v~~~~~~~~~----~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~ 221 (382)
T cd06380 148 YLREKD-NKWQVTARRVDNVT----DEEEFLRLLEDLDRRKEKRIVL-DCESERLNKILEQIVDVGKNRKGYHYILANLG 221 (382)
T ss_pred HHhccC-CceEEEEEEecCCC----cHHHHHHHHHHhhcccceEEEE-ECCHHHHHHHHHHHHHhhhcccceEEEEccCC
Confidence 888877 533322 2232211 1158999999999999999999 99999999999999999999999999998765
Q ss_pred cccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC-
Q 004136 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN- 349 (771)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~- 349 (771)
...++.. .......++.++....+.. +..++|.++|++.+...++......++.+++++||||+++++|+++++..
T Consensus 222 ~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~ 298 (382)
T cd06380 222 FDDIDLS--KFLFGGVNITGFQLVDNTN-PTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQR 298 (382)
T ss_pred cccccHH--HhccCceeeEEEeccCCCC-HHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4433221 1112223455555444443 78999999999987655443333457779999999999999999987531
Q ss_pred -------------------------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCC
Q 004136 350 -------------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPN 404 (771)
Q Consensus 350 -------------------------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~ 404 (771)
|.+|..|+++|++++|+|++|+++||++|++.+..++|++++++++++||.|++.
T Consensus 299 ~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~ 378 (382)
T cd06380 299 GSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNED 378 (382)
T ss_pred cccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCC
Confidence 4579999999999999999999999999999988999999999999999999998
Q ss_pred CCC
Q 004136 405 FGF 407 (771)
Q Consensus 405 ~~~ 407 (771)
.|+
T Consensus 379 ~g~ 381 (382)
T cd06380 379 DGL 381 (382)
T ss_pred cCc
Confidence 764
No 20
>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=1.3e-40 Score=363.03 Aligned_cols=340 Identities=20% Similarity=0.285 Sum_probs=286.8
Q ss_pred CCcEEEEEEEeCCC---------------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHH
Q 004136 32 EEVTKIGAIVDANS---------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT 87 (771)
Q Consensus 32 ~~~I~IG~i~p~s~---------------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~ 87 (771)
++.+.||++||.+. ..|.....|+++|+++||+++ +|++|++++.|+|+ +..+++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~~ 82 (410)
T cd06363 4 PGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANFP 82 (410)
T ss_pred CCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHHH
Confidence 57899999999882 347788999999999999998 48999999999976 777999
Q ss_pred HHHHHHhc---------------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCc
Q 004136 88 AAQELINK---------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASND 151 (771)
Q Consensus 88 ~~~~li~~---------------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~ 151 (771)
.+.+|+.+ ++|.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..+||+||+.|++
T Consensus 83 ~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~--~~~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 83 PTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGAS--SEVLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhccccccccccccc--CccccccccCCCeeEecCCc
Confidence 99999854 79999999999999999999999999999999998 888886 5789999999999
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC
Q 004136 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (771)
Q Consensus 152 ~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~ 231 (771)
..++.++++++++++|+++++++++++|| ....+.+++.+++.| ++++..+.++.... ..+|+..++.++++.+
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g--~~~~~~~~~~l~~~g-i~i~~~~~~~~~~~---~~~d~~~~l~~i~~~~ 234 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYG--RDGLQLFSELIANTG-ICIAYQGLIPLDTD---PETDYQQILKQINQTK 234 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCCc---hHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999 999999999999999 99998887765321 1268999999999999
Q ss_pred ceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHH
Q 004136 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR 311 (771)
Q Consensus 232 ~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~ 311 (771)
+|+|++ .+.++++..++++|+++|+.++ .||+++.+............+...+++++....+.. +.+++|.++
T Consensus 235 ~dvIil-~~~~~~~~~il~qa~~~g~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~f~~~--- 307 (410)
T cd06363 235 VNVIVV-FASRQPAEAFFNSVIQQNLTGK--VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVTI-PGFSDFIYS--- 307 (410)
T ss_pred CeEEEE-EcChHHHHHHHHHHHhcCCCCC--EEEEeCcccccccccCCccceeeccEEEEEeCCCCC-ccHHHHHHH---
Confidence 999999 9999999999999999999776 789887764322111111123444566666655544 677777655
Q ss_pred hcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC---------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCC
Q 004136 312 NFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN---------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNA 382 (771)
Q Consensus 312 ~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~---------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~ 382 (771)
+++.+||||+++++|++++..+ ..+++.|+++|++++|+|++|++.||++|++.
T Consensus 308 ----------------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~- 370 (410)
T cd06363 308 ----------------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPN- 370 (410)
T ss_pred ----------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCc-
Confidence 3467999999999999998321 24788999999999999999999999999975
Q ss_pred CeEEEEEeeC----CceEEEEEecCC
Q 004136 383 DTLRIVNVVG----KKYKELDFWLPN 404 (771)
Q Consensus 383 ~~~~I~~~~~----~~~~~vg~w~~~ 404 (771)
..+.|++++. .++++||.|++.
T Consensus 371 ~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 371 FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred cceEEEEEEEcCCceeEEEEEEEECC
Confidence 6899999853 269999999884
No 21
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=1.6e-40 Score=362.43 Aligned_cols=355 Identities=15% Similarity=0.170 Sum_probs=285.0
Q ss_pred EEEEEEeCCCc---Cc-hHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHH-----HHHHHHHHHhcCCeEEEEc
Q 004136 36 KIGAIVDANSQ---MG-KQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQ-----AATAAQELINKEKVKVIAG 103 (771)
Q Consensus 36 ~IG~i~p~s~~---~g-~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~-----a~~~~~~li~~~~v~aviG 103 (771)
+||+++|+++. .| .....|+++|+++||+++ +|++|++++.|+++++.. +...+.++...++|.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 59999999943 44 788899999999999986 589999999998766553 3334444444679999999
Q ss_pred CCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEE-EEEeCC-CC
Q 004136 104 METWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA-IYEDNV-YG 180 (771)
Q Consensus 104 p~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~i-i~~~~~-~g 180 (771)
|.||..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..++.++++++++|+|+++++ ++.++. ++
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~--~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~ 158 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAP--ALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDD 158 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccC--hhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccc
Confidence 999999999999999999999999999 889987 6799999999999999999999999999999985 555543 22
Q ss_pred CCcc---hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 181 GDSG---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 181 ~~~~---~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
.. ..+.+.+.+++.| ++|+..+..+.+. .++..+|+++++. .|+|++ +++..+++.++++|+++||
T Consensus 159 --~~~~~~~~~l~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~~-~~iii~-~~~~~~~~~i~~~a~~~g~ 227 (405)
T cd06385 159 --RPCYFAMEGLYMELKKNN-ITVVDLVFEEDDL------INYTTLLQDIKQK-GRVIYV-CCSPDIFRRLMLQFWREGL 227 (405)
T ss_pred --cchHHHHHHHHHHHHhCC-eEEEEeeccCCch------hhHHHHHHHHhhc-ceEEEE-eCCHHHHHHHHHHHHHcCC
Confidence 33 4688999999999 9998776433322 5799999999875 599999 9999999999999999999
Q ss_pred CCCCeEEEeeCcccccccc------------cChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCC-CCC
Q 004136 258 VGKDSVWIVTNTVANALDS------------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED-HFH 324 (771)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~ 324 (771)
+++.|+||+++.+...... .+....+++++++......+.. +.+++|.++|+++....+.... .+.
T Consensus 228 ~~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~ 306 (405)
T cd06385 228 PSEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQN-PEYKEFLSDLKTDAKEMFNFTVEDSL 306 (405)
T ss_pred CCCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCC-hhHHHHHHHHHHHhhccCCCccchhh
Confidence 9999999998664322110 1122345678887776555544 7899999999886432221110 123
Q ss_pred CchhhhhHhHHHHHHHHHHHhhc---cCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEe---eCCceEEE
Q 004136 325 PSIHALRAHDSIKIITEAIGRLN---YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKEL 398 (771)
Q Consensus 325 ~~~~a~~~YDav~~~a~Al~~~~---~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~---~~~~~~~v 398 (771)
++.+++++||||+++++||+++. ..+.+|+.|.++|++++|+|++|++.||++|+|. ..|.|+++ +++++++|
T Consensus 307 ~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~v 385 (405)
T cd06385 307 MNIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWDMTDTESGDFQVV 385 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEEccCCCCCcEEEE
Confidence 67899999999999999999972 2235899999999999999999999999999996 78888855 67899999
Q ss_pred EEecCCC
Q 004136 399 DFWLPNF 405 (771)
Q Consensus 399 g~w~~~~ 405 (771)
|.|+...
T Consensus 386 ~~~~~~~ 392 (405)
T cd06385 386 SVYNGTQ 392 (405)
T ss_pred EEEcccC
Confidence 9998754
No 22
>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=100.00 E-value=1.2e-40 Score=362.49 Aligned_cols=350 Identities=15% Similarity=0.225 Sum_probs=288.0
Q ss_pred EEEEEEEeCCC----cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch
Q 004136 35 TKIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (771)
Q Consensus 35 I~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s 107 (771)
||||+++|+|+ ..|.....|+++|+++||+++ +|++|++++.|++|++..++..+++|+ +++|.+||||.+|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li-~~~v~aiiGp~~S 79 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWW-KRGVVAFIGPECT 79 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHH-hcCceEEECCCch
Confidence 68999999986 358899999999999999997 589999999999999999999999999 6799999999998
Q ss_pred HhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 004136 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 108 ~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (771)
.. +++.+++.++||+|+++++ ++.+++ ..||++||+.|++..++.++++++++++|+++++|+++++|| ....
T Consensus 80 ~~--~~a~i~~~~~iP~Is~~a~--~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g--~~~~ 153 (404)
T cd06370 80 CT--TEARLAAAWNLPMISYKCD--EEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKY--SSVF 153 (404)
T ss_pred hH--HHHHHHhhcCCcEEecccC--CccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCccc--HHHH
Confidence 44 4567999999999999999 888886 578999999999999999999999999999999999999999 9999
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCC-CCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCC-CCCeEE
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSI-SDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVW 264 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~-~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~-~~~~~~ 264 (771)
+.+++.+++.| ++|+..+.++..... .+...++..++++++.. ++++++ +++..+++.++++|+++||. +..|+|
T Consensus 154 ~~~~~~~~~~g-~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~-~~~~~~~~~~l~qa~~~g~~~~~~y~~ 230 (404)
T cd06370 154 ETLKEEAELRN-ITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVF-IGEANELRQFLMSMLDEGLLESGDYMV 230 (404)
T ss_pred HHHHHHHHHcC-CEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEE-EcCHHHHHHHHHHHHHcCCCCCCcEEE
Confidence 99999999999 999988888765210 01125788999888764 777777 77888999999999999998 578999
Q ss_pred EeeCcccc------c------------ccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCC------
Q 004136 265 IVTNTVAN------A------------LDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE------ 320 (771)
Q Consensus 265 i~~~~~~~------~------------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~------ 320 (771)
|+.+.... . .........+++++++.+.+..+ ++..++|.+.|++++.......
T Consensus 231 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 308 (404)
T cd06370 231 LGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYNLEPPFNGDLGESE 308 (404)
T ss_pred EEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhccCCCCcccccccc
Confidence 98663210 0 00111233457888887765544 3678899999988754321111
Q ss_pred CCCCCchhhhhHhHHHHHHHHHHHhhccC---CCChHHHHHHHHcCceeceee-eEEEeCCCCCCCCeEEEEEeeCCceE
Q 004136 321 DHFHPSIHALRAHDSIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVGKKYK 396 (771)
Q Consensus 321 ~~~~~~~~a~~~YDav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~f~G~tG-~v~Fd~~g~~~~~~~~I~~~~~~~~~ 396 (771)
.+..++.+++++|||++++++|++++..+ ..++..|.++|++++|+|+|| +|.||++|+|. ..|.|+++++++|-
T Consensus 309 ~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~-~~y~v~~~~~~~~~ 387 (404)
T cd06370 309 LVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAE-GNYSVLALQPIPPG 387 (404)
T ss_pred cccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCcc-cceEEEEecccccc
Confidence 23357788999999999999999997321 258999999999999999999 99999999996 89999999877544
Q ss_pred E
Q 004136 397 E 397 (771)
Q Consensus 397 ~ 397 (771)
.
T Consensus 388 ~ 388 (404)
T cd06370 388 D 388 (404)
T ss_pred C
Confidence 3
No 23
>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=2.2e-40 Score=351.11 Aligned_cols=342 Identities=15% Similarity=0.271 Sum_probs=288.1
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEE-ecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~-~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+||+.+. .+.+.||+.|++++|.+. +|...+ .-+..|...+.+.+|+++ +++|.|||||.++..+..++
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~---~l~~~~~~~~~~dsf~~~~~~C~~~-~~gV~AI~Gp~s~~~a~~v~ 73 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPP---KLLPQIDIVNISDSFEMTYTFCSQF-SKGVYAIFGFYDRKTVNMLT 73 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCc---ccccceEEeccccHHHHHHHHHHHh-hcCceEEEccCChhHHHHHH
Confidence 4899998763 467899999999999974 333221 224468999999999999 89999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
.+|...+||+|++++. .. ...+|++++.|+ +.+|+++++++|+|++|++||+++ || ....+.|.+.++
T Consensus 74 sic~~~~vP~i~~~~~----~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g--~~~lq~l~~~~~ 141 (364)
T cd06390 74 SFCGALHVCFITPSFP----VD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RG--LSVLQKVLDTAA 141 (364)
T ss_pred HhhcCCCCCceecCCC----CC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-cc--HHHHHHHHHhhh
Confidence 9999999999987533 22 334678999998 899999999999999999999655 99 999999999999
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccc
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (771)
+.| ++|.....++... .+++..|+++++.++++||+ .|+.+.+..+++++.+.++.+.+|+||+++......
T Consensus 142 ~~~-~~I~~~~~~~~~~------~d~~~~L~~ik~~~~rvIVl-~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~ 213 (364)
T cd06390 142 EKN-WQVTAVNILTTTE------EGYRKLFQDLDKKKERLIVV-DCESERLNAILNQIIKLEKNGIGYHYILANLGFMDI 213 (364)
T ss_pred ccC-ceeeEEEeecCCh------HHHHHHHHhccccCCeEEEE-ECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccc
Confidence 999 9998776655333 57999999999999999999 999999999999998888889999999998443322
Q ss_pred cccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc------
Q 004136 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (771)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------ 348 (771)
+ .........|++++....+.. +..++|..+|++.....+|......+..+++++||||+++|+|++++..
T Consensus 214 ~--~~~~~~~~~nitg~r~~~~~~-~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~ 290 (364)
T cd06390 214 D--LTKFRESGANVTGFQLVNYTD-TTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDIS 290 (364)
T ss_pred c--HHHHhcCCcCceEEEEecCCC-HHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 2 123345778999999998877 7899999999887666655443445788999999999999999996421
Q ss_pred -------C-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCC
Q 004136 349 -------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (771)
Q Consensus 349 -------~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~ 407 (771)
| |..|..|+++|++++|+|+||+|.|+++|+|.+..++|+++.+.++++||.|++..|+
T Consensus 291 ~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 291 RRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred cCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 1 5678999999999999999999999999999999999999999999999999998765
No 24
>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=100.00 E-value=4.9e-40 Score=357.64 Aligned_cols=358 Identities=18% Similarity=0.238 Sum_probs=308.6
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
|||+++|++ +..|.....|+++|+++||+++ +|++|++++.|+++++..+++.+.+|+.+++|.+||||.+|..
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 699999999 4578999999999999999987 5899999999999999999999999997889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLA 187 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~ 187 (771)
+.+++++++.+++|+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. || ....+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g--~~~~~ 156 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCV--ALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENC--FFTLE 156 (389)
T ss_pred HHHHHHHHhcCCCCEeccccc--ccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccH--HHHHH
Confidence 999999999999999999998 788876 5789999999999999999999999999999999999888 88 88899
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+.+.+++.| ++|.....++... ..+++..+++++++.+ |+|++ ++.+.++..++++++++|+.++.++||++
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~-~vii~-~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 157 ALEAALREFN-LTVSHVVFMEDNS----GAEDLLEILQDIKRRS-RIIIM-CGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHHhcC-CeEEEEEEecCCc----cchhHHHHHHHhhhcc-eEEEE-ECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 9999999999 9999988887652 0157999999999877 99999 99999999999999999999888999998
Q ss_pred Cccccccc-----------ccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCC--CCCCCchhhhhHhH
Q 004136 268 NTVANALD-----------SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE--DHFHPSIHALRAHD 334 (771)
Q Consensus 268 ~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~a~~~YD 334 (771)
+.+..... .......+..+|++++.+..+.. +.+++|.++|++++...+..+ ....++.+++.+||
T Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 308 (389)
T cd06352 230 DLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDN-PEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYD 308 (389)
T ss_pred ehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCCCC-chHHHHHHHHHHHHhcccCccCCCccccchhhhhHHH
Confidence 77654321 11223345678888887776644 789999999999885432111 12246789999999
Q ss_pred HHHHHHHHHHhhccC---CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC--CceEEEEEecCCCC
Q 004136 335 SIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG--KKYKELDFWLPNFG 406 (771)
Q Consensus 335 av~~~a~Al~~~~~~---~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~--~~~~~vg~w~~~~~ 406 (771)
|++++++|++++..+ +.++..+.+.|++++|+|++|+++||++|++. ..|.|+++++ +.+..++.+...++
T Consensus 309 av~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 309 AVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred HHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEEEEeccccce
Confidence 999999999998653 24788999999999999999999999999997 8999999975 78899999887654
No 25
>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=1.4e-39 Score=347.80 Aligned_cols=348 Identities=17% Similarity=0.259 Sum_probs=282.9
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+||+... .+.+.|++.|++.+|.. ..+|...+.. ...|...+.+.+|+++ ++||.||+||.+|..+.+++
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~--~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~GV~AI~Gp~ss~~~~~v~ 74 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS--EFRLTPHIDNLEVANSFAVTNAFCSQF-SRGVYAIFGFYDKKSVNTIT 74 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc--CceeeeeeEEecccchHHHHHHHHHHh-hcCcEEEEecCCHHHHHHHH
Confidence 4899998763 45789999999999997 3555542222 5579999999999999 89999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
++|+..+||+|+++++ . +..+++.+++.|+ ...++++++++|+|+++++||+ ++|| ....+.+.+.++
T Consensus 75 ~i~~~~~IP~I~~~~~--~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~g--l~~lq~l~~~~~ 142 (370)
T cd06389 75 SFCGTLHVSFITPSFP--T----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRG--LSTLQAVLDSAA 142 (370)
T ss_pred HhhccCCCCeeeecCC--C----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchH--HHHHHHHHHhhc
Confidence 9999999999988655 2 3467888899998 5899999999999999999997 5589 899999999999
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccc
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (771)
+.| ++|............. ..+++.+|++++++++++||+ .|+.+.+..+++||+++||.++.|+||+++......
T Consensus 143 ~~g-~~V~~~~~~~i~~~~~--~~d~~~~L~~ik~~~~~~Iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~ 218 (370)
T cd06389 143 EKK-WQVTAINVGNINNDRK--DEAYRSLFQDLENKKERRVIL-DCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDG 218 (370)
T ss_pred cCC-ceEEEEEeecCCCccc--hHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEccCCcccc
Confidence 999 8887543211111111 158999999999999999999 999999999999999999999999999987644332
Q ss_pred cccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc------
Q 004136 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (771)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------ 348 (771)
+... ......++.++....+.. |..++|.++|++....+++...+..++..++++||||+++++|++++..
T Consensus 219 ~l~~--~~~~~~nitg~~~~~~~~-~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~ 295 (370)
T cd06389 219 DLSK--IQFGGANVSGFQIVDYDD-PLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS 295 (370)
T ss_pred chhh--hccCCcceEEEEEecCCC-chHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 2111 111233566777665555 7899999999875444444332346788999999999999999997632
Q ss_pred -------C-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCCc
Q 004136 349 -------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (771)
Q Consensus 349 -------~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~ 408 (771)
| |.+|..|.++|++++|+|+||+++||++|+|.+..++|++++++++++||.|++..|+.
T Consensus 296 ~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 296 RRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred cCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 1 45889999999999999999999999999999889999999999999999999988764
No 26
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=5.6e-39 Score=348.99 Aligned_cols=355 Identities=16% Similarity=0.197 Sum_probs=280.7
Q ss_pred EEEEEEeCCC----cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCH----HHHHHHHHHHHhcCCeEEEEcC
Q 004136 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDP----FQAATAAQELINKEKVKVIAGM 104 (771)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~----~~a~~~~~~li~~~~v~aviGp 104 (771)
+||+++|.+. ..-.....|+++|+++||+++ +|++|++.+.|+++++ ..+...+..+...+++.+||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~a~~lAieeiN~~g~il~g~~l~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~v~aviGp 80 (399)
T cd06384 1 TLAVVLPDNNLKYAWAWPRVGPAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPDVFFGP 80 (399)
T ss_pred CeEEECCCCCCCCeeehhhhHHHHHHHHHHHhccCCcCCCceEEEEEeccCCccccchhhhHHHHHHHHhhcCCCEEECC
Confidence 4889998762 234567789999999999997 5899999999986553 3333333222224678999999
Q ss_pred CchHhHHHHHHhhccCCccEEeecCCCCCCCccC--CCCceEEEeecCcHHHHHHHHHHHHHcCCe-EEEEEEEeCCCCC
Q 004136 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGG 181 (771)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~-~v~ii~~~~~~g~ 181 (771)
.||..+.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at--~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~ 158 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAP--AFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDD 158 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccc--hhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccC
Confidence 99999999999999999999999999 888876 478999999999999999988888999999 6889997643320
Q ss_pred --CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 182 --DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 182 --~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
.....+.+.+.+++.| ++|+....+..+. +|++.+|+++++ ++|+|++ +++..++..++++|+++||.+
T Consensus 159 ~~~~~~~~~~~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~-~~~vIi~-~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 159 RPHYFISEGVFLALQEEN-ANVSAHPYHIEKN------SDIIEIIQFIKQ-NGRIVYI-CGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred CcceEehHHHHHHHHhcC-ceEEEEEEeccch------hhHHHHHHHHhh-cccEEEE-eCCchHHHHHHHHHHHcCCCC
Confidence 0124566788888899 9988765544333 679999999997 8999999 999999999999999999999
Q ss_pred CCeEEEeeCccccccc-----c--------cChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCC-
Q 004136 260 KDSVWIVTNTVANALD-----S--------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP- 325 (771)
Q Consensus 260 ~~~~~i~~~~~~~~~~-----~--------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~- 325 (771)
+.|+||..+....... . ......+++++++.+..+.+.. +.+++|.++|++++...+.. +..|
T Consensus 230 ~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~-~~~~~F~~~~~~~~~~~~~~--~~~p~ 306 (399)
T cd06384 230 GDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPEN-PEYKEFQRELHARAKEDFGV--ELEPS 306 (399)
T ss_pred CcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCC-chHHHHHHHHHHHHhhhcCC--CcCcc
Confidence 9999998775442211 0 0123335788888887776665 78899999998865433321 1123
Q ss_pred --chhhhhHhHHHHHHHHHHHhhc---cCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEE---EEeeCCceEE
Q 004136 326 --SIHALRAHDSIKIITEAIGRLN---YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI---VNVVGKKYKE 397 (771)
Q Consensus 326 --~~~a~~~YDav~~~a~Al~~~~---~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I---~~~~~~~~~~ 397 (771)
+.+++++|||+++++.|++++. ..+.++..|+++|++++|+|++|+++||++|+|. ..+.+ .++++|+++.
T Consensus 307 ~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~ 385 (399)
T cd06384 307 LMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLWAMTDHETGKYEV 385 (399)
T ss_pred hHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEEEeecCCCCeEEE
Confidence 6679999999999999999973 2246899999999999999999999999999996 66777 4668899999
Q ss_pred EEEecCCC
Q 004136 398 LDFWLPNF 405 (771)
Q Consensus 398 vg~w~~~~ 405 (771)
||.|+..+
T Consensus 386 v~~~~~~~ 393 (399)
T cd06384 386 VAHYNGIT 393 (399)
T ss_pred EEEEcCCC
Confidence 99998854
No 27
>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=9.5e-39 Score=340.32 Aligned_cols=345 Identities=15% Similarity=0.241 Sum_probs=278.5
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC----CCcEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS----RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~----~g~~i~l~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+||+.+. .+...|+++|++.+|.+. .+.++...+.. ...|...+.+.+|+++ +++|.|||||.+|..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~gV~AI~Gp~ss~~~ 76 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQY-SRGVFAIFGLYDKRSV 76 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHH-hCCceEEEecCCHHHH
Confidence 4899998653 456799999999999865 12455544333 4579999999999999 8999999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.+++++|+..+||+|+++++ . ...+.+.+++.|+ +..++++++++++|+++++||+++ +| ...++.|.
T Consensus 77 ~~v~~i~~~~~IP~I~~~~~--~----~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~-~~--~~~lq~l~ 144 (371)
T cd06388 77 HTLTSFCSALHISLITPSFP--T----EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTD-RG--YSILQAIM 144 (371)
T ss_pred HHHHHHhhCCCCCeeecCcc--c----cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCC-cc--HHHHHHHH
Confidence 99999999999999998654 2 2344556666676 568888899999999999999644 45 66688999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+.+++.| ++|+.....+... .|++.+|++++++++++||+ .|+++.+..+++||+++||..++|+||+++..
T Consensus 145 ~~~~~~g-~~v~~~~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~ 216 (371)
T cd06388 145 EKAGQNG-WQVSAICVENFND------ASYRRLLEDLDRRQEKKFVI-DCEIERLQNILEQIVSVGKHVKGYHYIIANLG 216 (371)
T ss_pred HhhHhcC-CeeeeEEeccCCc------HHHHHHHHHhcccccEEEEE-ECCHHHHHHHHHHHHhcCccccceEEEEccCc
Confidence 9999999 8888755433322 58999999999999999999 99999999999999999999999999998864
Q ss_pred cccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc---
Q 004136 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN--- 347 (771)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~--- 347 (771)
....+. .+......++.++....+.. +..++|.++|.+.+...++.. +..|...++++||||+++++|++++.
T Consensus 217 ~~~~~l--~~~~~g~~nitg~~~~~~~~-~~v~~~~~~~~~~~~~~~~~~-~~~~~~~aAl~YDaV~l~a~A~~~l~~~~ 292 (371)
T cd06388 217 FKDISL--ERFMHGGANVTGFQLVDFNT-PMVTKLMQRWKKLDQREYPGS-ESPPKYTSALTYDGVLVMAEAFRNLRRQK 292 (371)
T ss_pred cccccH--HHHhccCCceEEEEeecCCC-hhHHHHHHHHHhcCccccCCC-CCCccchHHHHHHHHHHHHHHHHHHHhcC
Confidence 332221 11112233367777765555 789999999988877666432 13578899999999999999999753
Q ss_pred ----------cC-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCCc
Q 004136 348 ----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (771)
Q Consensus 348 ----------~~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~ 408 (771)
.| |..|..|+++|++++|+|+||+++||++|+|.+..++|+++++.++++||.|++..|+.
T Consensus 293 ~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 293 IDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred CCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 11 45568899999999999999999999999999889999999999999999999988764
No 28
>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=5.1e-39 Score=346.02 Aligned_cols=343 Identities=18% Similarity=0.168 Sum_probs=276.5
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
|||++.|+| +..|...+.|+++|+++||+++ +|+++++++.|++|++..++..+.++ +++|.+||||.||..
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~ 78 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVNPGY 78 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCCchH
Confidence 699999998 4567889999999999999997 57999999999999988777554443 578999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
+.+++++++.++||+|+++++ ++.+++ ..||+++|+.|++ +.++++++++|+|+++++|++++++| ....+.
T Consensus 79 ~~a~a~va~~~~iP~Is~~a~--~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~--~~~~~~ 151 (382)
T cd06371 79 CEAAALLAKEWDKALFSWGCV--NYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIW--VETAQK 151 (382)
T ss_pred HHHHHHHHHhcCceEEecccC--chhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccch--HHHHHH
Confidence 999999999999999999999 899987 6789999999986 56788899999999999999999998 888999
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC-ceEEEEEecCh-----hHHHHHHHHHHHcCCCCCCe
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASL-----DMTIHLFTEANRMGLVGKDS 262 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vIv~~~~~~-----~~~~~il~~a~~~g~~~~~~ 262 (771)
+.+.+++.| ++|+..+.++.+. .|++.+|+++++.+ +|+|++ +++. .++..+++||+++||++.+|
T Consensus 152 l~~~l~~~g-i~v~~~~~~~~~~------~d~~~~L~~lk~~~~~~viv~-~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y 223 (382)
T cd06371 152 LASALRAHG-LPVGLVTSMGPDE------KGAREALKKVRSADRVRVVIM-CMHSVLIGGEEQRLLLETALEMGMTDGRY 223 (382)
T ss_pred HHHHHHHCC-CcEEEEEEecCCH------HHHHHHHHHHhcCCCcEEEEE-EeeccccCcHHHHHHHHHHHHcCCcCCcE
Confidence 999999999 9999888777655 68999999999987 699998 7765 78889999999999999999
Q ss_pred EEEeeCcccccc-------cc--cChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhccc-CCCCCC-CCCCchhhhh
Q 004136 263 VWIVTNTVANAL-------DS--LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTS-EYPEED-HFHPSIHALR 331 (771)
Q Consensus 263 ~~i~~~~~~~~~-------~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~-~~~~~~~a~~ 331 (771)
+||.++...... .. .+....++.++++.+.+..+. .+|.++|++.+.. ..+... ...++.+++.
T Consensus 224 ~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 298 (382)
T cd06371 224 VFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGE-----QSFYEAFRAAQERGEIPSDLEPEQVSPLFGT 298 (382)
T ss_pred EEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCC-----CcHHHHHHHHHhcCCCCCCCCccccchhHHH
Confidence 999988532111 00 012222567777776654322 2344444444321 111110 1124456678
Q ss_pred HhHHHHHHHHHHHhhccC--CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEe
Q 004136 332 AHDSIKIITEAIGRLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFW 401 (771)
Q Consensus 332 ~YDav~~~a~Al~~~~~~--~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w 401 (771)
+|||++++++|++++.+. ..++.+++++|++++|+|++|+++||++|++. ..|.|+++++.+++-+-++
T Consensus 299 ~YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~~-~~~~v~~~~~~~~~~~~~~ 369 (382)
T cd06371 299 IYNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGGQ-APYVVLDTDGKGDQLYPTY 369 (382)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCcc-cceEEEecCCCCCeeeeeE
Confidence 999999999999998631 26899999999999999999999999999986 9999999988766655444
No 29
>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=1.5e-38 Score=336.64 Aligned_cols=355 Identities=17% Similarity=0.256 Sum_probs=268.9
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEE-ecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~-~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
.||+||+... ...+.|+++|++++|.+. ++.++.+.+ .++.+|+..+..++|+|+ +++|.|||||.++..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~-~~gV~AI~Gp~s~~~a~ 76 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLM-TQGILALVTSTGCASAN 76 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHH-hcCeEEEECCCchhHHH
Confidence 4899998764 356899999999999776 678999888 899999999999999999 89999999999999999
Q ss_pred HHHHhhccCCccEEeecCCC---------CCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCC
Q 004136 112 VVAEIASRVQVPILSFAAPA---------VTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~---------~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~ 182 (771)
.++++|+..+||+|++++.+ ..|.++.. +|.+.+.|+ ..+.+|+++++.+|+|++|++|| |++||
T Consensus 77 ~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~--~~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~g-- 150 (400)
T cd06392 77 ALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGE--EYTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYD-- 150 (400)
T ss_pred HHHHHhccCcCCcEeecccccccccccccCCCCcCcC--ceeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECccc--
Confidence 99999999999999986520 02333333 455566666 57888999999999999999999 67888
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCC---CCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISS---ISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~---~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
....+.+.+.+.+.+ .+|.... +....+ ....++.....|.+++..+ ++||+ .|+++.+..++++|.++||..
T Consensus 151 l~~lq~L~~~~~~~~-~~I~~~~-v~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv-~~s~~~~~~il~qA~~lgM~~ 226 (400)
T cd06392 151 IRGLQSFLDQASRLG-LDVSLQK-VDRNISRVFTNLFTTMKTEELNRYRDTL-RRAIL-LLSPRGAQTFINEAVETNLAS 226 (400)
T ss_pred HHHHHHHHHHHhhcC-ceEEEEE-cccCcchhhhhHHHHHHHhhhhhccccc-eEEEE-EcCcHHHHHHHHHHHHhCccc
Confidence 888888888888888 8887544 221110 0000112233334444334 88888 899999999999999999999
Q ss_pred CCeEEEeeCcccccccccChhhhhccc-cEEEEEeeccCCChhHHHHH----HHHHHhcccCCCCCCCCCCchhhhhHhH
Q 004136 260 KDSVWIVTNTVANALDSLNTTVISSME-GTLGIKSYYSDDSSPYKEFS----ALFRRNFTSEYPEEDHFHPSIHALRAHD 334 (771)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~a~~~YD 334 (771)
++|+||+++......+.. +...... ++.++....+.. ....++. .+|++........ ....+..+++++||
T Consensus 227 ~~y~wI~t~~~~~~~dl~--~~~~g~~~niT~~r~~~~~~-~~~~~~~~~~~~r~~~~~~~~~~~-~~~~l~~~aalayD 302 (400)
T cd06392 227 KDSHWVFVNEEISDTEIL--ELVHSALGRMTVIRQIFPLS-KDNNQRCIRNNHRISSLLCDPQEG-YLQMLQVSNLYLYD 302 (400)
T ss_pred CCeEEEEecCCcccccHH--HHhcccccceeeEEEecCCc-HHHHHHHHHHHHHHHhhhcccccc-cccccchhHHHHHH
Confidence 999999999976543221 1112222 344577765554 3344443 4554332221110 01146789999999
Q ss_pred HHHHHHHHHHhhc-----------cC-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-----
Q 004136 335 SIKIITEAIGRLN-----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV----- 391 (771)
Q Consensus 335 av~~~a~Al~~~~-----------~~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~----- 391 (771)
||+++|+|+++.. .| |..|..|+++|++++|+|+||+|.|+++|.|.+..|+|++++
T Consensus 303 aV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~~~~~~ 382 (400)
T cd06392 303 SVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTSYSETF 382 (400)
T ss_pred HHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEeccccccC
Confidence 9999999999742 11 567999999999999999999999999999999999999965
Q ss_pred CCceEEEEEecCCCCCc
Q 004136 392 GKKYKELDFWLPNFGFS 408 (771)
Q Consensus 392 ~~~~~~vg~w~~~~~~~ 408 (771)
+.++++||.|++..|++
T Consensus 383 g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 383 GKDVRRLATWDSEKGLN 399 (400)
T ss_pred CCCceEeEEecCCCCCC
Confidence 56699999999988764
No 30
>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=3.4e-38 Score=333.08 Aligned_cols=345 Identities=17% Similarity=0.261 Sum_probs=284.2
Q ss_pred EEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CC-cEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDS---RN-HKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g-~~i~l~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
||+||+.+. .+.+.||+.|++++|.+. +. .++...+.. ...|...+.+++|+++ ++||.||+||.++..+.
T Consensus 2 iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~-~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 2 IGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQF-SRGVYAIFGFYDQMSMN 77 (372)
T ss_pred cceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHh-hcccEEEEecCCHhHHH
Confidence 799998653 467899999999999875 22 366553332 3679999999999999 89999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
.+.++|...+||+|.+... .+...++.+++.|+ +.+|+++++++|+|+++.+|| |+++| ....+.+.+
T Consensus 78 ~v~s~c~~~~iP~i~~~~~------~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~g--l~~Lq~L~~ 145 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP------TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERG--FSILQAIME 145 (372)
T ss_pred HHHHhhccccCCeeeeCCC------CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchh--HHHHHHHHH
Confidence 9999999999999987543 12445788999999 799999999999999999999 55678 777788888
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
.+...+ ..|......+... ..+++..++++++.+.++||+ .|+++.+..++++|.++||.+++|+||+++...
T Consensus 146 ~~~~~~-~~V~~~~v~~~~~-----~~~~~~~l~el~~~~~r~iIl-d~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~ 218 (372)
T cd06387 146 AAVQNN-WQVTARSVGNIKD-----VQEFRRIIEEMDRRQEKRYLI-DCEVERINTILEQVVILGKHSRGYHYMLANLGF 218 (372)
T ss_pred hhccCC-ceEEEEEeccCCc-----hHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHcCccccceEEEEecCCc
Confidence 888888 7776543222111 146899999999999999999 999999999999999999999999999998654
Q ss_pred ccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc---
Q 004136 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY--- 348 (771)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~--- 348 (771)
...+.. +......+++++....+.. +..++|.++|++.....++......+..+++++||||+++|+|++++..
T Consensus 219 ~~~dl~--~~~~g~~NItg~rl~~~~~-~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~ 295 (372)
T cd06387 219 TDISLE--RVMHGGANITGFQIVNNEN-PMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRV 295 (372)
T ss_pred ccccHH--HhccCCcceeEEEEecCCC-chHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 433221 1112334499999998877 7899999999887766666544445678999999999999999996421
Q ss_pred ----------C-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCC
Q 004136 349 ----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (771)
Q Consensus 349 ----------~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~ 407 (771)
| |..|..|.++|++++|+|+||++.|+++|.|.+..++|+++.+.++++||.|++..|+
T Consensus 296 ~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 296 DVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred CcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 1 5678999999999999999999999999999999999999999999999999998875
No 31
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=9.4e-39 Score=338.77 Aligned_cols=319 Identities=20% Similarity=0.304 Sum_probs=267.5
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCC-CCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
+||+++++ ..|....+|+++|+++||+++ +|++|++++.|++ +++..+.+.+|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~-~~V~aiiG~~~S~~~~ 77 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQ-QGVAAIFGPSSSEASS 77 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhh-cCcEEEECCCChhHHH
Confidence 59999997 568999999999999999998 4899999999998 899999999999995 5999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
+++++++.+++|+|+++++ ++.++ .++++||+.|++..++.++++++++++|+++++++++++++ .. +++
T Consensus 78 av~~~~~~~~vP~Is~~~~--~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~--~~----l~~ 147 (327)
T cd06382 78 IVQSICDAKEIPHIQTRWD--PEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL--LR----LQE 147 (327)
T ss_pred HHHHHHhccCCCceeccCC--cCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH--HH----HHH
Confidence 9999999999999999888 67665 46899999999999999999999999999999999998765 43 445
Q ss_pred HHhccCCe---EEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 192 ALQNVSSS---EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 192 ~~~~~g~~---~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
.+++.+ . .+.. +.++... |++.+|.++++.++|+|++ .+...++..++++|+++||.++.|+|+.++
T Consensus 148 ~~~~~~-~~g~~v~~-~~~~~~~-------d~~~~l~~i~~~~~d~vv~-~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~ 217 (327)
T cd06382 148 LLQAFG-ISGITITV-RQLDDDL-------DYRPLLKEIKNSGDNRIII-DCSADILIELLKQAQQVGMMSEYYHYIITN 217 (327)
T ss_pred HHHhhc-cCCCeEEE-EEccCCc-------cHHHHHHHHHhcCceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEec
Confidence 555444 3 3443 3444322 5999999999999999999 999999999999999999999999999977
Q ss_pred cccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
......... .......++.++.+..++. |.+++|.++|+++|...++......|+.+++.+|||++++
T Consensus 218 ~~~~~~~l~--~~~~~~~~~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~--------- 285 (327)
T cd06382 218 LDLHTLDLE--DYRYSGVNITGFRLVDPDS-PEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF--------- 285 (327)
T ss_pred CCccccchh--hhccCceeEEEEEEecCCc-hhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe---------
Confidence 755432221 1112233566666666655 7899999999999965433322335778899999999988
Q ss_pred CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCC
Q 004136 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~ 407 (771)
|+||+|.||++|+|.+..++|++++++++++||.|+++.|+
T Consensus 286 ------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 99999999999999999999999999999999999998765
No 32
>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=9e-38 Score=334.60 Aligned_cols=353 Identities=18% Similarity=0.277 Sum_probs=275.6
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEE--EEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKL--SLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i--~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+||+.++.. .+.|+++|++++|++. ++++| .+...|++ |+..+..++|+++ +++|.|+|||.++..+
T Consensus 1 ~IGaif~~~s~~---~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~-~~gv~ai~Gp~~~~~~ 75 (400)
T cd06391 1 HIGAIFDESAKK---DDEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELM-NQGILALVSSIGCTSA 75 (400)
T ss_pred CcceeeccCCch---HHHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHH-hCCeEEEECCCcchHH
Confidence 489999998643 3569999999999876 67744 45888995 9999999999999 8899999999888888
Q ss_pred HHHHHhhccCCccEEee----cCCCCC-----CCccC--CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 004136 111 AVVAEIASRVQVPILSF----AAPAVT-----PLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~----~a~~~~-----~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~ 179 (771)
..++.+|+.++||+|++ .++ + +.+++ ..||+++| |+ ..+++++++++++|+|++++++++ +++
T Consensus 76 ~~v~~~~~~~~vP~i~~~~~~~~t--~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~d-~~~ 149 (400)
T cd06391 76 GSLQSLADAMHIPHLFIQRSTAGT--PRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFYD-TDY 149 (400)
T ss_pred HHHHHHhccCcCCeEEeecccccC--ccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEEe-CCc
Confidence 99999999999999974 333 1 23332 46677777 54 688999999999999999997654 567
Q ss_pred CCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCch-HHHHH-HHHHhhh--CCceEEEEEecChhHHHHHHHHHHHc
Q 004136 180 GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPK-EAVRG-ELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRM 255 (771)
Q Consensus 180 g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~-~~~~~-~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~ 255 (771)
| ....+.+.+.+++.| +||.... +.... .++. ..+.. .++++++ ++.++||+ .|+.+.+..++++|+++
T Consensus 150 ~--~~~l~~l~~~~~~~~-i~I~~~~-~~~~~--~~~~~~~~~~~~~~~l~~~~~~~rviVl-~~~~~~~~~ll~~a~~~ 222 (400)
T cd06391 150 D--IRGIQEFLDKVSQQG-MDVALQK-VENNI--NKMITGLFRTMRIEELNRYRDTLRRAIL-VMNPATAKSFITEVVET 222 (400)
T ss_pred c--HHHHHHHHHHHHHcC-CeEEEEe-cCcch--hhhhHHHHHHHHHHHHHhhcccccEEEE-ECCcHHHHHHHHHHHHc
Confidence 7 777889999999999 9998633 22111 0100 11222 4455654 56799999 99999999999999999
Q ss_pred CCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCC--CCCC-CCCCchhhhhH
Q 004136 256 GLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEY--PEED-HFHPSIHALRA 332 (771)
Q Consensus 256 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~-~~~~~~~a~~~ 332 (771)
||.+++|+||+++......+..+ .......|+.++.++.+.. ....+|..++..++.... +... ...+..+++++
T Consensus 223 gm~~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~-~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~ala 300 (400)
T cd06391 223 NLVAFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLP-QNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYI 300 (400)
T ss_pred CCCCCCeEEEEeCccccccccch-HHhcccceEEEeccCCchH-HHHHHHHHHHhhhccccccCccccccccccchhhHH
Confidence 99999999999999887766532 2233456677777766654 567777777777653221 2211 12356889999
Q ss_pred hHHHHHHHHHHHhhcc------------------CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee---
Q 004136 333 HDSIKIITEAIGRLNY------------------NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV--- 391 (771)
Q Consensus 333 YDav~~~a~Al~~~~~------------------~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~--- 391 (771)
||||+++|+|++++.. -|..|..|+++|++++|+|+||++.|+++|.|.+..|+|+++.
T Consensus 301 yDaV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~ 380 (400)
T cd06391 301 YDTVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNYGE 380 (400)
T ss_pred HHHHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeeccc
Confidence 9999999999997621 1567999999999999999999999999999999999999996
Q ss_pred --CCceEEEEEecCCCCCc
Q 004136 392 --GKKYKELDFWLPNFGFS 408 (771)
Q Consensus 392 --~~~~~~vg~w~~~~~~~ 408 (771)
+.++++||.|++..|++
T Consensus 381 ~~~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 381 DLGRGVRKLGCWNPITGLN 399 (400)
T ss_pred cCCCcceEEEEEcCCcCCC
Confidence 78999999999988763
No 33
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=1.6e-37 Score=332.67 Aligned_cols=334 Identities=16% Similarity=0.212 Sum_probs=288.2
Q ss_pred CCcEEEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc
Q 004136 32 EEVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (771)
Q Consensus 32 ~~~I~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 106 (771)
+++|+||++.|+|+ ..|.....|+++|++++|+.+ .|++|+++++|++++|..+.+++++|+ +++|.+|||+.+
T Consensus 23 ~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li-~~~V~~iiG~~~ 101 (369)
T PRK15404 23 ADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVV-NDGIKYVIGHLC 101 (369)
T ss_pred CCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHH-hCCceEEEcCCC
Confidence 36899999999994 468899999999999999988 589999999999999999999999999 589999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcch
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
|..+.+++++++..++|+|++.++ ++.+++..++|+||+.+.+..++.++++++ ++++|+++++|++++.|| ++.
T Consensus 102 s~~~~a~~~~~~~~~ip~i~~~s~--~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g--~~~ 177 (369)
T PRK15404 102 SSSTQPASDIYEDEGILMITPAAT--APELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYG--EGL 177 (369)
T ss_pred chhHHHhHHHHHHCCCeEEecCCC--CHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchh--HHH
Confidence 999999999999999999999988 888887778999999999999999999987 556999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+++.+++.| ++++....++... +|+..++.++++.++|+|++ .....+...++++++++|+.. .|+
T Consensus 178 ~~~~~~~~~~~G-~~v~~~~~~~~g~------~D~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~k~~~~~G~~~---~~i 246 (369)
T PRK15404 178 ARSVKDGLKKAG-ANVVFFEGITAGD------KDFSALIAKLKKENVDFVYY-GGYHPEMGQILRQAREAGLKT---QFM 246 (369)
T ss_pred HHHHHHHHHHcC-CEEEEEEeeCCCC------CchHHHHHHHHhcCCCEEEE-CCCchHHHHHHHHHHHCCCCC---eEE
Confidence 999999999999 9999888888766 67999999999999999998 888888999999999999875 466
Q ss_pred eeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHh
Q 004136 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (771)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (771)
++..... .. ......+..+|+++..+.....+|..++|.++|++++ +..++.++..+||++++++.|+++
T Consensus 247 ~~~~~~~-~~-~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~Y~~~~~l~~Al~~ 316 (369)
T PRK15404 247 GPEGVGN-KS-LSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--------QDPSGPFVWTTYAAVQSLAAGINR 316 (369)
T ss_pred ecCcCCC-HH-HHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--------CCCCccchHHHHHHHHHHHHHHHh
Confidence 6543321 11 1111225678887765544444578899999998875 223456778999999999999999
Q ss_pred hccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCC
Q 004136 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGK 393 (771)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~ 393 (771)
++. .+++.|.++|++.+|+|++|+++|+++|++....|.|+|++++
T Consensus 317 aG~--~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~ 362 (369)
T PRK15404 317 AGS--DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHAD 362 (369)
T ss_pred hCC--CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcC
Confidence 987 6899999999999999999999999999887788999988754
No 34
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=5e-38 Score=326.65 Aligned_cols=325 Identities=18% Similarity=0.310 Sum_probs=259.0
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHH-HHHHHHHHHHhcCCeEEEEcCCchHh-H
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPF-QAATAAQELINKEKVKVIAGMETWEE-T 110 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~-~a~~~~~~li~~~~v~aviGp~~s~~-~ 110 (771)
+||+|++..+..|...+.|+++|++++|+++ ++.+|++++.|...++. .+..++|+++ +++|.|||||.+|.. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l-~~gV~AIiGp~ss~~~~ 79 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQIL-PKGVVSVLGPSSSPASS 79 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHH-hcCeEEEECCCCchHHH
Confidence 4899999998899999999999999999986 34599999999988775 7788899999 789999999999965 5
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.+++++|+..+||+|+++++. +|.+...+++. .++.|++..+++|+++++++|+|+++++||+++++ ...|+
T Consensus 80 ~~v~~i~~~~~VP~Is~~~~~-~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~------l~~L~ 151 (333)
T cd06394 80 SIVSHICGEKEIPHFKVGPEE-TPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC------LLRLE 151 (333)
T ss_pred HHHHHHhhccCCceEEecccc-CcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH------HHHHH
Confidence 799999999999999987551 13333344444 79999999999999999999999999999999886 34455
Q ss_pred HHHhccCC--eEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 191 EALQNVSS--SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 191 ~~~~~~g~--~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+.++.... ..+... ... +. .+++.+|+++++.++|+||+ .|+.+.+..++++|+++||..+.|+|++++
T Consensus 152 ~~l~~~~~~~~~i~~~-~~~-~~------~d~~~~L~~ik~~~~~~iVv-~~~~~~a~~il~qa~~lGm~~~~y~~i~T~ 222 (333)
T cd06394 152 ELLRQFLISKETLSVR-MLD-DS------RDPTPLLKEIRDDKTATIII-DANASMSHTILLKASELGMTSAFYKYILTT 222 (333)
T ss_pred HHHHhhcccCCceeeE-Ecc-Cc------ccHHHHHHHHHhcCCCEEEE-ECChHHHHHHHHHHHHcCCCCCceEEEEec
Confidence 55544330 122211 111 11 57999999999999999999 999999999999999999999999999998
Q ss_pred cccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
......+..+. ......+.+++...+.. |..++|.++|+++|.+......-......+++.||||+++
T Consensus 223 l~~~~~~L~~~--~~~~~niTgF~l~d~~~-~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~--------- 290 (333)
T cd06394 223 MDFPLLRLDSI--VDDRSNILGFSMFNQSH-AFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV--------- 290 (333)
T ss_pred CCcccccHHHh--hcCCcceEEEEeecCCc-HHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE---------
Confidence 87653222111 11245567788777766 8999999999887743211111111234689999999988
Q ss_pred CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCCc
Q 004136 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~~ 408 (771)
|+||+|.||++|.|.+..++|++++..+.++||.|++..|++
T Consensus 291 ------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 ------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred ------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 999999999999999999999999999999999999988764
No 35
>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=100.00 E-value=1.5e-36 Score=323.70 Aligned_cols=327 Identities=22% Similarity=0.289 Sum_probs=284.6
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+|+ ..|.+...|+++|++++|+++ +|++|++++.|+++++..+.+.+.+|+.+ +|.+|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhH
Confidence 5999999994 578899999999999999987 68999999999999999999999999955 99999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.+++++++..+||+|+++++ ++.+.+..+|++||+.|++..++.++++++ ++++|+++++++.+++|| ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~~~~~~ 155 (334)
T cd06342 80 IPASPIYADAGIVMISPAAT--NPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYG--QGLADEF 155 (334)
T ss_pred HHhHHHHHhCCCeEEecCCC--CchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchh--hHHHHHH
Confidence 99999999999999999887 677766778999999999999999999987 578999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++|+....++... +++...++++++.++++|++ .+...++..++++++++|+.. .|++++.
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~l~~i~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (334)
T cd06342 156 KKALKAAG-GKVVAREGTTDGA------TDFSAILTKIKAANPDAVFF-GGYYPEAGPLVRQMRQLGLKA---PFMGGDG 224 (334)
T ss_pred HHHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cCcchhHHHHHHHHHHcCCCC---cEEecCc
Confidence 99999999 9999988887665 67999999999999999999 889999999999999999964 4666654
Q ss_pred ccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
+... .......+..+|++...++.+. .++..++|.++|+++| +..++.++..+||+++++++|+++++.
T Consensus 225 ~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~al~~~~~ 294 (334)
T cd06342 225 LCDP--EFIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--------GDPPGAYAPYAYDAANVLAEAIKKAGS 294 (334)
T ss_pred cCCH--HHHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--------CCCCchhHHHHHHHHHHHHHHHHHhCC
Confidence 3211 1111122456788777665543 3478899999998877 334577889999999999999999876
Q ss_pred CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEe
Q 004136 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~ 390 (771)
.+++.+.++|++.+|+|++|+++|+++|++.+..++|+|+
T Consensus 295 --~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 --TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred --CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 7899999999999999999999999999999999999875
No 36
>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=100.00 E-value=3.8e-36 Score=330.27 Aligned_cols=382 Identities=20% Similarity=0.327 Sum_probs=320.5
Q ss_pred CCCcEEEEEEEeCC-------------CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhc
Q 004136 31 IEEVTKIGAIVDAN-------------SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINK 95 (771)
Q Consensus 31 ~~~~I~IG~i~p~s-------------~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~ 95 (771)
-+++|.||++||.+ -+.|.+...|+.+|+++||+.- ||.++.+.++|+|..+..|+++..+++..
T Consensus 28 ~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~ 107 (878)
T KOG1056|consen 28 IPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINNPDLLPNIKLGARILDTCSRSTYALEQSLSFVRA 107 (878)
T ss_pred CCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcCcccCCCceeeeeEeeccCCcHHHHHhhHHHHHh
Confidence 36899999999998 1467888999999999999822 89999999999999999999998888751
Q ss_pred ----------------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHH
Q 004136 96 ----------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCI 158 (771)
Q Consensus 96 ----------------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~ 158 (771)
..|.++||+..|+.+.+++.++...+||||+++++ ++.+++ .+|+||.|+.|+|..|+.||
T Consensus 108 ~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSt--s~~LSdk~ry~~F~RtVP~D~~Qa~Am 185 (878)
T KOG1056|consen 108 SLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYAST--SPDLSDKTRYDYFLRTVPSDVFQAQAM 185 (878)
T ss_pred cccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccC--CcccccchhhhceeeecCChHHHHHHH
Confidence 46889999999999999999999999999999999 999999 79999999999999999999
Q ss_pred HHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-CCceEEEE
Q 004136 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIV 237 (771)
Q Consensus 159 ~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~~vIv~ 237 (771)
++++++|+|++|..++++++|| +...++|++..+++| +||...+..+.... ...+...++++.+ .++++||+
T Consensus 186 ~~il~~f~W~yVstv~s~~dYG--E~Gieaf~~~a~~~~-iCIa~s~ki~~~~~----~~~~~~~l~kl~~~~~a~vvV~ 258 (878)
T KOG1056|consen 186 VDILKKFNWNYVSTVASEGDYG--ESGIEAFKEEAAERG-ICIAFSEKIYQLSI----EQEFDCVLRKLLETPNARVVVV 258 (878)
T ss_pred HHHHHHhCeeEeeehhcCccch--hhhHHHHHHhHHhcC-ceEEehhhcccccc----hhHHHHHHHHHhhcCCCeEEEE
Confidence 9999999999999999999999 999999999999999 99999877665531 2568888888887 79999999
Q ss_pred EecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHH-------
Q 004136 238 LQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFR------- 310 (771)
Q Consensus 238 ~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~------- 310 (771)
++.+++++.++++|++++++++ ++|+++++|....+... ......+|.+++.+..+.. +.+++|.++..
T Consensus 259 -F~~~~~~r~~~~aa~~~n~~g~-~~wiaSd~W~~~~~~~~-~~e~~a~g~i~i~l~~~~v-~~F~~y~~s~~p~nn~~n 334 (878)
T KOG1056|consen 259 -FCRGEDARRLLKAARRANLTGE-FLWIASDGWASQNSPTE-APEREAEGAITIKLASPQV-PGFDRYFQSLHPENNRRN 334 (878)
T ss_pred -ecCcchHHHHHHHHHHhCCCcc-eEEEecchhhccCChhh-hhhhhhceeEEEEecCCcc-hhHHHHHHhcCccccccC
Confidence 9999999999999999999984 79999999986443322 2224788999999988777 77888776642
Q ss_pred --------HhcccCCCCC-----------CC---------CCCchhhhhHhHHHHHHHHHHHhhccC-------------
Q 004136 311 --------RNFTSEYPEE-----------DH---------FHPSIHALRAHDSIKIITEAIGRLNYN------------- 349 (771)
Q Consensus 311 --------~~~~~~~~~~-----------~~---------~~~~~~a~~~YDav~~~a~Al~~~~~~------------- 349 (771)
..|+++.+.. .+ ..........+|||+.+|+||.++..+
T Consensus 335 ~w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~ 414 (878)
T KOG1056|consen 335 PWFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMK 414 (878)
T ss_pred cccchhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCcc
Confidence 2333333210 00 112235678999999999999988653
Q ss_pred CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC-C---ceEEEEEecCCCCCccccCCCccccccCcccc
Q 004136 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG-K---KYKELDFWLPNFGFSKTSSKHNVGDISSNIAA 425 (771)
Q Consensus 350 ~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~-~---~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~ 425 (771)
..+|..|.+++.+++|.|..|.+.||++||.. ..|+|++++. + .+.++|.|+....+++
T Consensus 415 ~~dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~~-~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~i---------------- 477 (878)
T KOG1056|consen 415 AIDGSLLLKYLLNVNFTGPAGSVRFDENGDGP-GRYDILNYQLTNGSYTYKEVGYWSEGLSLNI---------------- 477 (878)
T ss_pred ccCHHHHHhhhheeEEecCCCceeecCCCCCc-cceeEEEeeccCCCccceeeeeecccccccc----------------
Confidence 35899999999999999999999999999987 9999999974 2 7899999998764332
Q ss_pred CCCCcceecCCCCCCCCCCccc
Q 004136 426 EGFTGPVIWPGNLINRNPKGWA 447 (771)
Q Consensus 426 ~~~~~~i~Wp~~~~~~~p~~~~ 447 (771)
.++.|.++.. ..|+..+
T Consensus 478 ----~~~~w~~~~~-~v~~S~C 494 (878)
T KOG1056|consen 478 ----EDLDWTTKPS-GVPKSVC 494 (878)
T ss_pred ----eeeeeccCCC-CCccccc
Confidence 4688998877 7776655
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=100.00 E-value=4.2e-36 Score=321.43 Aligned_cols=327 Identities=19% Similarity=0.281 Sum_probs=278.2
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC------CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS------RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~------~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 106 (771)
|||+++|+| +..|.....|+++|++++|++| .|++|+++.+|++++|..+++++++|+.+++|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999999 4568899999999999999965 3699999999999999999999999997779999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcC--CeEEEEEEEeCCCCCCcc
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSG 184 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~--w~~v~ii~~~~~~g~~~~ 184 (771)
|..+.+++++++..++|+|+++++ ++.+....+|++||+.|++..++.++++++++++ |+++++++.+++|| ..
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~ 156 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGA--SDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFS--QD 156 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCC--CchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCccc--HH
Confidence 999999999999999999999988 7777766789999999999999999999999887 99999999999999 99
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (771)
..+.+++.+++.| ++|+....++... +|++.+++++++.++|+|++ .+...++..++++++++|+..+ .+
T Consensus 157 ~~~~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~--~~ 226 (345)
T cd06338 157 VAEGAREKAEAAG-LEVVYDETYPPGT------ADLSPLISKAKAAGPDAVVV-AGHFPDAVLLVRQMKELGYNPK--AL 226 (345)
T ss_pred HHHHHHHHHHHcC-CEEEEEeccCCCc------cchHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCCC--EE
Confidence 9999999999999 9999888887655 57999999999999999999 9999999999999999999876 22
Q ss_pred EeeCcccccccccChhhhhccccEEEEEeeccCC------ChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHH
Q 004136 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDD------SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (771)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (771)
..+..... .... .......+|++....+.+.. +|..++|.++|+++|. ..|+.++..+||++++
T Consensus 227 ~~~~~~~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~a~~~ 296 (345)
T cd06338 227 YMTVGPAF-PAFV-KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG--------KAPDYHAAGAYAAGQV 296 (345)
T ss_pred EEecCCCc-HHHH-HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC--------CCCCcccHHHHHHHHH
Confidence 22222111 0011 11223457777765544332 3678999999999883 3466778999999999
Q ss_pred HHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEE
Q 004136 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (771)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~ 389 (771)
+++|+++++. .+++.+.++|++++|+|++|+++|+++|++. ..+.+++
T Consensus 297 ~~~a~~~ag~--~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~ 344 (345)
T cd06338 297 LQEAVERAGS--LDPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQ 344 (345)
T ss_pred HHHHHHHhCC--CCHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeee
Confidence 9999999987 7999999999999999999999999999886 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=100.00 E-value=7.4e-36 Score=318.98 Aligned_cols=320 Identities=20% Similarity=0.265 Sum_probs=273.7
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+| +..|+....|+++|++++|+++ +|++|+++++|++++|..+++.+++|+.+++|.+||||.+|..+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 80 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVV 80 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHH
Confidence 699999999 4679999999999999999988 58999999999999999999999999976799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC----CCCceEEEeecCcHHHHHHHHHHHHH-----cCCeEEEEEEEeCCCCC
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS----RRWPYLIRMASNDSEQMKCIADLARK-----YNWRRVAAIYEDNVYGG 181 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~----~~~p~~fr~~p~~~~~~~a~~~~l~~-----~~w~~v~ii~~~~~~g~ 181 (771)
.+++++++..++|+|+++++ ++.++. ..+|++||+.|++..++.++++++++ ++|+++++++.+++||
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g- 157 (344)
T cd06345 81 LALQDVAAENKVPFIVTGAA--SPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWG- 157 (344)
T ss_pred HHHHHHHHHcCCcEEeccCC--CCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhh-
Confidence 99999999999999999888 777763 57899999999999999999999876 8999999999999999
Q ss_pred CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 182 ~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
....+.+++.+++.| ++|+....++... ++++.++.++++.++|+|++ .+.+.+...++++++++|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~- 227 (344)
T cd06345 158 -KGIDAGIKALLPEAG-LEVVSVERFSPDT------TDFTPILQQIKAADPDVIIA-GFSGNVGVLFTQQWAEQKVPIP- 227 (344)
T ss_pred -hHHHHHHHHHHHHcC-CeEEEEEecCCCC------CchHHHHHHHHhcCCCEEEE-eecCchHHHHHHHHHHcCCCCc-
Confidence 999999999999999 9999888887665 57999999999999999999 9999999999999999998654
Q ss_pred eEEEeeCcccccccccChhhhhccccEEEEEeecc---CCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHH
Q 004136 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS---DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (771)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (771)
++....+...... ........++.+....+.+ ..++..++|.++|+++| +..|+.+++.+||++++
T Consensus 228 --~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~yda~~~ 296 (344)
T cd06345 228 --TIGISVEGNSPAF-WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--------GGPPNYMGASTYDSIYI 296 (344)
T ss_pred --eEEecCCcCCHHH-HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--------CCCCcccchHHHHHHHH
Confidence 3333322111111 1112234566654443332 13477899999999887 34577889999999999
Q ss_pred HHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCC
Q 004136 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (771)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~ 381 (771)
+++|+++++. .+++.+.++|++.+|+|++|+++||++|++.
T Consensus 297 l~~A~~~ag~--~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 297 LAEAIERAGS--TDGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred HHHHHHHhcC--CCHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 9999999987 6899999999999999999999999999986
No 39
>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=100.00 E-value=4.3e-36 Score=315.79 Aligned_cols=303 Identities=19% Similarity=0.286 Sum_probs=262.7
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+|+ ..|+....|+++|+++||+.+ .|++|+++++|++++|..+++++++|+.+++|.+|+||.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~ 80 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhh
Confidence 6999999994 568899999999999999998 58999999999999999999999999977799999999999999
Q ss_pred HHH-HHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 004136 111 AVV-AEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 111 ~~v-~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
.++ +++++..++|+|+++++ ++.++. ..++|+||+.|++..++.++++++++++|+++++|+.+++|| ....+.
T Consensus 81 ~a~~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g--~~~~~~ 156 (312)
T cd06346 81 IAALTSVAVPNGVVMISPSST--SPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYG--VGLADA 156 (312)
T ss_pred HhhhhhhhccCCcEEEecCCC--CccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchh--hHHHHH
Confidence 999 89999999999999998 888877 567899999999999999999999999999999999999999 999999
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+++.+++.| ++|+....++..+ +|++.+++++++.++|+|++ .+.+.++..++++++++|+..+ |++++
T Consensus 157 ~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~---~~~~~ 225 (312)
T cd06346 157 FTKAFEALG-GTVTNVVAHEEGK------SSYSSEVAAAAAGGPDALVV-IGYPETGSGILRSAYEQGLFDK---FLLTD 225 (312)
T ss_pred HHHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCCCCc---eEeec
Confidence 999999999 9999988888776 67999999999999999999 8999999999999999999653 66665
Q ss_pred cccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
..... ...........+|+++..+..+ . +..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 226 ~~~~~-~~~~~~~~~~~~g~~~~~~~~~-~-~~~~~f~~~~~~~~--------g~~p~~~~~~~Yd~~~~l~~A------ 288 (312)
T cd06346 226 GMKSD-SFLPADGGYILAGSYGTSPGAG-G-PGLEAFTSAYKAAY--------GESPSAFADQSYDAAALLALA------ 288 (312)
T ss_pred cccCh-HHHHhhhHHHhCCcEEccCCCC-c-hhHHHHHHHHHHHh--------CCCCCccchhhHHHHHHHHHH------
Confidence 53221 1111112245678877655432 3 67899999999998 345778899999999999988
Q ss_pred CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEE
Q 004136 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI 387 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I 387 (771)
|.|++|+++|+++|++. ..|+.
T Consensus 289 ----------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 ----------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred ----------------hCCCccceeeCCCCCcc-cceee
Confidence 89999999999999876 35553
No 40
>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=100.00 E-value=5.4e-36 Score=321.52 Aligned_cols=330 Identities=22% Similarity=0.360 Sum_probs=271.6
Q ss_pred HHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEe
Q 004136 50 QAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (771)
Q Consensus 50 ~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is 126 (771)
+...|+++|+++||+++ ++++|++.+.|+++++......+...+.+++|.+||||.|+..+.+++.+++.++||+|+
T Consensus 1 ~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is 80 (348)
T PF01094_consen 1 RVLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQIS 80 (348)
T ss_dssp HHHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEE
T ss_pred CHHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceee
Confidence 36789999999999986 689999999999866665666555555578999999999999999999999999999999
Q ss_pred ecCCCCCCCccC--CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEe
Q 004136 127 FAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSR 204 (771)
Q Consensus 127 ~~a~~~~~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~ 204 (771)
++++ ++.+++ ..+|+++|+.|++..+++++++++++|+|++|++|++++++| ....+.+.+.+++.+..++...
T Consensus 81 ~~~~--~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 156 (348)
T PF01094_consen 81 PGST--SPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYG--NSLADSFQDLLRERGGICVAFI 156 (348)
T ss_dssp SSGG--SGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHH--HHHHHHHHHHHHHHTTCEEEEE
T ss_pred cccc--ccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccc--cccchhhhhhhcccccceeccc
Confidence 9999 888887 589999999999999999999999999999999999999998 8899999999999651444441
Q ss_pred eecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhh
Q 004136 205 LVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVI 282 (771)
Q Consensus 205 ~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~ 282 (771)
....... .+....++.+++ .++++|++ +++...+..++++|.++||..++|+||.++.+............
T Consensus 157 ~~~~~~~------~~~~~~~~~l~~~~~~~rvvil-~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 229 (348)
T PF01094_consen 157 SVVISSD------SDAEELLKKLKEIKSGARVVIL-CSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFR 229 (348)
T ss_dssp EEEETTT------SHHHHHHHHHHHHTTTTSEEEE-ESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHH
T ss_pred ccccccc------cchhhhhhhhhhccccceeeee-ecccccccccccchhhhhccccceeEEeeccccccccccccccc
Confidence 2233222 234444555554 89999999 99999999999999999999999999999987665422334556
Q ss_pred hccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC----------CCC
Q 004136 283 SSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN----------ISS 352 (771)
Q Consensus 283 ~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~----------~~~ 352 (771)
....+++++.+..+.. +.+++|.++|+..............+..+++++|||++++++|++++..+ |.+
T Consensus 230 ~~~~~~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~ 308 (348)
T PF01094_consen 230 EAFQGVLGFTPPPPSS-PEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQN 308 (348)
T ss_dssp CCHTTEEEEEESTTTS-HHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTT
T ss_pred ccccceeeeeeecccc-cchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCcccccc
Confidence 7889999999877766 78999999998764322222224567889999999999999999998642 346
Q ss_pred hHHHHHHHHcCceeceeeeEEEeC-CCCCCCCeEEEEEee
Q 004136 353 PEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVV 391 (771)
Q Consensus 353 ~~~l~~~l~~~~f~G~tG~v~Fd~-~g~~~~~~~~I~~~~ 391 (771)
|..+.++|++++|+|++|++.||+ +|+|.+..|.|+++|
T Consensus 309 g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 309 GSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 789999999999999999999999 999988999999875
No 41
>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=100.00 E-value=1.6e-35 Score=313.93 Aligned_cols=319 Identities=19% Similarity=0.305 Sum_probs=263.2
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
+||+|+|.++ .....|+++|+++||+++ ++.++++.+.|+ ++++..++..+|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~ 76 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSAN 76 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHH
Confidence 5999999986 788999999999999997 345888888997 5999999999999995 8999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
+++++++.++||+|+++++ ++.++ . ++.+++.|+...++.++++++++++|+++++|+++++++ .. .+.+.+
T Consensus 77 av~~i~~~~~ip~is~~~~--~~~~~-~--~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~--~~-l~~~~~ 148 (324)
T cd06368 77 TVQSICDALEIPHITTSWS--PNPKP-R--QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL--LR-LQELLD 148 (324)
T ss_pred HHHHHHhccCCCcEEecCC--cCCCC-C--cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH--HH-HHHHHH
Confidence 9999999999999999988 77765 2 344556688779999999999999999999999887654 44 566667
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
.+++.| ++++.....+ .. ++++.+|.++++.++|+|++ .++..++..++++|+++|+..+.|+||.++...
T Consensus 149 ~~~~~g-~~v~~~~~~~-~~------~d~~~~l~~i~~~~~d~Vi~-~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~ 219 (324)
T cd06368 149 ALSPKG-IQVTVRRLDD-DT------DMYRPLLKEIKREKERRIIL-DCSPERLKEFLEQAVEVGMMSEYYHYILTNLDF 219 (324)
T ss_pred hhccCC-ceEEEEEecC-Cc------hHHHHHHHHHhhccCceEEE-ECCHHHHHHHHHHHHHhccccCCcEEEEccCCc
Confidence 788888 8888765333 33 36999999999999999999 999999999999999999998899999987654
Q ss_pred ccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccCCC
Q 004136 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (771)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~ 351 (771)
..... ........++.++....+.. |.+++|.++|++++...++......|..+++.+|||++++
T Consensus 220 ~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------ 284 (324)
T cd06368 220 HTLDL--ELFRYGGVNITGFRLVDPDN-PEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------ 284 (324)
T ss_pred cccch--hhhhcCCceEEEEEEecCCC-hHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------
Confidence 32211 11112333455555555544 7899999999999865443222336788999999999988
Q ss_pred ChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEEEEEecCCCCC
Q 004136 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (771)
Q Consensus 352 ~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~~~ 407 (771)
||+++||++|+|.+..++|+++.++++++||.|++..++
T Consensus 285 -----------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 999999999999999999999999999999999987654
No 42
>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=100.00 E-value=1.1e-34 Score=309.46 Aligned_cols=337 Identities=15% Similarity=0.177 Sum_probs=278.8
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+| +..|+...+|+++|+++||++| .|++|+++.+|++++|.++++++++|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~ 80 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASR 80 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhH
Confidence 699999999 4578999999999999999998 48999999999999999999999999987899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.++.+++++.++|+|++.+. .. ...+||+||+.+.+..++..+++++.. .+++++++++.|++|| ....+.+
T Consensus 81 ~a~~~~~~~~~~~~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g--~~~~~~~ 153 (348)
T cd06355 81 KAVLPVFERHNGLLFYPVQY--EG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYP--RTANKIL 153 (348)
T ss_pred HHHHHHHhccCCceecCCCc--cC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHH--HHHHHHH
Confidence 99999999999999976543 22 245689999999999999999999865 5799999999999999 9999999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++|+....++... .|+..++.++++.++|+|++ ...+.++..++++++++|+.++...++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 225 (348)
T cd06355 154 KAQLESLG-GEVVGEEYLPLGH------TDFQSIINKIKAAKPDVVVS-TVNGDSNVAFFKQLKAAGITASKVPVLSFSV 225 (348)
T ss_pred HHHHHHcC-CeEEeeEEecCCh------hhHHHHHHHHHHhCCCEEEE-eccCCchHHHHHHHHHcCCCccCCeeEEccc
Confidence 99999999 9999988888766 78999999999999999999 8899999999999999999865444554332
Q ss_pred ccccccccChhhhhccccEEEEEee-ccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSY-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
......... .+..+|++....+ ....+|..++|.++|+++|.... .++.+++.+||+++++++|++++++
T Consensus 226 ~~~~~~~~g---~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~------~~~~~a~~~Y~a~~~~~~Al~~ag~ 296 (348)
T cd06355 226 AEEELRGIG---PENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR------VTNDPMEAAYIGVYLWKQAVEKAGS 296 (348)
T ss_pred cHHHHhhcC---hHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCC
Confidence 211111111 1345676654332 22234788999999999884221 2455678899999999999999987
Q ss_pred CCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CCceEEE
Q 004136 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~v 398 (771)
.+++.|.++|++.+|++..|+++|+++++.....+.|.+++ +++|+.|
T Consensus 297 --~~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 297 --FDVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred --CCHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 79999999999999999999999998554444667778885 5777765
No 43
>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=100.00 E-value=1.7e-34 Score=308.66 Aligned_cols=325 Identities=18% Similarity=0.309 Sum_probs=269.7
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+| +..|.....|+++|++++|+.+ .|++|+++++|++++|..+.+.+++|+.+++|.+|+||.+|..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~ 80 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQA 80 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHH
Confidence 699999999 4579999999999999999988 58999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHH-HHHHHHc-CCeEEEEEEEeCC-CCCCcchHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCI-ADLARKY-NWRRVAAIYEDNV-YGGDSGKLA 187 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~-~~~l~~~-~w~~v~ii~~~~~-~g~~~~~~~ 187 (771)
.++.++++..++|+|+++++ ++.+. ..++|+||+.+++..+...+ ..+++++ +|+++++||.+++ || ....+
T Consensus 81 ~a~~~~~~~~~ip~i~~~~~--~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g--~~~~~ 155 (344)
T cd06348 81 FAADPIAERAGVPVVGPSNT--AKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFS--VSETE 155 (344)
T ss_pred HhhhHHHHhCCCCEEeccCC--CCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHH--HHHHH
Confidence 99999999999999999887 56553 45689999988776655544 4556777 9999999997655 99 99999
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+++.+++.| ++++....++... +|+..++.+++++++|+|++ .+.+.++..+++++++.|+..+ ++.+
T Consensus 156 ~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~i~~~~~d~vi~-~~~~~~~~~~~~~~~~~g~~~~---~~~~ 224 (344)
T cd06348 156 IFQKALRDQG-LNLVTVQTFQTGD------TDFQAQITAVLNSKPDLIVI-SALAADGGNLVRQLRELGYNGL---IVGG 224 (344)
T ss_pred HHHHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCCc---eecc
Confidence 9999999999 9999888887655 67999999999999999999 9999999999999999999764 5554
Q ss_pred CcccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
..+.. .. ......+..+|++...++.+. .++..++|.++|+++|. ..|+.++..+||+++++++|++++
T Consensus 225 ~~~~~-~~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~yda~~~~~~A~~~a 294 (344)
T cd06348 225 NGFNT-PN-VFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--------KAPPQFSAQAFDAVQVVAEALKRL 294 (344)
T ss_pred ccccC-HH-HHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--------CCccHHHHHHHHHHHHHHHHHHHh
Confidence 43321 11 112233566788776655433 23678999999988873 346678899999999999999999
Q ss_pred ccC-CCC-------hHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEE
Q 004136 347 NYN-ISS-------PEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (771)
Q Consensus 347 ~~~-~~~-------~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~ 386 (771)
+.+ ..+ ++.|.++|++.+|+|++|+++||++|++.+..|-
T Consensus 295 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 295 NQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred cCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 753 112 6789999999999999999999999998866554
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=100.00 E-value=7.1e-35 Score=311.24 Aligned_cols=323 Identities=20% Similarity=0.281 Sum_probs=274.7
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC-----CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS-----RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~-----~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s 107 (771)
|||+++|+|+ ..|.+...|+++|+++||+.+ +|++|+++++|++++|..+.+++++|+.+++|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 6999999993 578999999999999999987 48999999999999999999999999977799999999999
Q ss_pred HhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc------CCeEEEEEEEeCCCCC
Q 004136 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGG 181 (771)
Q Consensus 108 ~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~~~~~g~ 181 (771)
..+.++++++++.++|+|++.++ ++.++...+||+||+.|++..++.+++++++++ +|+++++++.+++||
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g- 157 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAV--SDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFG- 157 (347)
T ss_pred HhHHHHHHHHHHhCCCEEecccc--chHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHh-
Confidence 99999999999999999999888 788877778999999999999999999999876 469999999999999
Q ss_pred CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 182 ~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
....+.+++.+++.| ++|+..+.++... ++++.+++++++.++|+|++ .+...++..++++++++|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~G~~~~- 227 (347)
T cd06340 158 -TSVAEAIKKFAKERG-FEIVEDISYPANA------RDLTSEVLKLKAANPDAILP-ASYTNDAILLVRTMKEQRVEPK- 227 (347)
T ss_pred -HHHHHHHHHHHHHcC-CEEEEeeccCCCC------cchHHHHHHHHhcCCCEEEE-cccchhHHHHHHHHHHcCCCCc-
Confidence 999999999999999 9999888887665 57999999999999999999 9999999999999999999765
Q ss_pred eEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHH
Q 004136 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITE 341 (771)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~ 341 (771)
..+......... . ......+..+|++...++.+...+..++|.++|+++|. ..++.++..+||+++++++
T Consensus 228 ~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~Y~a~~~l~~ 297 (347)
T cd06340 228 AVYSVGGGAEDP-S-FVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--------VDLSGNSARAYTAVLVIAD 297 (347)
T ss_pred EEEecCCCcCcH-H-HHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--------CCCChHHHHHHHHHHHHHH
Confidence 222222211111 1 11122356688887776655444788999999999883 3467788999999999999
Q ss_pred HHHhhccCCCChHHHH--HHHHcCcee---ceeeeEEEeCCCCCCCC
Q 004136 342 AIGRLNYNISSPEMLL--RQMLSSDFS---GLSGKIRFKDGELLNAD 383 (771)
Q Consensus 342 Al~~~~~~~~~~~~l~--~~l~~~~f~---G~tG~v~Fd~~g~~~~~ 383 (771)
|++++++ .+++.+. .+|++..+. +..|+++||++|+..+.
T Consensus 298 A~~~ag~--~~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 298 ALERAGS--ADPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHhcC--CCHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 9999987 7899999 588887765 46789999999997743
No 45
>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=100.00 E-value=6.1e-34 Score=301.77 Aligned_cols=337 Identities=14% Similarity=0.174 Sum_probs=250.7
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
+||+|++.++. +.+..-++.+|++++|+++ +++.++++..|+.+||.++..++|+|+++ +|.|||||.+|..+.++
T Consensus 1 ~IG~if~~~~~-~~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESAL-EDDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcc-hHHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCChhHHHHH
Confidence 58999998743 2344445555556677766 35678889999999999999999999954 99999999999999999
Q ss_pred HHhhccCCccEEeecCCCCCCC------cc-CCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 004136 114 AEIASRVQVPILSFAAPAVTPL------SM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~------l~-~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (771)
+++++..+||+|++.+...++. +. ....+|.|++.|++ .+..++++++++++|++|+++|+++++ ....
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~g---~~~l 154 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDYD---IRGL 154 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCch---HHHH
Confidence 9999999999999764300111 11 12345777788874 788999999999999999999998875 4445
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhh-------hCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-------DKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~-------~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
+.+.+.+++.| +.+... ....+. ...++..++.++ +.+.+.||+ .|+++.+..++++|+++||..
T Consensus 155 ~~~~~~~~~~g-~~v~~~-~~~~~~-----~~~~~~l~~~~~~~~l~~~~~~~~~vIl-~~~~~~~~~~l~~a~~~gm~~ 226 (363)
T cd06381 155 QEFLDQLSRQG-IDVLLQ-KVDLNI-----SKMATALFTTMRCEELNRYRDTLRRALL-LLSPNGAYTFIDASVETNLAI 226 (363)
T ss_pred HHHHHHHHhcC-ceEEEE-eccccc-----chhhhhhhhHHHHHHHHhhcccceEEEE-EcCcHHHHHHHHHHHHcCCCc
Confidence 77778888888 765532 222111 012333333332 335557888 899999999999999999999
Q ss_pred CCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHH----HHHHHHHhcccCCCCCCCCCCchhhhhHhHH
Q 004136 260 KDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKE----FSALFRRNFTSEYPEEDHFHPSIHALRAHDS 335 (771)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~----f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDa 335 (771)
++|+|++++.+....... ........|++++....+.. +..+. +.+.|+..+... +. ....+...+++.|||
T Consensus 227 ~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~al~yDa 302 (363)
T cd06381 227 KDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKE-KTNQRCLRNNHRISSLLCDPK-DG-YLQMLEISNLYIYDS 302 (363)
T ss_pred CceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCc-CchHHHHHHHHHHHHhhcCCC-CC-CCCChhHHHHHHHHH
Confidence 999999888776532222 23446778899999987665 34554 444454333222 11 122456679999999
Q ss_pred HHHHHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCc-----eEEEEEecCCCCC
Q 004136 336 IKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK-----YKELDFWLPNFGF 407 (771)
Q Consensus 336 v~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~-----~~~vg~w~~~~~~ 407 (771)
|+++ .++|++++|+|+||+|.||++|.|.+..++|+++...+ .+.+|.|++..|+
T Consensus 303 V~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 303 VLLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HHHH-----------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceEEeeeccCCCCC
Confidence 9999 78899999999999999999999999999999998544 7889999987765
No 46
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=2.1e-34 Score=308.08 Aligned_cols=336 Identities=23% Similarity=0.296 Sum_probs=281.1
Q ss_pred CcEEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCCC--CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch
Q 004136 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (771)
Q Consensus 33 ~~I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s 107 (771)
++||||++.|+| +..|++...|+++|+++||+.|+ |++|+++..|+.+||..+.+.+++|+.+++|.+|||+.+|
T Consensus 9 ~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~S 88 (366)
T COG0683 9 DTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPTTS 88 (366)
T ss_pred CceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEeccC
Confidence 579999999999 56899999999999999999984 7779999999999999999999999988999999999999
Q ss_pred HhHHHHHHhhccCCccEEeecCCCCCCCccCC-CCceEEEeecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcch
Q 004136 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 108 ~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~-~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~~g~~~~~ 185 (771)
..+.++.+++++.++|+|+++++ ++.+... ..+++||+.|++.+++.++++++.. .+.+++++|++++.|| ++.
T Consensus 89 ~~~~a~~~v~~~~~i~~i~p~st--~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg--~~~ 164 (366)
T COG0683 89 GVALAASPVAEEAGVPLISPSAT--APQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYG--EGL 164 (366)
T ss_pred cccccchhhHhhcCceEEeecCC--CCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcc--hhH
Confidence 99999999999999999999999 8887764 4456999999999999999999965 4555999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+++.+++.| +++...+.+.+.. .++..++.++++.++|+|++ .+...+...++++++++|+....+ ++
T Consensus 165 ~~~~~~~l~~~G-~~~~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~r~~~~~G~~~~~~-~~ 235 (366)
T COG0683 165 ADAFKAALKALG-GEVVVEEVYAPGD------TDFSALVAKIKAAGPDAVLV-GGYGPDAALFLRQAREQGLKAKLI-GG 235 (366)
T ss_pred HHHHHHHHHhCC-CeEEEEEeeCCCC------CChHHHHHHHHhcCCCEEEE-CCCCccchHHHHHHHHcCCCCccc-cc
Confidence 999999999999 8865556666655 45999999999999999999 999999999999999999988621 22
Q ss_pred eeCcccccccccChhhhhccc--cEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 266 VTNTVANALDSLNTTVISSME--GTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~--g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
............. ...+ +.+......+..+|..+.|.++|++++.. ...++.++..+||+++++++|+
T Consensus 236 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~~y~a~~~~~~ai 305 (366)
T COG0683 236 DGAGTAEFEEIAG----AGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGD------PAAPSYFAAAAYDAVKLLAKAI 305 (366)
T ss_pred cccCchhhhhhcc----cCccccEEEEecccccccCcchHHHHHHHHHHhCC------CCCcccchHHHHHHHHHHHHHH
Confidence 2222111111111 1122 33334444455557788899999999851 2346678999999999999999
Q ss_pred HhhccCCCChHHHHHHHHcCc-eeceeeeEEEeCCCCCCCCeEEEEEeeC
Q 004136 344 GRLNYNISSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNVVG 392 (771)
Q Consensus 344 ~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~Fd~~g~~~~~~~~I~~~~~ 392 (771)
++++. ..+++.+.++|+... +++.+|+++||++|++....+.|.+++.
T Consensus 306 ~~a~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~ 354 (366)
T COG0683 306 EKAGK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQK 354 (366)
T ss_pred HHHhc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEe
Confidence 99983 267899999999986 6899999999999999989999999874
No 47
>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=100.00 E-value=3.9e-34 Score=308.09 Aligned_cols=343 Identities=15% Similarity=0.226 Sum_probs=285.9
Q ss_pred CCCcEEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCC
Q 004136 31 IEEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME 105 (771)
Q Consensus 31 ~~~~I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~ 105 (771)
++++||||+++|+| +..|.....++++|++++|+.+ .|++|+++.+|+++++..+.+.+++|+.+++|.+||||.
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 35789999999999 3578999999999999999987 589999999999999999999999999778999999999
Q ss_pred chHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCc
Q 004136 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDS 183 (771)
Q Consensus 106 ~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~ 183 (771)
+|..+.+++++++..+||+|++.++ ++.+++ ..+||+||+.|++..++.++++++ ++++|+++++|+.+++|| .
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g--~ 158 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASG--ASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFG--K 158 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccc--cHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHH--H
Confidence 9999999999999999999998877 677776 478999999999999999999976 567899999999999999 9
Q ss_pred chHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004136 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (771)
Q Consensus 184 ~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (771)
...+.+++.+++.| ++++..+.++... +|++.++.+++++++|+|++ .+...+...++++++++|+..+
T Consensus 159 ~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~--- 227 (362)
T cd06343 159 DYLKGLKDGLGDAG-LEIVAETSYEVTE------PDFDSQVAKLKAAGADVVVL-ATTPKFAAQAIRKAAELGWKPT--- 227 (362)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeeecCCC------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHHcCCCce---
Confidence 99999999999999 9999888888766 67999999999999999999 9999999999999999999874
Q ss_pred EEeeCcccccccccChhhhhccccEEEEEeecc------CCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHH
Q 004136 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYS------DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (771)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~ 337 (771)
++.+...............+..+|++....+.. ..+|..++|.+.|++++... ..++.+...+||+++
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y~a~~ 301 (362)
T cd06343 228 FLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEG------DPPDTYAVYGYAAAE 301 (362)
T ss_pred EEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCC------CCCchhhhHHHHHHH
Confidence 455444332211011112245677776554321 23477888999988887321 136788899999999
Q ss_pred HHHHHHHhhccCCCChHHHHHHHHcCce---ec-eeeeEEEeCCCCCCCCeEEEEEeeCCce
Q 004136 338 IITEAIGRLNYNISSPEMLLRQMLSSDF---SG-LSGKIRFKDGELLNADTLRIVNVVGKKY 395 (771)
Q Consensus 338 ~~a~Al~~~~~~~~~~~~l~~~l~~~~f---~G-~tG~v~Fd~~g~~~~~~~~I~~~~~~~~ 395 (771)
++++|+++++.. .+++.|+++|+++++ .+ ..|+++|+.++++....+.|.++++|+|
T Consensus 302 ~~~~a~~~ag~~-~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 302 TLVKVLKQAGDD-LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred HHHHHHHHhCCC-CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 999999998752 689999999999886 33 3459999876555557788888887765
No 48
>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=100.00 E-value=4.7e-34 Score=304.98 Aligned_cols=341 Identities=12% Similarity=0.129 Sum_probs=275.6
Q ss_pred EEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 35 I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
||||++.|+| +..|....+|+++|+++||++| .|++|+++++|++++|..++.++++|+.+++|.+|||+.+|..
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~ 80 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSAT 80 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHH
Confidence 7999999999 4578999999999999999988 4899999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
+.++.+++++.++|+|..... .. ....+|+||+.|++..++.++++++.....+++++++.+++|| ....+.+
T Consensus 81 ~~A~~~~~~~~~~~~i~~~~~--~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g--~~~~~~~ 153 (374)
T TIGR03669 81 REAIRPIIDRNEQLYFYTNQY--EG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFG--QLSADWV 153 (374)
T ss_pred HHHHHHHHHhcCceEEcCccc--cc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHH--HHHHHHH
Confidence 999999999999999965422 11 1345899999999999999999999764447899999999999 9989999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++++....++.+. +|+..++.++++.+||+|++ ...+.+...+++|++++|+..+ ++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~g~------~Df~~~l~~i~~~~pD~V~~-~~~g~~~~~~~kq~~~~G~~~~---~~~~~~ 222 (374)
T TIGR03669 154 RVIAKENG-AEVVGEEFIPLSV------SQFSSTIQNIQKADPDFVMS-MLVGANHASFYEQAASANLNLP---MGTSTA 222 (374)
T ss_pred HHHHHHcC-CeEEeEEecCCCc------chHHHHHHHHHHcCCCEEEE-cCcCCcHHHHHHHHHHcCCCCc---ccchhh
Confidence 99999999 9999888888776 78999999999999999999 8888899999999999999765 222221
Q ss_pred ccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
........ ........|+++...+.+. .+|..++|.++|+++|.... .++.+++.+||+++++++|++++++
T Consensus 223 ~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p------~~~~~a~~~Yda~~~l~~Ai~~AGs 295 (374)
T TIGR03669 223 MAQGYEHK-RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAP------YINQEAENNYFSVYMYKQAVEEAGT 295 (374)
T ss_pred hhhhhhhh-hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCC------CCChHHHHHHHHHHHHHHHHHHhCC
Confidence 11110000 0111345666655544332 34788999999999984211 2356788999999999999999998
Q ss_pred CCCChHHHHHHHHc-CceeceeeeEEEeCCCCCCCCeEEEEEeeC-CceEEEEEec
Q 004136 349 NISSPEMLLRQMLS-SDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWL 402 (771)
Q Consensus 349 ~~~~~~~l~~~l~~-~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~-~~~~~vg~w~ 402 (771)
.+++.|+++|++ .+++|++|+++||++++.....+.|.+++. +.+..+..|+
T Consensus 296 --~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 --TDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred --CCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 799999999997 679999999999987665545566666653 4455555555
No 49
>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=100.00 E-value=4.6e-34 Score=306.16 Aligned_cols=306 Identities=26% Similarity=0.422 Sum_probs=259.0
Q ss_pred EEEEEEeCCC-------------cCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhc----
Q 004136 36 KIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK---- 95 (771)
Q Consensus 36 ~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~---- 95 (771)
.||+++|++. ..|.....|+.+|+++||+++ +|++|++++.|++++|..+++.+++|+.+
T Consensus 1 ~ig~lf~~~~~~~~~~~~c~~~~~~~~~~~~~~~~Av~~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~~~~ 80 (348)
T cd06350 1 IIGGLFPLHSGSESVSLKCGRFGKKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLLSGEGT 80 (348)
T ss_pred CeEEEEeCcccccCCCcccceechHHHHHHHHHHHHHHHHcCCCccCCCCceeEEEEecCCcchHHHHHHHHHHhcCCCC
Confidence 3788999884 346678899999999999985 68999999999999999999999999976
Q ss_pred ---------CCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHc
Q 004136 96 ---------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKY 165 (771)
Q Consensus 96 ---------~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~ 165 (771)
++|.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..+|++||+.|++..++.+++++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~--~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~ 158 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGAT--SPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHF 158 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCC--ChhhccccccCCeeEecCCcHHHHHHHHHHHHHC
Confidence 79999999999999999999999999999999999 888866 678999999999999999999999999
Q ss_pred CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHH
Q 004136 166 NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (771)
Q Consensus 166 ~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~ 245 (771)
+|+++++++.+++|| ....+.+++.+++.| ++|+..+.++... ...++..++++++++++|+|++ .+++.++
T Consensus 159 ~~~~v~~l~~~~~~g--~~~~~~~~~~~~~~g-i~v~~~~~~~~~~----~~~d~~~~l~~l~~~~~~vvv~-~~~~~~~ 230 (348)
T cd06350 159 GWTWVGLVYSDDDYG--RSGLSDLEEELEKNG-ICIAFVEAIPPSS----TEEDIKRILKKLKSSTARVIVV-FGDEDDA 230 (348)
T ss_pred CCeEEEEEEecchhH--HHHHHHHHHHHHHCC-CcEEEEEEccCCC----cHHHHHHHHHHHHhCCCcEEEE-EeCcHHH
Confidence 999999999999999 999999999999999 9999988887652 1168999999999999999999 9999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCC
Q 004136 246 IHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP 325 (771)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 325 (771)
..++++++++|+ .+. .|++++.+...... .....+..+|++++..+.+.. ....+|.+.+++
T Consensus 231 ~~~~~~a~~~g~-~~~-~~i~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~-------------- 292 (348)
T cd06350 231 LRLFCEAYKLGM-TGK-YWIISTDWDTSTCL-LLFTLDAFQGVLGFSGHAPRS-GEIPGFKDFLRK-------------- 292 (348)
T ss_pred HHHHHHHHHhCC-CCe-EEEEEccccCcccc-ccCCcceeeeEEEEEEEeecC-CcCCChHHHHHH--------------
Confidence 999999999999 333 45566555433111 122235678888887776543 223444444433
Q ss_pred chhhhhHhHHHHHHHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC----CceEEEEEe
Q 004136 326 SIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFW 401 (771)
Q Consensus 326 ~~~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~----~~~~~vg~w 401 (771)
+++.+|||+++ .+.|+++|++. ..+.|++++. +.+++||.|
T Consensus 293 --~~~~~YDav~~--------------------------------~v~f~~~gd~~-~~~~i~~~~~~~~~~~~~~vg~~ 337 (348)
T cd06350 293 --YAYNVYDAVYA--------------------------------EVKFDENGDRL-ASYDIINWQIFPGGGGFVKVGFW 337 (348)
T ss_pred --HHHHHHhheeE--------------------------------EEEecCCCCcc-cceeEEEEEEcCCcEEEEEEEEE
Confidence 57899999998 99999999998 7899999876 789999999
Q ss_pred cCC
Q 004136 402 LPN 404 (771)
Q Consensus 402 ~~~ 404 (771)
++.
T Consensus 338 ~~~ 340 (348)
T cd06350 338 DPQ 340 (348)
T ss_pred cCC
Confidence 874
No 50
>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=100.00 E-value=2.9e-33 Score=299.73 Aligned_cols=337 Identities=14% Similarity=0.165 Sum_probs=271.8
Q ss_pred EEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 35 I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
|+||++.|+| +..|.....|+++|+++||++| .|++|+++++|++++|..++.++++|+.+++|.+|+|+.+|..
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~ 80 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSAS 80 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHH
Confidence 6899999999 4678889999999999999998 5899999999999999999999999998789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
+.++.++++..++|++.+... . .....|++||+.+++..++.++++++.. .+.+++++++.|++|| ....+.
T Consensus 81 ~~a~~~~~~~~~~~~i~~~~~--~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g--~~~~~~ 153 (359)
T TIGR03407 81 RKAVLPVFEENNGLLFYPVQY--E---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFP--RTANKI 153 (359)
T ss_pred HHHHHHHHhccCCceEeCCcc--c---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHH--HHHHHH
Confidence 999999999999999976533 1 1245689999999999999999998876 5899999999999999 888899
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+++.+++.| ++++....++... +|+..+++++++.++|+|++ ...+.....++++++++|+..+...++.+.
T Consensus 154 ~~~~~~~~G-~~vv~~~~~~~~~------~D~s~~v~~l~~~~pDav~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~ 225 (359)
T TIGR03407 154 IKAYLKSLG-GTVVGEDYTPLGH------TDFQTIINKIKAFKPDVVFN-TLNGDSNVAFFKQLKNAGITAKDVPVVSFS 225 (359)
T ss_pred HHHHHHHcC-CEEEeeEEecCCh------HhHHHHHHHHHHhCCCEEEE-eccCCCHHHHHHHHHHcCCCccCCcEEEee
Confidence 999999999 9999888888766 78999999999999999998 778888889999999999976543344433
Q ss_pred cccccccccChhhhhccccEEEEEee-ccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSY-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
.......... .+..+|+.....+ ....+|..++|.++|+++|.... .+..+++.+||+++++++|+++++
T Consensus 226 ~~~~~~~~~g---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~~A~~~ag 296 (359)
T TIGR03407 226 VAEEEIRGIG---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDR------VTNDPMEAAYLGVYLWKAAVEKAG 296 (359)
T ss_pred cCHHHHhhcC---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhC
Confidence 2221111111 2456776654322 22234788999999998874211 233456678999999999999998
Q ss_pred cCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CCceEE
Q 004136 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKE 397 (771)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~ 397 (771)
+ .+++.+.++|++++|+++.|+++|+++++.....+.+.+++ +++|+.
T Consensus 297 ~--~~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g~~~~ 345 (359)
T TIGR03407 297 S--FDVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADGQFDV 345 (359)
T ss_pred C--CCHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCCCEEE
Confidence 7 69999999999999999999999997444333445555554 444443
No 51
>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=100.00 E-value=1e-33 Score=300.73 Aligned_cols=318 Identities=16% Similarity=0.184 Sum_probs=267.9
Q ss_pred EEEEEEeCC--CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
+||++.|+| +..|....+|+++|+++||+.+ +|++|+++++|++++|..+++.+++|+.+++|.+|+|+.+|..+.
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~ 80 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATL 80 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHH
Confidence 489999999 4578899999999999999987 689999999999999999999999999777999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcC-CeEEEEEEEeCC-CCCCcchHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNV-YGGDSGKLALL 189 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~~~~-~g~~~~~~~~l 189 (771)
+++++++..++|+|++.++ ++.++ ..+||+||+.|++..+++++++++++.+ |+++++|+.++. || +...+.+
T Consensus 81 a~~~~~~~~~ip~i~~~a~--~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g--~~~~~~~ 155 (332)
T cd06344 81 AALDIYQKAKLVLISPTST--SVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYS--QSLKQEF 155 (332)
T ss_pred HHHHHHhhcCceEEccCcC--chhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHh--HHHHHHH
Confidence 9999999999999999887 67776 4679999999999999999999998876 999999999876 99 9999999
Q ss_pred HHHHhc-cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 190 AEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 190 ~~~~~~-~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
++.+++ .| +++.....+.... .++..++.++++.++++|++ .++......+++++++.+... .+++++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~~---~i~~~~ 224 (332)
T cd06344 156 TSALLERGG-GIVVTPCDLSSPD------FNANTAVSQAINNGATVLVL-FPDTDTLDKALEVAKANKGRL---TLLGGD 224 (332)
T ss_pred HHHHHHhcC-CeeeeeccCCCCC------CCHHHHHHHHHhcCCCEEEE-eCChhHHHHHHHHHHhcCCCc---eEEecc
Confidence 999999 58 8887655444322 45888999999999999999 888888999999999887632 355554
Q ss_pred cccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
.+.. .... .......+|+++..++.+.. +..++|.++|+++|. ..|+.+++.+||+++++++|++++++
T Consensus 225 ~~~~-~~~~-~~~~~~~~G~~~~~~~~~~~-~~~~~f~~~~~~~~~--------~~~~~~a~~~Yda~~~l~~A~~~ag~ 293 (332)
T cd06344 225 SLYT-PDTL-LDGGKDLEGLVLAVPWHPLA-SPNSPFAKLAQQLWG--------GDVSWRTATAYDATKALIAALSQGPT 293 (332)
T ss_pred cccC-HHHH-HhchhhhcCeEEEEeccccc-ccchHHHHHHHHHhc--------CCchHHHHhHHHHHHHHHHHHHhCCC
Confidence 4322 1111 11224678888877776654 678999999999883 35778899999999999999999887
Q ss_pred CCCChHHHH-HHHHcCceeceeeeEEEeCCCCCCC
Q 004136 349 NISSPEMLL-RQMLSSDFSGLSGKIRFKDGELLNA 382 (771)
Q Consensus 349 ~~~~~~~l~-~~l~~~~f~G~tG~v~Fd~~g~~~~ 382 (771)
.++..+. ..+++..|+|..|+++||++|++..
T Consensus 294 --~~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 294 --REGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred --hhhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 5677776 6788889999999999999999874
No 52
>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=100.00 E-value=4.9e-33 Score=296.81 Aligned_cols=331 Identities=17% Similarity=0.251 Sum_probs=274.9
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+| +..|.....|+++|++++|+++ +|++|+++++|+++++..+.+.+++|+.+++|.+++|+.+|..+
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~ 80 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVS 80 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhH
Confidence 699999999 4578999999999999999988 58999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.+++++++..++|+|+++++ .+.+++ ..+|+||+.|++..++.++++++ ++++|+++++++.+++|| ....+.+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~ 155 (340)
T cd06349 81 MAASPIYQRAGLVQLSPTNS--HPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWG--RTSADIF 155 (340)
T ss_pred HHhHHHHHhCCCeEEecCCC--CCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHh--HHHHHHH
Confidence 99999999999999999877 676654 45899999999999999999996 678999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++++....++... +|++.++.++++.++|+|++ .+.+.++..++++++++|+..+ ++....
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~~~ 224 (340)
T cd06349 156 VKAAEKLG-GQVVAHEEYVPGE------KDFRPTITRLRDANPDAIIL-ISYYNDGAPIARQARAVGLDIP---VVASSS 224 (340)
T ss_pred HHHHHHcC-CEEEEEEEeCCCC------CcHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCCCc---EEccCC
Confidence 99999999 9999887777665 57999999999999999999 9999999999999999999764 444332
Q ss_pred ccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
... .... .......+|++...++.+. .+|..++|.++|+++| +..|+.++..+||+++++++|+++++.
T Consensus 225 ~~~-~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~p~~~~~~~y~~~~~~~~a~~~ag~ 294 (340)
T cd06349 225 VYS-PKFI-ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--------GAQPDAFAAQAYDAVGILAAAVRRAGT 294 (340)
T ss_pred cCC-HHHH-HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--------CCCcchhhhhHHHHHHHHHHHHHHhCC
Confidence 211 1111 1122456787776655443 3477899999998887 334778899999999999999999887
Q ss_pred CCCChHHHHHH-HHcCceeceeeeEEEeCC-CCCCCCeEEEEEeeCCce
Q 004136 349 NISSPEMLLRQ-MLSSDFSGLSGKIRFKDG-ELLNADTLRIVNVVGKKY 395 (771)
Q Consensus 349 ~~~~~~~l~~~-l~~~~f~G~tG~v~Fd~~-g~~~~~~~~I~~~~~~~~ 395 (771)
.+...+.+. +.+..+.|.+|+++|+++ ++.. ..+.++.+++++|
T Consensus 295 --~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~g~~ 340 (340)
T cd06349 295 --DRRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRNGKF 340 (340)
T ss_pred --CCHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeCCcC
Confidence 344444343 244567899999999986 5555 5888888877654
No 53
>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=100.00 E-value=1.7e-33 Score=299.44 Aligned_cols=319 Identities=16% Similarity=0.190 Sum_probs=270.5
Q ss_pred EEEEEEeCCCcC----chHHHHHHHHHHHHHhcCC-CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANSQM----GKQAITAMKIAVQNFNSDS-RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~~~----g~~~~~a~~~Av~~iN~~~-~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+++|+|++. |.....|+++|++++| .+ .|++|+++++|++++|..+.+.+++|+.+++|.+|||+.+|..+
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN-ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~ 79 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG-GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVA 79 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc-CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHH
Confidence 589999999544 7889999999999999 44 68999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.++++++++.++|+|+++++ ++.++. ...||+||+.|++..++.++++++...+++++++++.+++|| +...+.+
T Consensus 80 ~a~~~~~~~~~vp~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g--~~~~~~~ 155 (334)
T cd06327 80 LAVQEVAREKKKIYIVTGAG--SDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFG--HSLERDA 155 (334)
T ss_pred HHHHHHHHHhCceEEecCCC--ccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHh--HHHHHHH
Confidence 99999999999999999888 778776 457999999999999999999999777899999999999999 9999999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++++....++... +|+..++.++++.++|+|++ .+.+.++..++++++++|+..+. .++....
T Consensus 156 ~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~~ 226 (334)
T cd06327 156 RKVVKANG-GKVVGSVRHPLGT------SDFSSYLLQAQASGADVLVL-ANAGADTVNAIKQAAEFGLTKGQ-KLAGLLL 226 (334)
T ss_pred HHHHHhcC-CEEcCcccCCCCC------ccHHHHHHHHHhCCCCEEEE-eccchhHHHHHHHHHHhCCccCC-cEEEecc
Confidence 99999999 9999888887665 67999999999999999999 99999999999999999997442 2333222
Q ss_pred ccccccccChhhhhccccEEEEEeeccCC-ChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (771)
...... ....+..+|++...++.+.. ++..++|.++|+++| +..|+.+++.+||+++++++|++++++
T Consensus 227 ~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------g~~p~~~~~~~Y~~~~~~~~A~~~ag~ 295 (334)
T cd06327 227 FLTDVH---SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--------GKMPSMVQAGAYSAVLHYLKAVEAAGT 295 (334)
T ss_pred cHHHHH---hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--------CcCCCcHHHHHHHHHHHHHHHHHHHCC
Confidence 221111 11224578887776654333 478899999999988 334777889999999999999999988
Q ss_pred CCCChHHHHHHHHcCc-eeceeeeEEEeC-CCCCC
Q 004136 349 NISSPEMLLRQMLSSD-FSGLSGKIRFKD-GELLN 381 (771)
Q Consensus 349 ~~~~~~~l~~~l~~~~-f~G~tG~v~Fd~-~g~~~ 381 (771)
.++..+.++|++.+ ++++.|+++|++ +|+..
T Consensus 296 --~~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 296 --DDADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred --CChHHHHHhccccceeccCCCCceeeccccchh
Confidence 78888999999974 588999999987 55543
No 54
>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=100.00 E-value=2e-33 Score=300.89 Aligned_cols=334 Identities=23% Similarity=0.378 Sum_probs=281.5
Q ss_pred cEEEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchH
Q 004136 34 VTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (771)
Q Consensus 34 ~I~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~ 108 (771)
+|+||+++|+++ ..|.....|+++|++++|++| +|++|+++++|+++++..+.+.+++|+.+++|.+|+||.+|.
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~ 80 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSA 80 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcH
Confidence 599999999994 467889999999999999997 689999999999999999999999999779999999999999
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHH
Q 004136 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 109 ~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (771)
.+.++++.++..++|+|++.+. ++ ...++|+||+.|++..++.++++++ ++++.+++++|+.++++| ....+
T Consensus 81 ~~~~~~~~~~~~~ip~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g--~~~~~ 153 (343)
T PF13458_consen 81 QAEAVAPIAEEAGIPYISPSAS--SP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYG--RSLAE 153 (343)
T ss_dssp HHHHHHHHHHHHT-EEEESSGG--GG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHH--HHHHH
T ss_pred HHHHHHHHHHhcCcEEEEeecc--CC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhh--hHHHH
Confidence 9999999999999999997655 32 3667999999999999999999987 558999999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+++.+++.| ++++....++.+. +++..+++++++.++|+|++ .+.+.++..++++++++|+..+.+.++.+
T Consensus 154 ~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~~~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (343)
T PF13458_consen 154 AFRKALEAAG-GKVVGEIRYPPGD------TDFSALVQQLKSAGPDVVVL-AGDPADAAAFLRQLRQLGLKPPRIPLFGT 225 (343)
T ss_dssp HHHHHHHHTT-CEEEEEEEE-TTS------SHHHHHHHHHHHTTTSEEEE-ESTHHHHHHHHHHHHHTTGCSCTEEEEEG
T ss_pred HHHHHHhhcC-ceeccceeccccc------ccchHHHHHHhhcCCCEEEE-eccchhHHHHHHHHHhhccccccceeecc
Confidence 9999999999 9998888888766 68999999999999999999 99999999999999999998764444433
Q ss_pred CcccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
........ .......+|++...++.++ .+|..++|.++|++.|..+. .++.++..+||++.++++|++++
T Consensus 226 ~~~~~~l~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~al~~~ 296 (343)
T PF13458_consen 226 SLDDASLQ---QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP------PPSLYAAQGYDAARLLAQALERA 296 (343)
T ss_dssp GGSSHHHH---HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG------GTCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCcHHHH---HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC------CCchhHHHHHHHHHHHHHHHHHh
Confidence 33222221 2222467888888876553 24789999999999984321 37889999999999999999999
Q ss_pred ccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CC
Q 004136 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GK 393 (771)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~ 393 (771)
++ .+++.+.++|++++|+|+.|++.|++.++.....+.|++++ +|
T Consensus 297 g~--~~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 297 GS--LDREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp TS--HHHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred CC--CCHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 76 79999999999999999999999987666667889999998 55
No 55
>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=100.00 E-value=4e-33 Score=296.46 Aligned_cols=320 Identities=18% Similarity=0.221 Sum_probs=269.0
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+++|+|+ ..|.....|+++|++++|+.+ .|++|+++++|++++|..+.+++++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASR 80 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHH
Confidence 5999999994 578899999999999999998 58999999999999999999999999976799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.++.++++..++|+|++.+. .. ....||+||+.|+...++.++++++...+|+++++|+.++.|| ....+.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~~~~~ 153 (333)
T cd06331 81 KAVLPVVERGRGLLFYPTQY--EG---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWP--RESNRIAR 153 (333)
T ss_pred HHHHHHHHhcCceEEeCCCC--CC---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhH--HHHHHHHH
Confidence 99999999999999987654 22 1345899999999999999999998766699999999999999 99999999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+.+++.| .+++....++... +|++.++.++++.++|+|++ .+.+.+...+++++++.|+......++.....
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~~~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 225 (333)
T cd06331 154 ALLEELG-GEVVGEEYLPLGT------SDFGSVIEKIKAAGPDVVLS-TLVGDSNVAFYRQFAAAGLDADRIPILSLTLD 225 (333)
T ss_pred HHHHHcC-CEEEEEEEecCCc------ccHHHHHHHHHHcCCCEEEE-ecCCCChHHHHHHHHHcCCCcCCCeeEEcccc
Confidence 9999999 9999888888765 67999999999999999999 99999999999999999997433333332222
Q ss_pred cccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC
Q 004136 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (771)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (771)
....... .....+|++...++.+. .++..++|.++|++++... ..++.+++.+||+++++++|++++++
T Consensus 226 ~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yda~~~~~~A~~~ag~- 295 (333)
T cd06331 226 ENELAAI---GAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDD------AVINSPAEAAYEAVYLWAAAVEKAGS- 295 (333)
T ss_pred hhhhhcc---ChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCC------cCCCchhHHHHHHHHHHHHHHHHcCC-
Confidence 1111111 12456787776654332 2367889999998877321 13677889999999999999999987
Q ss_pred CCChHHHHHHHHcCceeceeeeEEEeCCCCCC
Q 004136 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (771)
Q Consensus 350 ~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~ 381 (771)
.+++.|.++|++++|+|++|++.|++++++.
T Consensus 296 -~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 7999999999999999999999999887765
No 56
>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=100.00 E-value=8.9e-33 Score=294.64 Aligned_cols=319 Identities=22% Similarity=0.321 Sum_probs=270.5
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+++ ..|.....|+++|++++|+++ +|++|+++++|++++|..+.+.+++|+.+++|.+||||.++..+
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~ 80 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGAT 80 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhH
Confidence 6999999994 567889999999999999987 68999999999999999999999999966699999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeC-CCCCCcchHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDN-VYGGDSGKLAL 188 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~-~~g~~~~~~~~ 188 (771)
.+++++++..+||+|++.++ .+.+.+.. +++||+.|++..++.++++++ ++++|+++++|+.++ +|+ ....+.
T Consensus 81 ~~v~~~~~~~~ip~i~~~~~--~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~--~~~~~~ 155 (334)
T cd06347 81 LAAGPIAEDAKVPMITPSAT--NPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYS--KGLAKA 155 (334)
T ss_pred HHhHHHHHHCCCeEEcCCCC--CCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchh--HHHHHH
Confidence 99999999999999999888 66665533 589999999999999999997 677999999999886 788 888899
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+++.+++.| ++++....++... .++..+++++++.++++|++ .+...+...+++++++.|+.. .|++++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~~~~~~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~---~i~~~~ 224 (334)
T cd06347 156 FKEAFKKLG-GEIVAEETFNAGD------TDFSAQLTKIKAKNPDVIFL-PGYYTEVGLIAKQARELGIKV---PILGGD 224 (334)
T ss_pred HHHHHHHcC-CEEEEEEEecCCC------CcHHHHHHHHHhcCCCEEEE-cCchhhHHHHHHHHHHcCCCC---cEEecc
Confidence 999999999 9999887777655 56999999999999999999 999999999999999999854 577666
Q ss_pred cccccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
.+.... . .....+..+|+....++.+. .+|..++|.++|++++. ..++.++..+||+++++++|+++++
T Consensus 225 ~~~~~~-~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~Al~~ag 294 (334)
T cd06347 225 GWDSPK-L-EEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--------KEPDAFAALGYDAYYLLADAIERAG 294 (334)
T ss_pred cccCHH-H-HHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhHHHHHHHHHHHHHHHHHhC
Confidence 554321 1 11223567887776665443 24778999999988773 3467788999999999999999988
Q ss_pred cCCCChHHHHHHHHcC-ceeceeeeEEEeCCCCCCC
Q 004136 348 YNISSPEMLLRQMLSS-DFSGLSGKIRFKDGELLNA 382 (771)
Q Consensus 348 ~~~~~~~~l~~~l~~~-~f~G~tG~v~Fd~~g~~~~ 382 (771)
. .+++.+.+.|++. +|+|++|+++|+++|+..+
T Consensus 295 ~--~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~ 328 (334)
T cd06347 295 S--TDPEAIRDALAKTKDFDGVTGKITIDENGNPVK 328 (334)
T ss_pred C--CCHHHHHHHHHhCCCcccceeeeEECCCCCcCC
Confidence 7 5899999998875 7999999999999887763
No 57
>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=100.00 E-value=6.6e-33 Score=295.62 Aligned_cols=314 Identities=16% Similarity=0.234 Sum_probs=266.8
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||++.|+|+ ..|.....|+++|+++||+.+ .|++|+++++|++++|.++++.+++|+. ++|.+||||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~-~~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAID-DGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHH-hCCeEEEcccchHHH
Confidence 5999999994 578999999999999999987 5899999999999999999999999995 599999999999999
Q ss_pred HHH-------HHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCCC
Q 004136 111 AVV-------AEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGG 181 (771)
Q Consensus 111 ~~v-------~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~~~~~g~ 181 (771)
.++ +++++..++|+|++.++ ++.++. ..+||+||+.|++..++.++++++.+.+ |+++++++.++.||
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g- 156 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASV--APALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWG- 156 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCC--CchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHH-
Confidence 998 78888999999999888 777776 5679999999999999999999998876 99999999999999
Q ss_pred CcchHHHHHHHHhc--cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 182 DSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 182 ~~~~~~~l~~~~~~--~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
....+.+++.+++ .| ++|+....++... . +|+..++.++++.++|+|++ ...+.++..++++++++|+..
T Consensus 157 -~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~-~----~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~ 228 (342)
T cd06329 157 -QDVAAAFKAMLAAKRPD-IQIVGEDLHPLGK-V----KDFSPYVAKIKASGADTVIT-GNWGNDLLLLVKQAADAGLKL 228 (342)
T ss_pred -HHHHHHHHHHHHhhcCC-cEEeceeccCCCC-C----CchHHHHHHHHHcCCCEEEE-cccCchHHHHHHHHHHcCCCc
Confidence 9999999999999 99 9998877766542 0 35999999999999999999 888889999999999999965
Q ss_pred CCeEEEeeCcccccccccChhhhhccccEEEEEeecc-CCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHH
Q 004136 260 KDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (771)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (771)
+ ++........ ......+..+|.+....+.+ ..+|..++|.++|+++| +..|+.++..+||++++
T Consensus 229 ~---~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~y~~~~~ 294 (342)
T cd06329 229 P---FYTPYLDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--------GRVPDYYEGQAYNGIQM 294 (342)
T ss_pred e---EEeccccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--------CCCCCchHHHHHHHHHH
Confidence 4 4444332211 11222345677766655432 23478899999998887 33466788999999999
Q ss_pred HHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCC
Q 004136 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDG 377 (771)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~ 377 (771)
+++|++++++ .+++.+.++|++++|+|..|+++|+..
T Consensus 295 ~~~a~~~ag~--~~~~~v~~al~~~~~~~~~g~~~~~~~ 331 (342)
T cd06329 295 LADAIEKAGS--TDPEAVAKALEGMEVDTPVGPVTMRAS 331 (342)
T ss_pred HHHHHHHhCC--CCHHHHHHHHhCCccccCCCCeEEccc
Confidence 9999999887 799999999999999999999999853
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=100.00 E-value=1.5e-32 Score=291.99 Aligned_cols=327 Identities=17% Similarity=0.250 Sum_probs=267.8
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
|||+++|+|+ ..|.....|+++|++++|...+|++|+++++|++++|..+++++++|+.+++|.+|+||.+|..+.+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~inggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a 80 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLGGKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLA 80 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhCCccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHH
Confidence 6999999994 5688899999999999994337899999999999999999999999997779999999999999999
Q ss_pred HHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
++++++..++|+|++++. .+.+.+ ..+||+||+.|++..+..+++++++..+|+++++++.+++|| ....+.+++
T Consensus 81 ~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g--~~~~~~~~~ 156 (333)
T cd06359 81 VVPPVLESGTFYISTNAG--PSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAG--KDALAGFKR 156 (333)
T ss_pred HHHHHHHcCCeEEecCCC--ccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhh--HHHHHHHHH
Confidence 999999999999998776 556654 458999999999999999999999989999999999999999 888888877
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
.++ .+++....++... +|+..++.++++.++|+|++ ...+.++..++++++++|+... ..++.+....
T Consensus 157 ~~~----~~v~~~~~~~~~~------~d~~~~i~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 224 (333)
T cd06359 157 TFK----GEVVGEVYTKLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMGVNFVKQYRQAGLKKD-IPLYSPGFSD 224 (333)
T ss_pred HhC----ceeeeeecCCCCC------cchHHHHHHHHhCCCCEEEE-EccCccHHHHHHHHHHcCcccC-CeeeccCccc
Confidence 663 3455555555444 67999999999999999999 8888889999999999998543 2355443322
Q ss_pred ccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccCC
Q 004136 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (771)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~ 350 (771)
.. . ......+..+|++....+.+. .+|..++|.++|+++| +..++.++..+||+++++++|+++++...
T Consensus 225 ~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~A~~~ag~~~ 294 (333)
T cd06359 225 EE-D-TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--------GRLPTLYAAQAYDAAQLLDSAVRKVGGNL 294 (333)
T ss_pred CH-H-HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--------CCCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 11 1 111223466788776665442 3478999999999987 33577889999999999999999997643
Q ss_pred CChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEE
Q 004136 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (771)
Q Consensus 351 ~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~ 389 (771)
.+++.+.++|++.+|+|++|+++|+++|+.. ....|++
T Consensus 295 ~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~~ 332 (333)
T cd06359 295 SDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLRE 332 (333)
T ss_pred CCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEEe
Confidence 4899999999999999999999999887754 4444443
No 59
>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=100.00 E-value=4.4e-32 Score=290.70 Aligned_cols=342 Identities=16% Similarity=0.190 Sum_probs=276.6
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+| +..|+....|+++|+++||++| .|++|+++.+|++++|..++.++++|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~ 80 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSR 80 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHH
Confidence 699999999 5689999999999999999998 58999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.++.++++..++|++.+.+. . .+ ...|++|++.++...+..++++++.+.+.+++++|+.|++|| +...+.++
T Consensus 81 ~a~~~~~~~~~~~~~~~~~~--~-~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g--~~~~~~~~ 153 (360)
T cd06357 81 KAVLPVVERHDALLWYPTLY--E-GF--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYP--YESNRIMR 153 (360)
T ss_pred HHHHHHHHhcCceEEeCCCc--c-CC--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcch--HHHHHHHH
Confidence 99999999999999987654 2 22 233678888888888888999998766668999999999999 99999999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+.+++.| ++++....++..... +|+..++.++++.++|+|++ .+.+.++..++++++++|+.++...+ .+...
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~~~----~d~s~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~~~~~~-~~~~~ 226 (360)
T cd06357 154 DLLEQRG-GEVLGERYLPLGASD----EDFARIVEEIREAQPDFIFS-TLVGQSSYAFYRAYAAAGFDPARMPI-ASLTT 226 (360)
T ss_pred HHHHHcC-CEEEEEEEecCCCch----hhHHHHHHHHHHcCCCEEEE-eCCCCChHHHHHHHHHcCCCccCcee-EEeec
Confidence 9999999 999876555554111 68999999999999999999 99999999999999999998653222 23221
Q ss_pred cccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC
Q 004136 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (771)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (771)
.. . .......+..+|+++..++.+. .+|..++|.++|+++|... ..++.++..+||+++++++|++++++
T Consensus 227 ~~-~-~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~yda~~~l~~Al~~ag~- 297 (360)
T cd06357 227 SE-A-EVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGED------APVSACAEAAYFQVHLFARALQRAGS- 297 (360)
T ss_pred cH-H-HHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHcCC-
Confidence 11 0 1111122567888877654322 3478999999999988421 12566889999999999999999987
Q ss_pred CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEe-eCCceEEEEEe
Q 004136 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELDFW 401 (771)
Q Consensus 350 ~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~-~~~~~~~vg~w 401 (771)
.+++.|+++|++++|+|..|.+.|+..++.......+.++ ++|+|+.+..-
T Consensus 298 -~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~~~ 349 (360)
T cd06357 298 -DDPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVRES 349 (360)
T ss_pred -CCHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEEcc
Confidence 6899999999999999999999999765544355666677 67777776533
No 60
>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=100.00 E-value=1.1e-32 Score=294.25 Aligned_cols=321 Identities=18% Similarity=0.179 Sum_probs=269.0
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCCC----C--cEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR----N--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~----g--~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 106 (771)
|||++.|+| +..|.+...++++|++++|++++ | ++|+++++|++++|..+.+++++|+.+++|.+|+|+.+
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~ 80 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIG 80 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCC
Confidence 599999999 45788999999999999998872 4 48999999999999999999999997779999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (771)
+..+.. ++++++.++|+|++.++ ++.+....++|+||+.|++..++.++++++++.+|+++++++.|++|| +...
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~ 155 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSS--DLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYG--QPWV 155 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCC--cccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchh--HHHH
Confidence 998888 99999999999999988 787776667999999999999999999999889999999999999999 9999
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh-HHHHHHHHHHHcCCCCCCeEEE
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~-~~~~il~~a~~~g~~~~~~~~i 265 (771)
+.+++.+++.| ++++....++... +|++.++.++++.++|+|++ .+... ++..++++++++|+..+ +.++
T Consensus 156 ~~~~~~l~~~G-~~vv~~~~~~~~~------~D~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~g~~~~-~~~~ 226 (347)
T cd06336 156 AAYKAAWEAAG-GKVVSEEPYDPGT------TDFSPIVTKLLAEKPDVIFL-GGPSPAPAALVIKQARELGFKGG-FLSC 226 (347)
T ss_pred HHHHHHHHHcC-CEEeeecccCCCC------cchHHHHHHHHhcCCCEEEE-cCCCchHHHHHHHHHHHcCCCcc-EEec
Confidence 99999999999 9999888888765 67999999999999999999 88888 99999999999999875 2122
Q ss_pred eeCcccccccccChhhhhccccEEEEEeeccC---CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHH
Q 004136 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSD---DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (771)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~A 342 (771)
.......... ....+..+|++...+..+. .+|..++|.++|+++| +..|+.++..+||+++++++|
T Consensus 227 ~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~p~~~~~~~y~~~~~~~~A 295 (347)
T cd06336 227 TGDKYDELLV---ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--------GEPPNSEAAVSYDAVYILKAA 295 (347)
T ss_pred cCCCchHHHH---HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--------CCCCcHHHHHHHHHHHHHHHH
Confidence 2211111111 1122466888887766553 4478899999999988 334777889999999999999
Q ss_pred HHhhccCCCChHHHHHHHHc--------CceeceeeeEEEeCCCCCCCC
Q 004136 343 IGRLNYNISSPEMLLRQMLS--------SDFSGLSGKIRFKDGELLNAD 383 (771)
Q Consensus 343 l~~~~~~~~~~~~l~~~l~~--------~~f~G~tG~v~Fd~~g~~~~~ 383 (771)
+++++. .++..+.+.+.+ ..|.+..|.+.||++|+...+
T Consensus 296 l~~ag~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 296 MEAAGS--VDDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred HHhcCC--CCcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 999987 455555555433 467888899999999998743
No 61
>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=100.00 E-value=5.3e-32 Score=288.80 Aligned_cols=325 Identities=16% Similarity=0.236 Sum_probs=275.7
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
|||+++|+++ ..|.....|+++|++++|...+|++|+++++|+++++..+.+++++|+.+++|.+|||+.++..+.+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~ 80 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAGGKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALA 80 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhCCCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHH
Confidence 6999999995 4568999999999999975447899999999999999999999999997789999999999988889
Q ss_pred HHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
+++.++..++|+|++++. ++.++. ..+|++||+.|++..++..+++++.+.+|+++++++.++.|| +...+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g--~~~~~~~~~ 156 (336)
T cd06360 81 MVKVLREPGTPLINPNAG--ADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFG--YEVVEGFKE 156 (336)
T ss_pred HHHHHHhcCceEEecCCC--CccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhh--HHHHHHHHH
Confidence 999999999999999887 777776 457999999999999999999999988999999999999999 888999999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
.+++.| +++.....++... +|++.++.++++.++|+|++ ...+.++..++++++++|+.++ ..+++++...
T Consensus 157 ~~~~~G-~~v~~~~~~~~~~------~d~~~~v~~~~~~~pd~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 227 (336)
T cd06360 157 AFTEAG-GKIVKELWVPFGT------SDFASYLAQIPDDVPDAVFV-FFAGGDAIKFVKQYDAAGLKAK-IPLIGSGFLT 227 (336)
T ss_pred HHHHcC-CEEEEEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHHcCCccC-CeEEeccccc
Confidence 999999 9998877777655 67999999999999999999 8889999999999999999643 2455554432
Q ss_pred ccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccCC
Q 004136 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (771)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~ 350 (771)
.. . ......+..+|++...++.+. .++..++|.++|+++| +..|+.++..+||+++++++|++++++..
T Consensus 228 ~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--------~~~~~~~~~~~yda~~~~~~A~~~a~~~~ 297 (336)
T cd06360 228 DG-T-TLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--------PDTPSVYAVQGYDAGQALILALEAVGGDL 297 (336)
T ss_pred CH-H-HHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--------CCCccHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 11 1 112223567787766655432 3478999999999987 33577889999999999999999998743
Q ss_pred CChHHHHHHHHcCceeceeeeEEEeCCCCCCCC
Q 004136 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (771)
Q Consensus 351 ~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~ 383 (771)
.+++.+.++|++.+|+|..|+++|+++|++..+
T Consensus 298 ~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 298 SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred CCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 478899999999999999999999999887744
No 62
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=2.9e-32 Score=288.50 Aligned_cols=324 Identities=15% Similarity=0.216 Sum_probs=239.6
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCC--CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchH--
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWE-- 108 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~--g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~-- 108 (771)
.+.|+++++.+. .....++-+...-+..++ .....+... ...||.....++|+++.+.+|.|+| ||.++.
T Consensus 2 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~ 76 (362)
T cd06378 2 GLNIAVVLSGTN----SSTAFLRGRLTKEDFLDLPLDVNVVTLLV-NETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEA 76 (362)
T ss_pred CceEEEEecCCC----cchhhhccccccccccCCCCCccceeeec-CCCCHHHHHHHHHHHhcccceEEEEecCCCCccc
Confidence 478999988762 111111111111111111 223333344 4469999999999999766799755 999987
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCC-CccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 004136 109 ETAVVAEIASRVQVPILSFAAPAVTP-LSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 109 ~~~~v~~~~~~~~iP~Is~~a~~~~~-~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (771)
.+..++.++++.+||+|++++. ++ .+++ ..+|+++|+.|++..+++|+++++++|+|++|++|+++++.+ ..+.
T Consensus 77 ~a~~~s~~~~~~~vP~is~~~~--s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~--~~~~ 152 (362)
T cd06378 77 VAQILDFISAQTFLPILGIHGG--SSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGY--DDFV 152 (362)
T ss_pred cchhhhhhhhceeccEEEeccc--ccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCH--HHHH
Confidence 3346777777799999999876 44 4455 689999999999999999999999999999999999998866 6677
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+.+++.+...+ +++.....++..... + .+....++++++.++++||+ .|+.+.+..++++|+++||++++|+||+
T Consensus 153 ~~l~~~~~~~~-~~~~i~~~~~~~~~~-~--~~~~~~l~~lk~~~arViVl-~~s~~~a~~if~~A~~~gm~g~~yvWI~ 227 (362)
T cd06378 153 SAVRTTVDNSF-VGWELQSVLTLDMSD-D--DGDARTQRQLKKLESQVILL-YCSKEEAEYIFRAARSAGLTGPGYVWIV 227 (362)
T ss_pred HHHHHHHhhcc-cceeEEEEEeeccCC-C--cchHHHHHHHHhcCCCEEEE-ECCHHHHHHHHHHHHHcCCcCCCeEEEe
Confidence 77887777655 555433222222211 1 24678888999999999999 9999999999999999999999999999
Q ss_pred eCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 267 TNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
++......... ..+...|++++... +|+. ...+..||||+++|+|++.+
T Consensus 228 t~~~~~~~~~~---~~~~~~G~i~v~~~-------------~w~~---------------~~~a~~~DaV~vva~Al~~l 276 (362)
T cd06378 228 PSLVLGNTDLG---PSEFPVGLISVSYD-------------GWRY---------------SLRARVRDGVAIIATGASAM 276 (362)
T ss_pred cccccCCCccc---cccCCcceEeeccc-------------cccc---------------cHHHHHHHHHHHHHHHHHHH
Confidence 99876553211 11344666654421 1110 13467899999999999865
Q ss_pred cc-----------C-------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC-CceEEEEEecCC
Q 004136 347 NY-----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWLPN 404 (771)
Q Consensus 347 ~~-----------~-------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~-~~~~~vg~w~~~ 404 (771)
.. | |..|..|.++|++++|+|. +|+|+++|.|.++.|+|+++++ .+|++||.|+++
T Consensus 277 ~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~~ 351 (362)
T cd06378 277 LRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEEVGKWENG 351 (362)
T ss_pred HhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceEEEEEcCC
Confidence 31 1 4578899999999999996 9999999999999999999996 599999999954
No 63
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=5.6e-32 Score=286.97 Aligned_cols=314 Identities=17% Similarity=0.220 Sum_probs=261.1
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcC-C--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSD-S--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~-~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
|||++.|+++ ..|.....|+++|++++|+. + +|++|++++.|++++|..++.++++|+.+++|.+|+|+.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~ 80 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGV 80 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHH
Confidence 6999999994 57889999999999999653 4 5899999999999999999999999998779999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
+.++++++++.++|+|++.++ ++.+.. ..++|+||+.+++..++..+++++... ++++++|+.+++|| ++..+.
T Consensus 81 ~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g--~~~~~~ 155 (333)
T cd06328 81 ALAVLPVAEENKKILIVEPAA--ADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFG--RDGVAA 155 (333)
T ss_pred HHHHHHHHHHhCCcEEecCCC--CchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCcccc--HHHHHH
Confidence 999999999999999998888 788876 346899999999888999988888665 89999999999999 999999
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh-HHHHHHHHHHHcCCCCCCeEEEee
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~-~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
+++.+++.| ++++....++... .|+..++.++++.++|+|++ ...+. ....+++++...|+..+ ....
T Consensus 156 ~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~~g~~~~---~~~~ 224 (333)
T cd06328 156 FKAALEKLG-AAIVTEEYAPTDT------TDFTPYAQRLLDALKKVLFV-IWAGAGGPWPKLQQMGVLGYGIE---ITLA 224 (333)
T ss_pred HHHHHHhCC-CEEeeeeeCCCCC------cchHHHHHHHHhcCCCEEEE-EecCchhHHHHHHHhhhhcCCCe---EEec
Confidence 999999999 9999988888766 67999999999999999988 65554 67778888888887653 2222
Q ss_pred CcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
........ ........++......+.+..+|..+.|.++|+++| +..|+.+++.+||++.++++|+++++
T Consensus 225 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~y~a~~~l~~Ai~~ag 294 (333)
T cd06328 225 GDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--------GSPPDLFTAGGMSAAIAVVEALEETG 294 (333)
T ss_pred ccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--------CCCcchhhHHHHHHHHHHHHHHHHhC
Confidence 22211111 011223455655544443233478889999999987 34577889999999999999999998
Q ss_pred cCCCChHHHHHHHHcCceeceeeeEEEeCC
Q 004136 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDG 377 (771)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~ 377 (771)
+ .+++.+.++|++.+|+++.|+++|+.+
T Consensus 295 ~--~~~~~v~~aL~~~~~~~~~g~~~f~~~ 322 (333)
T cd06328 295 D--TDTEALIAAMEGMSFETPKGTMTFRKE 322 (333)
T ss_pred C--CCHHHHHHHHhCCeeecCCCceEECcc
Confidence 5 799999999999999999999999953
No 64
>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=100.00 E-value=2.7e-32 Score=292.04 Aligned_cols=322 Identities=20% Similarity=0.228 Sum_probs=264.5
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+|+ ..|.....|+++|++++|+++ +|++|+++++|+++++..+.+++++|+.+++|.+|+||.++..+
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~ 80 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVA 80 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHH
Confidence 6999999994 568899999999999999998 58999999999999999999999999966799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcC--CeEEEEEEEeCCCCCCcchHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~--w~~v~ii~~~~~~g~~~~~~~ 187 (771)
.+++++++..++|+|++.++ ++.+.+ ..++++||+.|++..+..++++++++++ |+++++++.+++|| ....+
T Consensus 81 ~~~~~~~~~~~ip~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g--~~~~~ 156 (346)
T cd06330 81 LAVAPVAEELKVFFIATDPG--TPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYG--QDAWA 156 (346)
T ss_pred HHHHHHHHHcCCeEEEcCCC--CcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHH--HHHHH
Confidence 99999999999999999887 677765 5789999999999999999999998774 99999999999999 88899
Q ss_pred HHHHHHhccCC-eEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 188 LLAEALQNVSS-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 188 ~l~~~~~~~g~-~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
.+++.+++.|. ++++....++... +++..++.++++.++|+|++ .+.+.+...++++++++|+.. ...|+.
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~~~------~d~~~~v~~i~~~~~d~ii~-~~~~~~~~~~~~~~~~~g~~~-~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKLGA------PDYGSEITALLAAKPDAIFS-SLWGGDLVTFVRQANARGLFD-GTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCCCC------cccHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHhcCccc-CceEEe
Confidence 99999998840 5555444444333 57999999999999999999 888999999999999999965 356776
Q ss_pred eCcccccccccChhhhhccccEEEEEe-eccC--CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 267 TNTVANALDSLNTTVISSMEGTLGIKS-YYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
+........ .......+|++.... .... .++..++|.++|+++|. ..|+.++..+||+++++++|+
T Consensus 229 ~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~y~a~~~l~~a~ 297 (346)
T cd06330 229 TLTGAPELA---PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--------DYPTYGAYGAYQAVMALAAAV 297 (346)
T ss_pred eccchhhhh---hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--------CCCChHHHHHHHHHHHHHHHH
Confidence 665432211 112245566654332 1111 24789999999998873 346677899999999999999
Q ss_pred HhhccCCCCh--HHHHHHHHcCceeceeeeEEEeCCCCC
Q 004136 344 GRLNYNISSP--EMLLRQMLSSDFSGLSGKIRFKDGELL 380 (771)
Q Consensus 344 ~~~~~~~~~~--~~l~~~l~~~~f~G~tG~v~Fd~~g~~ 380 (771)
++++....+. +.+.++|++.++.|+.|++.|+++.++
T Consensus 298 ~~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~ 336 (346)
T cd06330 298 EKAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQ 336 (346)
T ss_pred HHhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCc
Confidence 9998731111 469999999999999999999985443
No 65
>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=100.00 E-value=1.5e-31 Score=283.83 Aligned_cols=316 Identities=15% Similarity=0.174 Sum_probs=262.8
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+| +..|+....|+++|+++||+.+ .|++|+++.+|++++|..+...+++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~ 80 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASR 80 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHH
Confidence 699999999 4579999999999999999987 58999999999999999999999999977899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.++.+++++.++|+|.+... .. ....||+||+.+++..++.++++++...+.+++++|+.|++|| ....+.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g--~~~~~~~~ 153 (334)
T cd06356 81 EAIRPIMDRTKQLYFYTTQY--EG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFG--QISAEWVR 153 (334)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhh--HHHHHHHH
Confidence 99999999999999986543 22 2335899999999999999999999776558999999999999 99999999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC-CCCCeEEEeeCc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL-VGKDSVWIVTNT 269 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~-~~~~~~~i~~~~ 269 (771)
+.+++.| ++++....++.+. .|++.+++++++.++|+|++ ...+.+...+++++++.|+ ..+ .+....
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~ 222 (334)
T cd06356 154 KIVEENG-GEVVGEEFIPLDV------SDFGSTIQKIQAAKPDFVMS-ILVGANHLSFYRQWAAAGLGNIP---MASSTL 222 (334)
T ss_pred HHHHHcC-CEEEeeeecCCCc------hhHHHHHHHHHhcCCCEEEE-eccCCcHHHHHHHHHHcCCccCc---eeeeec
Confidence 9999999 9999988888776 78999999999999999999 8888889999999999999 332 222211
Q ss_pred cccc--ccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 270 VANA--LDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 270 ~~~~--~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
.... ..... ....+|++....+.+. ..|..++|.++|+++|.... .++.+++.+||+++++++|++++
T Consensus 223 ~~~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p------~~~~~~~~~y~a~~~~~~A~~~a 293 (334)
T cd06356 223 GAQGYEHKRLK---PPALKDMYATANYIEELDTPANKAFVERFRAKFPDAP------YINEEAENNYEAIYLYKEAVEKA 293 (334)
T ss_pred ccchhHHhccC---chhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCC------CCCchhHHHHHHHHHHHHHHHHH
Confidence 1111 11111 2456777766554333 24778999999999884210 12567899999999999999999
Q ss_pred ccCCCChHHHHHHHHc-CceeceeeeEEEeCCCCC
Q 004136 347 NYNISSPEMLLRQMLS-SDFSGLSGKIRFKDGELL 380 (771)
Q Consensus 347 ~~~~~~~~~l~~~l~~-~~f~G~tG~v~Fd~~g~~ 380 (771)
++ .+++.|.++|++ ..|+|+.|+++|+..++.
T Consensus 294 g~--~~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~ 326 (334)
T cd06356 294 GT--TDRDAVIEALESGLVCDGPEGKVCIDGKTHH 326 (334)
T ss_pred CC--CCHHHHHHHHHhCCceeCCCceEEEecCCCc
Confidence 87 799999999997 588999999999975543
No 66
>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=100.00 E-value=1.9e-31 Score=283.49 Aligned_cols=316 Identities=17% Similarity=0.230 Sum_probs=263.0
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+|+ ..|.....|+++|++++|+.+ .|++|+++++|++++|..+++++++|+.+++|.+|||+.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a 80 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVR 80 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHH
Confidence 6999999994 478999999999999999988 58999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.++.++++ .++|+|++.+. +.. ...||+||+.+++..++.++++++ +..+|+++++++.++.|| +...+.+
T Consensus 81 ~a~~~~~~-~~vp~i~~~~~--~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g--~~~~~~~ 152 (333)
T cd06358 81 NAVAPVVA-GRVPYVYTSLY--EGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWP--RGSLAAA 152 (333)
T ss_pred HHHHHHHh-cCceEEeCCCc--CCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhh--HHHHHHH
Confidence 99999999 99999998655 222 346899999999999988888887 557999999999999999 8889999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe-eC
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV-TN 268 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~-~~ 268 (771)
++.+++.| ++|+....++... +|+..++.++++.++|+|++ .....+...++++++++|+..+ ++. +.
T Consensus 153 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~---~~~~~~ 221 (333)
T cd06358 153 KRYIAELG-GEVVGEEYVPLGT------TDFTSVLERIAASGADAVLS-TLVGQDAVAFNRQFAAAGLRDR---ILRLSP 221 (333)
T ss_pred HHHHHHcC-CEEeeeeeecCCh------HHHHHHHHHHHHcCCCEEEE-eCCCCchHHHHHHHHHcCCCcc---Cceeec
Confidence 99999999 9999888888766 78999999999999999999 8888888999999999999875 222 22
Q ss_pred cccccccccChhhhhccccEEEEEeecc-CCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
.+.... .........+|++....+.+ ..+|..++|.++|+++|.... ..++.++..+||+++++++|+++++
T Consensus 222 ~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~-----~~~~~~~~~~yda~~~~~~A~~~ag 294 (333)
T cd06358 222 LMDENM--LLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDA-----PPLNSLSESCYEAVHALAAAAERAG 294 (333)
T ss_pred ccCHHH--HHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCC-----CCCChHHHHHHHHHHHHHHHHHHhC
Confidence 221111 11111134677766554332 124789999999999884321 1356788899999999999999988
Q ss_pred cCCCChHHHHHHHHcCceeceeeeEEEeCCCC
Q 004136 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (771)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~ 379 (771)
+ .+++.|.++|++++|+|.+|+++|++++.
T Consensus 295 ~--~~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 295 S--LDPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred C--CCHHHHHHHhccCeeeCCCcceEEccccc
Confidence 7 79999999999999999999999998754
No 67
>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=100.00 E-value=4.1e-31 Score=282.24 Aligned_cols=323 Identities=17% Similarity=0.217 Sum_probs=262.8
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+|+ ..|.....|+++|++++|+.+ .|++|+++++|++++|..+.+.+++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVA 80 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHH
Confidence 6999999994 678999999999999999997 58999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC--CCCceEEEeecCcHHHHHHHHHHHH-HcCCeEEEEEEEeCCCCCCcchHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~ 187 (771)
.++.++++..+||+|++.++ .+.+.. ..++|+||+.|++..++.++++++. +.+|+++++++.+++|| ....+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g--~~~~~ 156 (347)
T cd06335 81 LANLEFIQQNKIPLIGPWAA--GTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWG--RSNRK 156 (347)
T ss_pred HhhhHHHHhcCCcEEecCCC--CcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchh--hhHHH
Confidence 99999999999999998877 666654 4568999999999999999999874 55699999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+++.+++.| ++++....++... .|++.+++++++.++++|++ .+.+.+...++++++++|+..+ ++..
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~~------~d~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~ 225 (347)
T cd06335 157 DLTAALAARG-LKPVAVEWFNWGD------KDMTAQLLRAKAAGADAIII-VGNGPEGAQIANGMAKLGWKVP---IISH 225 (347)
T ss_pred HHHHHHHHcC-CeeEEEeeecCCC------ccHHHHHHHHHhCCCCEEEE-EecChHHHHHHHHHHHcCCCCc---Eecc
Confidence 9999999999 9999888887765 67999999999999999999 9999999999999999999654 2322
Q ss_pred CcccccccccChhhhhccccEEEEEeeccC--CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHh
Q 004136 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (771)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (771)
.... ..... ....+..+|++....+... .+|..++|.++|+++|...... ...++.++..+||+++++++|+++
T Consensus 226 ~~~~-~~~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ 301 (347)
T cd06335 226 WGLS-GGNFI-EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQ 301 (347)
T ss_pred cCCc-Cchhh-hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHH
Confidence 1111 11111 1122345776655433222 3478999999999988432110 113455678899999999999999
Q ss_pred hccCCCChHHHHHHHHcC--ceeceeee--EEEeCCCC
Q 004136 346 LNYNISSPEMLLRQMLSS--DFSGLSGK--IRFKDGEL 379 (771)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~--~f~G~tG~--v~Fd~~g~ 379 (771)
++. .+++.+.++|+++ .+.|+.|. +.|++..+
T Consensus 302 ag~--~~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 302 AGS--TDGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred hcC--CCHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 987 5668999999985 56787774 45765444
No 68
>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=100.00 E-value=1.5e-31 Score=284.49 Aligned_cols=325 Identities=16% Similarity=0.160 Sum_probs=262.1
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||++.|+| +..|.....|+++|+++||+.| +|++|+++++|++++|..+++++++|+.+++|.+|+ +.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~ 79 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGIT 79 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHH
Confidence 689999999 4678999999999999999998 589999999999999999999999999777888876 5788889
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcC-----CeEEEEEEEeCCCCCCcc
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYN-----WRRVAAIYEDNVYGGDSG 184 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~-----w~~v~ii~~~~~~g~~~~ 184 (771)
.+++++++..++|+|+++++ ++.+.+ ..+||+||+.|++..++.++++++.+.+ .+++++|+.+++|| ..
T Consensus 80 ~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g--~~ 155 (351)
T cd06334 80 EALIPKIAADKIPLMSGSYG--ATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFG--KE 155 (351)
T ss_pred HHhhHHHhhcCCcEEecccc--hhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccc--hh
Confidence 99999999999999999877 666664 6689999999999999999999997654 79999999999999 99
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (771)
..+.+++.+++.| ++++....++... +|++.++.++++.++|+|++ ...+.++..++++++++|+..+ +
T Consensus 156 ~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~i~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~~---~ 224 (351)
T cd06334 156 PIEALKALAEKLG-FEVVLEPVPPPGP------NDQKAQWLQIRRSGPDYVIL-WGWGVMNPVAIKEAKRVGLDDK---F 224 (351)
T ss_pred hHHHHHHHHHHcC-CeeeeeccCCCCc------ccHHHHHHHHHHcCCCEEEE-ecccchHHHHHHHHHHcCCCce---E
Confidence 9999999999999 9999988888776 68999999999999999999 9999999999999999999653 4
Q ss_pred EeeCcccccccccChhhhhccccEEEEEeecc-CCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
+.+..... .... ....+..+|+++..++.+ ..+|..++|.++|+++|...... ...++.++..+||+++++++|+
T Consensus 225 ~~~~~~~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~gy~a~~~l~~Al 300 (351)
T cd06334 225 IGNWWSGD-EEDV-KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGND--KEIGSVYYNRGVVNAMIMVEAI 300 (351)
T ss_pred EEeeccCc-HHHH-HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCc--ccccccHHHHHHHHHHHHHHHH
Confidence 54433211 1111 122356688777665543 23488999999999887422100 0234578899999999999999
Q ss_pred HhhccCCC----ChH-------HHHHHHHcCceeceeeeEEEeCCCCC
Q 004136 344 GRLNYNIS----SPE-------MLLRQMLSSDFSGLSGKIRFKDGELL 380 (771)
Q Consensus 344 ~~~~~~~~----~~~-------~l~~~l~~~~f~G~tG~v~Fd~~g~~ 380 (771)
+++++... ... .-.+.+++....|+.|+++|....++
T Consensus 301 ~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~ 348 (351)
T cd06334 301 RRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHR 348 (351)
T ss_pred HHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCC
Confidence 99987411 111 12234555677899999999875443
No 69
>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=100.00 E-value=1.8e-30 Score=276.68 Aligned_cols=325 Identities=17% Similarity=0.252 Sum_probs=266.6
Q ss_pred EEEEEEeCCCc---CchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 36 KIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
+||+++|++++ .|.....|+++|++++|...+|++|+++++|+++++..+.+++++|+.+++|.+|||+.+|..+.+
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~ 80 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLGGKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALA 80 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhCCCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHH
Confidence 69999999954 577899999999999984337899999999999999999999999996669999999999988888
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCC-CCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~-~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
+.+.++..++|+|++++. .+.+.+. .+|++||+.|++..++..+++++...+|+++++++.++.+| ....+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~--~~~~~~~~~ 156 (333)
T cd06332 81 VVPSLTESGTFLISPNAG--PSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAG--KDAVAGFKR 156 (333)
T ss_pred HHHHHhhcCCeEEecCCC--CccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchh--HHHHHHHHH
Confidence 899999999999999887 6777663 47999999999999999999999999999999999998998 888888888
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
.++ | .+.....++... .|+..+++++++.++|+|++ ...+..+..++++++++|+.++ ..++++..+.
T Consensus 157 ~~~--~--~~~~~~~~~~~~------~d~~~~i~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 224 (333)
T cd06332 157 TFK--G--EVVEEVYTPLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMAVNFVKQYDQAGLKKK-IPLYGPGFLT 224 (333)
T ss_pred hhc--E--EEeeEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCcccC-CceeccCCCC
Confidence 887 4 344455555444 46888999999999999999 8888899999999999999543 3466554433
Q ss_pred ccccccChhhhhccccEEEEEeeccC-CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccCC
Q 004136 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (771)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~ 350 (771)
.. . .........+|++...++.+. .++..++|.++|+++| +..++.++..+||+++++++|+++++...
T Consensus 225 ~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~a~~~ag~~~ 294 (333)
T cd06332 225 DQ-D-TLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--------GRVPSVYAAQGYDAAQLLDAALRAVGGDL 294 (333)
T ss_pred CH-H-HHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--------CCCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 21 1 111223567788776665443 2477899999999887 33477889999999999999999998644
Q ss_pred CChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEE
Q 004136 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI 387 (771)
Q Consensus 351 ~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I 387 (771)
.+++.+.++|++.+|+|++|+++|+++|+.. ..+.+
T Consensus 295 ~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~-~~~~~ 330 (333)
T cd06332 295 SDKDALRAALRAADFDSPRGPFKFNPNHNPI-QDFYL 330 (333)
T ss_pred CCHHHHHHHHhcCceecCccceeECCCCCcc-cceeE
Confidence 5678999999999999999999999988865 33433
No 70
>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=99.98 E-value=6e-31 Score=279.46 Aligned_cols=317 Identities=15% Similarity=0.192 Sum_probs=231.4
Q ss_pred CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecC------C-CCHHHHHHHHHHHHhcCCe--EEEEcCCchHhHHHHHH
Q 004136 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH------N-RDPFQAATAAQELINKEKV--KVIAGMETWEETAVVAE 115 (771)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~------~-~~~~~a~~~~~~li~~~~v--~aviGp~~s~~~~~v~~ 115 (771)
...|...+.|+++|++++|++. +.++.....+. . .|...+.+++|+++ ++++ .|||||.++..+..+++
T Consensus 8 ~~~~~~~~~A~~~Av~~~N~~~-~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~-~~gv~~~AIiGp~ss~~a~~V~s 85 (368)
T cd06383 8 EDDNDVYKQIIDDALSYINRNI-GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKA-DSAIVPHLVLDTTTCGDASEIKS 85 (368)
T ss_pred ccchHHHHHHHHHHHHHHhcCC-CCceEEEEecccccccccCCcHHHHHHHHHHHH-HccCCcEEEECCCcchhHHHHHH
Confidence 3468899999999999999985 66777766666 3 46667777799999 6777 89999999999999999
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH-HHHHHHHh
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL-ALLAEALQ 194 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~-~~l~~~~~ 194 (771)
+|+.++||+|+++.. ..+...+|+++|+.|++..+.+|+++++++|+|++|++||+++.+. .... +.+++...
T Consensus 86 i~~~~~IP~Is~s~~----~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl--~~~l~~~l~~~~~ 159 (368)
T cd06383 86 VTGALGIPTFSASYG----QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVM--DHKYKSLLQNWPT 159 (368)
T ss_pred HHhccCCCEEEccCC----CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchh--hHHHHHHHHhHHh
Confidence 999999999998654 2234578999999999999999999999999999999999776643 3223 33333333
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccc
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (771)
..+ .++. +... .++...++++++.+.+.||+.++.++.+..++++|.++||.++.|+||+++......
T Consensus 160 ~~~-~~v~-----~~~~------~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~ 227 (368)
T cd06383 160 RHV-ITII-----NSII------DEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIY 227 (368)
T ss_pred cCC-EEEE-----eccc------hhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhh
Confidence 444 4442 1111 358899999999888555551455699999999999999999999999999876543
Q ss_pred cccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhcc------
Q 004136 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (771)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------ 348 (771)
+.. .......++.++.+..+.. ...+.+.+++... ..+..........++++||||+++++|++++..
T Consensus 228 dl~--~~~~~~~Nitgfrl~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~ 301 (368)
T cd06383 228 DDL--SCQLRNASIFVTRPMMDYQ-SSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG 301 (368)
T ss_pred hhh--hhccccCcEEEeeccccch-hhhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC
Confidence 211 1112345678888754433 2346666554111 001111112345689999999999999996321
Q ss_pred C------CCChH-----------HHHHHHHcCceeceeeeEEEeCCCCCCCCeEEE
Q 004136 349 N------ISSPE-----------MLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI 387 (771)
Q Consensus 349 ~------~~~~~-----------~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I 387 (771)
+ |.++. .+.++|++++|+|+||+|.||++|.|.+.++.+
T Consensus 302 ~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l~~ 357 (368)
T cd06383 302 STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTIGS 357 (368)
T ss_pred CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeeeee
Confidence 0 22333 899999999999999999999999887543333
No 71
>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=99.98 E-value=1.9e-30 Score=277.94 Aligned_cols=329 Identities=14% Similarity=0.186 Sum_probs=261.5
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CC--cEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RN--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g--~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~ 108 (771)
|||++.|+| +..|.....+++++++++|..+ +| ++|+++++|++++|..+++++++|+.+++|.+|||+.+|.
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~ 80 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPD 80 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcc
Confidence 599999999 4568888999999999999654 34 6899999999999999999999999777999999999999
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCc------c-CCCCceEEEeecCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCC
Q 004136 109 ETAVVAEIASRVQVPILSFAAPAVTPLS------M-SRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYG 180 (771)
Q Consensus 109 ~~~~v~~~~~~~~iP~Is~~a~~~~~~l------~-~~~~p~~fr~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~~~~~g 180 (771)
.+.++++++++.+||+|++.+. .+.+ . ...++|+||+.+++..+..+++++++..+ ++++++++.++.||
T Consensus 81 ~~~a~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g 158 (357)
T cd06337 81 TTNPVSDQCEANGVPCISTMAP--WQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDG 158 (357)
T ss_pred hhhHHHHHHHHhCCCeEEeccc--hhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchh
Confidence 9999999999999999997653 2221 1 23478999999999888999999888877 99999999999999
Q ss_pred CCcchHHHHH---HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 181 GDSGKLALLA---EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 181 ~~~~~~~~l~---~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
....+.++ +.+++.| ++++..+.++... +|++.++++++++++|+|++ .+.+.++..++++++++|+
T Consensus 159 --~~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~ik~a~pD~v~~-~~~~~~~~~~~~~~~~~G~ 228 (357)
T cd06337 159 --NAFADPVIGLPAALADAG-YKLVDPGRFEPGT------DDFSSQINAFKREGVDIVTG-FAIPPDFATFWRQAAQAGF 228 (357)
T ss_pred --HHHHHhhhcccHHHHhCC-cEEecccccCCCC------CcHHHHHHHHHhcCCCEEEe-CCCccHHHHHHHHHHHCCC
Confidence 87666554 5667789 9999888888876 67999999999999999999 9999999999999999999
Q ss_pred CCCCeEEEee-Ccc--cccccccChhhhhccccEEEEEeeccCC-------ChhHHHHHHHHHHhcccCCCCCCCCCCch
Q 004136 258 VGKDSVWIVT-NTV--ANALDSLNTTVISSMEGTLGIKSYYSDD-------SSPYKEFSALFRRNFTSEYPEEDHFHPSI 327 (771)
Q Consensus 258 ~~~~~~~i~~-~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 327 (771)
..+ ++.. ... .......+ +..+|++....+.+.. ++..++|.++|+++|. ..+..
T Consensus 229 ~~~---~~~~~~~~~~~~~~~~~g----~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--------~~~~~ 293 (357)
T cd06337 229 KPK---IVTIAKALLFPEDVEALG----DRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--------RQWTQ 293 (357)
T ss_pred CCC---eEEEeccccCHHHHHHhh----hhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--------CCccC
Confidence 775 3322 221 11222222 2345655433222211 2457899999998884 23445
Q ss_pred hhhhHhHHHHHHHHHHHhhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeCCce
Q 004136 328 HALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKY 395 (771)
Q Consensus 328 ~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~ 395 (771)
...++|+++.++++|++++++. .+++.|.++|++.+++++.|+++|+++ . .....|..+.+++|
T Consensus 294 ~~~~~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~~~~ 357 (357)
T cd06337 294 PLGYAHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVGGQW 357 (357)
T ss_pred cchHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC--C-CccccccccccCCC
Confidence 5678999999999999999762 478899999999999999999999865 2 24566667776654
No 72
>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=99.98 E-value=8.1e-30 Score=271.17 Aligned_cols=315 Identities=20% Similarity=0.321 Sum_probs=250.5
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCC---CcEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~---g~~i~l~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
+||++++... ...+.|+++|++++|..++ +..+.+.+.+. .++|..+++.+|+++.+++|.+|+||.++..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4889988764 7789999999999999873 44555544443 489999999999999778999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
+++++++.++||+|+++++ ++.+.+ ..++++||+.|++..+++++++++++++|+++++||+++++. .. .+.+.
T Consensus 78 ~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~--~~-l~~~~ 152 (328)
T cd06351 78 AVQSICDALEIPHISISGG--SEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL--SR-LQELL 152 (328)
T ss_pred HHHHHhccCCCCeEEeecC--cccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH--HH-HHHHH
Confidence 9999999999999999988 677665 678999999999999999999999999999999999998864 33 23333
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc-eEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS-RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~-~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
+.....+ ..+.. ..+.... .+++..++++++.++ ++|+. ++...++..++++|.++||.++.|+||.++.
T Consensus 153 ~~~~~~~-~~v~~-~~~~~~~------~~~~~~l~~l~~~~~~~vil~-~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~ 223 (328)
T cd06351 153 DESGIKG-IQVTV-RRLDLDD------DNYRQLLKELKRSESRRIILD-CSSEEEAKEILEQAVELGMMGYGYHWILTNL 223 (328)
T ss_pred HhhcccC-ceEEE-EEecCCc------hhHHHHHHHHhhcccceEEEE-CCcHHHHHHHHHHHHHhccccCCcEEEEecC
Confidence 3333334 34433 3444433 369999999999888 66666 6666999999999999999999999999998
Q ss_pred ccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccC
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (771)
.....+. ........|++++....+.. +...+|..+|.. ..+......+...++..||+++++
T Consensus 224 ~~~~~d~--~~~~~~~~~i~g~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~---------- 286 (328)
T cd06351 224 DLSDIDL--EPFQYGPANITGFRLVDPDS-PDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL---------- 286 (328)
T ss_pred Cccccch--hhhccCCcceEEEEEeCCCc-hHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE----------
Confidence 7654321 22334668899999887776 678888888832 222222334556678888887766
Q ss_pred CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CCceEEEEEecC
Q 004136 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (771)
Q Consensus 350 ~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~ 403 (771)
||++.|+++|.|.+..++|++++ +.++++||.|++
T Consensus 287 -------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 99999999999999999999999 899999999984
No 73
>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=99.97 E-value=3.2e-29 Score=260.20 Aligned_cols=321 Identities=15% Similarity=0.202 Sum_probs=233.1
Q ss_pred CCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEcC-Cc
Q 004136 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGM-ET 106 (771)
Q Consensus 32 ~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp-~~ 106 (771)
+..|+||++++.. .+.+.|++.|++.+|.+. .+.+++..+.. ...|+..+.+.+|+++-.+||.||+|| .+
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s 91 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQT 91 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCC
Confidence 3569999999875 457999999999999886 45677766665 456999999999999438999999994 87
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCc-cCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l-~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
+..+..+..+|...+||+|+++.. .+.. ++..+....++.|+...++.|+++++++|+|+++++||+.+...
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~--~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl----- 164 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRR--EFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDP----- 164 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCC--cccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCH-----
Confidence 788899999999999999999665 3232 22333334466999999999999999999999999999998843
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHH-HHHHHHhhhCC-ceEEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-RGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~-~~~l~~l~~~~-~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (771)
..|++.++..+...+.....+......+++..++ +.+|+++++.. .++|++ .|+.+.+..+++++.+. |+
T Consensus 165 -~~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill-~cs~e~~~~il~~~~~~------y~ 236 (382)
T cd06377 165 -TGLLLLWTNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLF-GCDVARARRVLELTPPG------PH 236 (382)
T ss_pred -HHHHHHHHHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEE-ECCHHHHHHHHHhhccc------eE
Confidence 3355555444311211122221111000111344 99999999998 999999 99999999999887653 89
Q ss_pred EEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHH
Q 004136 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (771)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (771)
||+++.. +++.... ...-.|+++. . .. ......++.||||+++|+|+
T Consensus 237 wIv~~~~--~le~~~~--~g~nigLl~~---~-~~-------------------------~~~~l~ali~DAV~lvA~a~ 283 (382)
T cd06377 237 WILGDPL--PPEALRT--EGLPPGLLAH---G-ET-------------------------TQPPLEAYVQDALELVARAV 283 (382)
T ss_pred EEEcCCc--ChhhccC--CCCCceEEEE---e-ec-------------------------ccccHHHHHHHHHHHHHHHH
Confidence 9998721 1111110 0111222211 0 00 01123789999999999999
Q ss_pred Hhhc---c------------------CCCChHHHHHHHHcCceeceeeeEEEeCCCCC--CCCeEEEEEee--CC---ce
Q 004136 344 GRLN---Y------------------NISSPEMLLRQMLSSDFSGLSGKIRFKDGELL--NADTLRIVNVV--GK---KY 395 (771)
Q Consensus 344 ~~~~---~------------------~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~--~~~~~~I~~~~--~~---~~ 395 (771)
+.+. . .|.+|..|.++|++++|+|.||+|.|+ +|.| .+..++|++++ .. .|
T Consensus 284 ~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~~W 362 (382)
T cd06377 284 GSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQPTW 362 (382)
T ss_pred HHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCccc
Confidence 9751 0 145788999999999999999999994 5788 77999999997 32 46
Q ss_pred EEEEEecCCC
Q 004136 396 KELDFWLPNF 405 (771)
Q Consensus 396 ~~vg~w~~~~ 405 (771)
++||.|++..
T Consensus 363 ~kVG~W~~~~ 372 (382)
T cd06377 363 TTVGSWQGGR 372 (382)
T ss_pred eEEEEecCCC
Confidence 9999999864
No 74
>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=99.97 E-value=2.3e-30 Score=274.73 Aligned_cols=376 Identities=20% Similarity=0.261 Sum_probs=301.2
Q ss_pred CCCCcEEEEEEEeCC-----CcCchHHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCe-EE
Q 004136 30 NIEEVTKIGAIVDAN-----SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKV-KV 100 (771)
Q Consensus 30 ~~~~~I~IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~---~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v-~a 100 (771)
....+.++++++|+. ...|+....|+++|++++|+.+ +|+++++...|++|++..+.++.-+++..... ..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 345678899999998 2457889999999999999998 89999999999999999999999999854433 36
Q ss_pred EEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 004136 101 IAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (771)
Q Consensus 101 viGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~ 179 (771)
++|. |+..+..++..+..|++-+++++++ +|.+++ +.+|++||+.|+........+.++++++|++++.++++..-
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~s--sp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~ 193 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGAS--SPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEV 193 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCC--CccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhh
Confidence 6666 9999999999999999999999999 999998 89999999999999999999999999999999999998774
Q ss_pred CCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 180 GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 180 g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
. ....+.+...+.+.+ ++++....+-. |....+.++++.++|+|+- ..+...++..++++++.+|.+
T Consensus 194 f--~~~~~dl~~~~~~~~-ieiv~~qsf~~---------dp~~~vk~l~~~D~RiI~g-~f~~~~Arkv~C~~Y~~~myg 260 (865)
T KOG1055|consen 194 F--SSTLNDLEARLKEAG-IEIVFRQSFSS---------DPADSVKNLKRQDARIIVG-LFYETEARKVFCEAYKERLYG 260 (865)
T ss_pred h--cchHHHHHHhhhccc-cEEEEeecccc---------CHHHHHhhccccchhheec-cchHhhhhHHHHhhchhhccc
Confidence 4 677899999999999 99988776543 3577789999999999999 999999999999999999999
Q ss_pred CCeEEEeeCcccccccccC--------hhhhhccccEEEEEeec--cCC-----ChhHHHHHHHHHHhcccCCCCCCCCC
Q 004136 260 KDSVWIVTNTVANALDSLN--------TTVISSMEGTLGIKSYY--SDD-----SSPYKEFSALFRRNFTSEYPEEDHFH 324 (771)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~--------~~~~~~~~g~~~~~~~~--~~~-----~~~~~~f~~~~~~~~~~~~~~~~~~~ 324 (771)
..|+|+....+...+.... .+...+++|-+.+-... ... .....+|...+.+......+ ...
T Consensus 261 ~ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~---~~~ 337 (865)
T KOG1055|consen 261 RKYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPE---ETG 337 (865)
T ss_pred ceeEEEEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccc---ccc
Confidence 9999999877665544221 23446677766654422 111 11233444444333221111 223
Q ss_pred CchhhhhHhHHHHHHHHHHHhhccC---------------CCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEE
Q 004136 325 PSIHALRAHDSIKIITEAIGRLNYN---------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (771)
Q Consensus 325 ~~~~a~~~YDav~~~a~Al~~~~~~---------------~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~ 389 (771)
....+.++|||+|++|+|++++... ..-.++|.++|.+++|+|++|.|.|++ |+|. ....|.|
T Consensus 338 ~~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ 415 (865)
T KOG1055|consen 338 GFQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQ 415 (865)
T ss_pred CcccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHH
Confidence 4567889999999999999987652 122567999999999999999999998 9987 8889999
Q ss_pred eeCCceEEEEEecCCCCCccccCCCccccccCccccCCCCcceecCCCCCCCCCCccc
Q 004136 390 VVGKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWA 447 (771)
Q Consensus 390 ~~~~~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~p~~~~ 447 (771)
+++|+++++|.|+...+ +++ ..++-+|-++ .||++.-
T Consensus 416 ~qdg~y~k~g~Yds~~D---~ls---------------~~n~~~w~~g---~ppkd~T 452 (865)
T KOG1055|consen 416 FQDGKYKKIGYYDSTKD---DLS---------------WINTEKWIGG---SPPKDST 452 (865)
T ss_pred HhCCceEeecccccccc---hhh---------------ccccceEecc---CCCcccc
Confidence 99999999999998753 222 2256688888 5666543
No 75
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=5.3e-29 Score=252.07 Aligned_cols=337 Identities=16% Similarity=0.210 Sum_probs=239.3
Q ss_pred EEEEEEEeCCCc---CchHHHHHHHHHHHHHhcCCC--CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 35 TKIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 35 I~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~--g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
||||+++.+|+. .+.....|..+||+|||++|| |++|+.+++|.++|+..-.+.+.+|+.+++|.+|+|...|..
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSas 80 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSAS 80 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhhh
Confidence 799999999953 467889999999999999996 899999999999999999999999998999999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
-.++.++.+.++-++..+..- ..+ ...|++|-+....+++...+++++ .++|.+++.+|.+|..|+ ...-..
T Consensus 81 RKaVlPvvE~~~~LL~Yp~~Y---EG~--E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~p--re~Nri 153 (363)
T PF13433_consen 81 RKAVLPVVERHNALLFYPTQY---EGF--ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYP--RESNRI 153 (363)
T ss_dssp HHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHH--HHHHHH
T ss_pred HHHHHHHHHhcCceEEecccc---ccc--cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccch--HHHHHH
Confidence 999999999999999865533 222 567899999999999999999998 677889999999999999 888899
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+++.+++.| +++..+..+|.+. +++...+.++++.+||+|+- ...++....|++++++.|+..+....+...
T Consensus 154 ~r~~l~~~G-gevvgE~Y~plg~------td~~~ii~~I~~~~Pd~V~s-tlvG~s~~aF~r~~~~aG~~~~~~Pi~S~~ 225 (363)
T PF13433_consen 154 IRDLLEARG-GEVVGERYLPLGA------TDFDPIIAEIKAAKPDFVFS-TLVGDSNVAFYRAYAAAGLDPERIPIASLS 225 (363)
T ss_dssp HHHHHHHTT--EEEEEEEE-S-H------HHHHHHHHHHHHHT-SEEEE-E--TTCHHHHHHHHHHHH-SSS---EEESS
T ss_pred HHHHHHHcC-CEEEEEEEecCCc------hhHHHHHHHHHhhCCCEEEE-eCcCCcHHHHHHHHHHcCCCcccCeEEEEe
Confidence 999999999 9999999999887 89999999999999999999 999999999999999999987654444333
Q ss_pred cccccccccChhhhhccccEEEEEeec-cCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 269 TVANALDSLNTTVISSMEGTLGIKSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
.........+. +...|.+...++- .-.+|..++|.++|+++|... ..++.....+|.+|+++++|+++++
T Consensus 226 ~~E~E~~~~g~---~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~------~v~s~~~eaaY~~v~l~a~Av~~ag 296 (363)
T PF13433_consen 226 TSEAELAAMGA---EAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDD------RVTSDPMEAAYFQVHLWAQAVEKAG 296 (363)
T ss_dssp --HHHHTTS-H---HHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----------HHHHHHHHHHHHHHHHHHHHT
T ss_pred cCHHHHhhcCh---hhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCC------CCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 33333333322 5778888776653 334689999999999998532 2356667789999999999999999
Q ss_pred cCCCChHHHHHHHHcCceeceeeeEEEeC-CCCCCCCeEEEEEee-CCceEEE
Q 004136 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVV-GKKYKEL 398 (771)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~-~g~~~~~~~~I~~~~-~~~~~~v 398 (771)
+ .+.+.++++|.+.+|+...|.|++|+ +.+.. ....|-+++ +|+|..|
T Consensus 297 s--~d~~~vr~al~g~~~~aP~G~v~id~~n~H~~-l~~rIg~~~~dG~f~Iv 346 (363)
T PF13433_consen 297 S--DDPEAVREALAGQSFDAPQGRVRIDPDNHHTW-LPPRIGRVNADGQFDIV 346 (363)
T ss_dssp S----HHHHHHHHTT--EEETTEEEEE-TTTSBEE-B--EEEEE-TTS-EEEE
T ss_pred C--CCHHHHHHHhcCCeecCCCcceEEcCCCCeec-ccceEEEEcCCCCEEEE
Confidence 8 79999999999999999999999997 33332 334444443 3444444
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=99.97 E-value=1.6e-28 Score=261.87 Aligned_cols=320 Identities=15% Similarity=0.184 Sum_probs=257.7
Q ss_pred EEEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 35 TKIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 35 I~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
|+||++.|+|+ ..|.....|+++|+++||+.+ .|++|++..+|+++++..+.+.+++|+.+++|.+|||+.++..
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~ 80 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPT 80 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchh
Confidence 79999999994 568889999999999999988 5899999999999999999999999995469999999988877
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
+.++.+++...++|+|++.+. ++.++....+++||+.+++...+..+++++.+.+|+++++++.++.++ ....+.+
T Consensus 81 ~~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~--~~~~~~~ 156 (336)
T cd06326 81 TAAALPLLEEAGVPLVGPFTG--ASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFG--KDGLAGV 156 (336)
T ss_pred HHHHHHHHHHcCCeEEEecCC--cHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcch--HHHHHHH
Confidence 888889999999999998766 555544456899999999999999999999999999999999988899 8899999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| +++.....++... +++..++.++++.++++|++ .++...+..++++++++|+..+ ++....
T Consensus 157 ~~~~~~~G-~~~~~~~~~~~~~------~d~~~~~~~l~~~~~dav~~-~~~~~~a~~~i~~~~~~G~~~~---~~~~~~ 225 (336)
T cd06326 157 EKALAARG-LKPVATASYERNT------ADVAAAVAQLAAARPQAVIM-VGAYKAAAAFIRALRKAGGGAQ---FYNLSF 225 (336)
T ss_pred HHHHHHcC-CCeEEEEeecCCc------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHhcCCCCc---EEEEec
Confidence 99999999 8887776666544 56899999999889999999 8888889999999999999764 222222
Q ss_pred ccccccccChhhhhccccEEEEEe--e-ccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhh
Q 004136 270 VANALDSLNTTVISSMEGTLGIKS--Y-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~--~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (771)
.... . .........+|++.... . ....+|..++|.+.|++++.. ..++.++..+||+++++++|++++
T Consensus 226 ~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~~ 296 (336)
T cd06326 226 VGAD-A-LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-------APPSYVSLEGYIAAKVLVEALRRA 296 (336)
T ss_pred cCHH-H-HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-------CCCCeeeehhHHHHHHHHHHHHHc
Confidence 1111 0 11122245677664322 1 112247788888888877632 246677889999999999999998
Q ss_pred ccCCCChHHHHHHHHcCce-eceeeeEEEeCCCC
Q 004136 347 NYNISSPEMLLRQMLSSDF-SGLSGKIRFKDGEL 379 (771)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f-~G~tG~v~Fd~~g~ 379 (771)
+.. .+++.|+++|++++. ++..+.++|++..+
T Consensus 297 g~~-~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 297 GPD-PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred CCC-CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 763 689999999999865 45555999986433
No 77
>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=99.96 E-value=1.1e-28 Score=261.57 Aligned_cols=303 Identities=17% Similarity=0.189 Sum_probs=246.0
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
|||+++|+|+ ..|.....|+++|++++| |++++++++|+++ |..+...+++|+ +++|.+||||.+|..+.+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in----G~~i~l~~~D~~~-~~~a~~~~~~li-~~~V~~iiG~~~s~~~~a 74 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN----GASIELRVYDTAG-AAGAAAAARQAV-AEGADIIVGPLLKENVAA 74 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc----CCCceEEEEeCCC-cccHHHHHHHHH-HcCCCEEEccCCHHHHHH
Confidence 5999999995 478899999999999999 7899999999999 999999999999 569999999999999999
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
+++++...++|+|++++. +.+.. .|++||+.+++..++.++++++.+.+++++++++.+++|| ....+.|++.
T Consensus 75 ~~~~~~~~~ip~i~~~~~---~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g--~~~~~~f~~~ 147 (336)
T cd06339 75 LAAAAAELGVPVLALNND---ESVAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYG--QRVADAFRQA 147 (336)
T ss_pred HHhhhccCCCCEEEccCC---ccccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHH--HHHHHHHHHH
Confidence 999999999999997755 33332 5899999999999999999999888999999999999999 9999999999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---------------------CceEEEEEecChh-HHHHHHH
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---------------------QSRVFIVLQASLD-MTIHLFT 250 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---------------------~~~vIv~~~~~~~-~~~~il~ 250 (771)
+++.| ++|+..+.++.+. +|++.+++++++. ++|+|++ ...+. ++..+.+
T Consensus 148 ~~~~G-~~vv~~~~~~~~~------~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~-~~~~~~~~~~~~~ 219 (336)
T cd06339 148 WQQLG-GTVVAIESYDPSP------TDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDA-VALPDGEARLIKP 219 (336)
T ss_pred HHHcC-CceeeeEecCCCH------HHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEE-EecChhhhhhhcc
Confidence 99999 9999988888766 7899999999987 9999999 77776 7777777
Q ss_pred HHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCC-chhh
Q 004136 251 EANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHA 329 (771)
Q Consensus 251 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~a 329 (771)
+++..+.......+++++.+.... ......+..+|++...+... ...+|.++|+++| +..| +.++
T Consensus 220 ~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~g~~~~g~~~~~~~~~----~~~~f~~~y~~~~--------~~~p~~~~~ 285 (336)
T cd06339 220 QLLFYYGVPGDVPLYGTSRWYSGT--PAPLRDPDLNGAWFADPPWL----LDANFELRYRAAY--------GWPPLSRLA 285 (336)
T ss_pred hhhhhccCcCCCCEEEeccccCCC--CCcccCcccCCcEEeCCCcc----cCcchhhhHHHHh--------cCCCCchHH
Confidence 887776411122467776655321 11122245677766554221 2347888888887 4456 8899
Q ss_pred hhHhHHHHHHHHHHHhhccCCCChHHHHHHHH-cCceeceeeeEEEeCCCCCC
Q 004136 330 LRAHDSIKIITEAIGRLNYNISSPEMLLRQML-SSDFSGLSGKIRFKDGELLN 381 (771)
Q Consensus 330 ~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~-~~~f~G~tG~v~Fd~~g~~~ 381 (771)
+.+|||+.+++.++++... +. +|. ...|+|++|+++|+++|+..
T Consensus 286 a~~YDa~~l~~~~~~~~~~---~~-----al~~~~~~~g~~G~~~f~~~g~~~ 330 (336)
T cd06339 286 ALGYDAYALAAALAQLGQG---DA-----ALTPGAGFSGVTGVLRLDPDGVIE 330 (336)
T ss_pred HHHHhHHHHHHHHHHcccc---cc-----ccCCCCccccCcceEEECCCCeEE
Confidence 9999999999988887654 22 333 34799999999999988754
No 78
>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=99.96 E-value=5.9e-27 Score=250.21 Aligned_cols=328 Identities=14% Similarity=0.136 Sum_probs=257.3
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|++ +..|.+...|+++|++++|+.| +|+++++++.|+++++..+.+.+.+|+.+++|.+|||+.++...
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~ 80 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGG 80 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccch
Confidence 699999999 3678999999999999999988 58999999999999999999999999966699999999988776
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l 189 (771)
.++ +.+...++|+|+..+. ++.+.. .|++|++.+++..++..+++++...+.+++++++.++. || ....+.+
T Consensus 81 ~~~-~~~~~~~ip~v~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g--~~~~~~~ 153 (341)
T cd06341 81 SAL-PYLAGAGIPVIGGAGT--SAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAV--SAAAALL 153 (341)
T ss_pred hHH-HHHhhcCCceecCCCC--Cchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHH--HHHHHHH
Confidence 666 8889999999998876 555443 57899999999999999999999889999999987765 88 8899999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| ++++....++... .|+..++.++++.++|+|++ ..+...+..++++++++|+..+. .+....
T Consensus 154 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~i~~~~pdaV~~-~~~~~~a~~~~~~~~~~G~~~~~--~~~~~~ 223 (341)
T cd06341 154 ARSLAAAG-VSVAGIVVITATA------PDPTPQAQQAAAAGADAIIT-VLDAAVCASVLKAVRAAGLTPKV--VLSGTC 223 (341)
T ss_pred HHHHHHcC-CccccccccCCCC------CCHHHHHHHHHhcCCCEEEE-ecChHHHHHHHHHHHHcCCCCCE--EEecCC
Confidence 99999999 9888776666543 46999999999999999999 88888999999999999998762 222222
Q ss_pred ccccccccChhhhhccccEEEEEeeccC--CChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhc
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (771)
.... .. ....+..+|++....+.+. .+|..+.|.+.++ +|...+ +..++.++..+||+++++++|+++++
T Consensus 224 ~~~~--~~-~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~-~~~~~~----~~~~~~~~~~~yda~~~~~~a~~~ag 295 (341)
T cd06341 224 YDPA--LL-AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMA-RYAPQL----DPPEQGFALIGYIAADLFLRGLSGAG 295 (341)
T ss_pred CCHH--HH-HhcCcccCceEEEeeeccccCCCHHHHHHHHHHH-HhCCCC----CCCcchHHHHHHHHHHHHHHHHHhcC
Confidence 2111 11 2223567888877665443 4477888876554 343322 34578899999999999999999998
Q ss_pred cCCCChHH-HHHHHHcCceeceee---eEEEeCCCCCCCCeEEEEE
Q 004136 348 YNISSPEM-LLRQMLSSDFSGLSG---KIRFKDGELLNADTLRIVN 389 (771)
Q Consensus 348 ~~~~~~~~-l~~~l~~~~f~G~tG---~v~Fd~~g~~~~~~~~I~~ 389 (771)
.. .+++. ++++|++++.....| ++++..++.+....+..+|
T Consensus 296 ~~-~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 340 (341)
T cd06341 296 GC-PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRPSTCYSFVQ 340 (341)
T ss_pred CC-CChHHHHHHHhhcCCCCCCCCcccCccCccCCCCCchhhhhee
Confidence 73 56777 999999986543333 4444455554434444443
No 79
>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=99.96 E-value=2.5e-27 Score=249.37 Aligned_cols=300 Identities=13% Similarity=0.118 Sum_probs=230.6
Q ss_pred CchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccE
Q 004136 47 MGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPI 124 (771)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~ 124 (771)
-+.+..+|+++|+++||+.| .|++|+++..|. ++|..++..+++|+ +++|.+|+|+.+|..+.++.++++..++|+
T Consensus 9 ~~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li-~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~ 86 (347)
T TIGR03863 9 PEDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALL-AQGVRFFVLDLPAAALLALADAAKAKGALL 86 (347)
T ss_pred CcchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHH-HCCCCEEEecCChHHHHHHHHHHHhCCcEE
Confidence 35678999999999999987 589999999985 68999999999999 678999999999999999999999999999
Q ss_pred EeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEE
Q 004136 125 LSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQS 203 (771)
Q Consensus 125 Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~ 203 (771)
|+++++ ++.++. .++||+||+.|++..++.++++++...+.+++++|+.|++|| ....+.+++.+++.| ++|+.
T Consensus 87 i~~~a~--~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g--~~~~~~~~~~~~~~G-~~vv~ 161 (347)
T TIGR03863 87 FNAGAP--DDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPAD--ALYADAFRRSAKRFG-AKIVA 161 (347)
T ss_pred EeCCCC--ChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCccc--HHHHHHHHHHHHHCC-CEEEE
Confidence 999998 888886 578999999999999999999999877999999999999999 999999999999999 99999
Q ss_pred eeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhh
Q 004136 204 RLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVIS 283 (771)
Q Consensus 204 ~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~ 283 (771)
.+.++...... .+++.......+..++|+|++ .....+....+... .+... ..+
T Consensus 162 ~~~~~~~~~~~--~~d~s~~~~~~~~s~pDvv~~-~~~~~~~~~~~~~~--~~~~~---~~~------------------ 215 (347)
T TIGR03863 162 ERPFTFSGDPR--RTDQSEVPLFTQGADYDVVVV-ADEAGEFARYLPYA--TWLPR---PVA------------------ 215 (347)
T ss_pred eEEeccCCchh--hhhcccCceeecCCCCCEEEE-ecchhhHhhhcccc--ccccc---ccc------------------
Confidence 88887653111 123432222233478999999 66554432211111 00000 001
Q ss_pred ccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHhhccCCCChHHHHHHHHcC
Q 004136 284 SMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSS 363 (771)
Q Consensus 284 ~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~ 363 (771)
...|+.....+....+|..++|.++|+++| +..|+..++.+||++++++.|++++++ .++++|.++|++.
T Consensus 216 g~~G~~~~~~~~~~~~~~~~~f~~~f~~~~--------g~~p~~~~a~aY~av~~~a~Ai~~AGs--~d~~aV~~aL~~~ 285 (347)
T TIGR03863 216 GSAGLVPTAWHRAWERWGATQLQSRFEKLA--------GRPMTELDYAAWLAVRAVGEAVTRTRS--ADPATLRDYLLSD 285 (347)
T ss_pred cccCccccccCCcccchhHHHHHHHHHHHh--------CCCCChHHHHHHHHHHHHHHHHHHhcC--CCHHHHHHHHcCC
Confidence 111222111122222367899999999988 445677889999999999999999998 8999999999998
Q ss_pred ce--eceee-eEEEeC-CCCCCCCeEEEEEe
Q 004136 364 DF--SGLSG-KIRFKD-GELLNADTLRIVNV 390 (771)
Q Consensus 364 ~f--~G~tG-~v~Fd~-~g~~~~~~~~I~~~ 390 (771)
++ .+..| +++|++ +|... ....+.+.
T Consensus 286 ~~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~~ 315 (347)
T TIGR03863 286 EFELAGFKGRPLSFRPWDGQLR-QPVLLVHP 315 (347)
T ss_pred CceecccCCCcceeeCCCcccc-cceEeccc
Confidence 77 46777 799996 55444 44444443
No 80
>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=99.95 E-value=3.8e-26 Score=239.21 Aligned_cols=279 Identities=26% Similarity=0.421 Sum_probs=239.3
Q ss_pred EEEEEEeCCC-----cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc----CCeEEEEcCCc
Q 004136 36 KIGAIVDANS-----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK----EKVKVIAGMET 106 (771)
Q Consensus 36 ~IG~i~p~s~-----~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~----~~v~aviGp~~ 106 (771)
+||++++.+. ..+.....++..|++++|+..+++++++.+.|+++++..+...+.+++.. +++.+|+||.+
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~~~ 80 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINNDLPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGPSS 80 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhccCCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECCCC
Confidence 4899999874 35677889999999999988778999999999999999999999999965 69999999999
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (771)
+..+.+++++++.+++|+|+++++ ++.+++ ..+|+++|+.|++..++.++++++++++|++++++|++++++ ...
T Consensus 81 s~~~~~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~--~~~ 156 (298)
T cd06269 81 SSSAEAVASLLGALHIPQISYSAT--SPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYG--RRL 156 (298)
T ss_pred chHHHHHHHHhccCCCcEEecccC--chhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhh--HHH
Confidence 999999999999999999999998 788776 578999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (771)
.+.+++.+++.| +++.....++... .++...++++++.++++|++ ++.+.++..++++++++|+. ..++||
T Consensus 157 ~~~~~~~~~~~~-~~v~~~~~~~~~~------~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~~g~~-~~~~~i 227 (298)
T cd06269 157 LELLEEELEKNG-ICVAFVESIPDGS------EDIRRLLKELKSSTARVIVV-FSSEEDALRLLEEAVELGMM-TGYHWI 227 (298)
T ss_pred HHHHHHHHHHCC-eeEEEEEEcCCCH------HHHHHHHHHHHhcCCcEEEE-EechHHHHHHHHHHHHcCCC-CCeEEE
Confidence 999999999999 9999888877655 67999999999999999999 99999999999999999998 778999
Q ss_pred eeCccccc-ccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHH
Q 004136 266 VTNTVANA-LDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (771)
Q Consensus 266 ~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~ 344 (771)
.++.+... .. ........+.++... .+..+|||+++
T Consensus 228 ~~~~~~~~~~~---~~~~~~~~~~~~~~~----------------------------------~~~~~~dav~~------ 264 (298)
T cd06269 228 ITDLWLTSCLD---LELLEYFPGNLTGFG----------------------------------EAALVYDAVYA------ 264 (298)
T ss_pred EEChhhccccc---cCCccccceEEEEEE----------------------------------eeEeEEEEEEe------
Confidence 99987653 11 111123333332221 34667888776
Q ss_pred hhccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee-CCceEEEEEecC
Q 004136 345 RLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (771)
Q Consensus 345 ~~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~ 403 (771)
|.+.+..+.+++.. ...+++||.|++
T Consensus 265 ---------------------------------~~~~~~~~~~~~~~~~~~~~~vg~w~~ 291 (298)
T cd06269 265 ---------------------------------GRRANYDLDIIQLTPSGGFVKVGTWSP 291 (298)
T ss_pred ---------------------------------cCcCCceEEEEEECCCCCEEEEEEEcC
Confidence 66667888888887 789999999987
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=99.94 E-value=1.5e-25 Score=234.83 Aligned_cols=280 Identities=24% Similarity=0.395 Sum_probs=231.5
Q ss_pred EEEEEEeCCC---cCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+++|+++ ..|.+...|+++|++++|+++ .|+++++++.|+++++..+.+.+++++.+.+|.+||||.++..+
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~ 80 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGVA 80 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 5999999994 578899999999999999987 58999999999999999999999999955599999999999888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.+++.+++..+||+|++.+. .+.+.+ ..+|++|++.|++..++..+++++++++|+++++++.++.++ ....+.+
T Consensus 81 ~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~--~~~~~~~ 156 (299)
T cd04509 81 LAVAPVAEALKIPLISPGAT--APGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYG--RGLLEAF 156 (299)
T ss_pred HHHHHHHhhCCceEEeccCC--CcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHH--HHHHHHH
Confidence 89999999999999999887 666554 568999999999999999999999999999999999998888 8889999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| +++.....++... +++...++++++.++++|++ ++++..+..++++++++|+. +.+.|++.+.
T Consensus 157 ~~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~v~~-~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~ 227 (299)
T cd04509 157 KAAFKKKG-GTVVGEEYYPLGT------TDFTSLLQKLKAAKPDVIVL-CGSGEDAATILKQAAEAGLT-GGYPILGITL 227 (299)
T ss_pred HHHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cccchHHHHHHHHHHHcCCC-CCCcEEeccc
Confidence 99999999 9988766665543 45888999998888999999 88889999999999999998 6788999887
Q ss_pred ccccccccChhhhhccccEEEEEeeccCCChhHHHHH----HHHHHhcccCCCCCCCCCCchhhhhHhHHHHH
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFS----ALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (771)
+...... ....+..+|.+...+..+..++....+. ..++..+ +..++.+++.+||++++
T Consensus 228 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 228 GLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY--------EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh--------CCCCChhhhhhcceeee
Confidence 6543321 1233567888877776554422223332 2233322 44678899999999987
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=99.94 E-value=5.1e-25 Score=232.11 Aligned_cols=278 Identities=21% Similarity=0.254 Sum_probs=225.5
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
|||+++|+| +..|.....|+++|+++||+ + +|+++++++.|+++++..+.+.+.+|+.+++|.+|||+.++..+
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~ 79 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPAT 79 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHH
Confidence 699999999 45788999999999999999 7 68999999999999999999999999966799999999888878
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.++.+.+...++|+|+..+. ++.+. ...+|+||+.+++...+..+++++.+.+|+++++++.++.++ ....+.++
T Consensus 80 ~~~~~~~~~~~vP~v~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~--~~~~~~~~ 154 (312)
T cd06333 80 MAVAPVAEEAKTPMISLAPA--AAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYG--ESGLKELK 154 (312)
T ss_pred HHHHHHHHhcCCCEEEccCC--ccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHH--HHHHHHHH
Confidence 88889999999999998876 44333 456899999999999999999999999999999999988888 88889999
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+.+++.| +++.....++... .++..++.++++.++|+|++ ..+...+..++++++++|+..+ ++.+...
T Consensus 155 ~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~l~~~~pdaIi~-~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~ 223 (312)
T cd06333 155 ALAPKYG-IEVVADERYGRTD------TSVTAQLLKIRAARPDAVLI-WGSGTPAALPAKNLRERGYKGP---IYQTHGV 223 (312)
T ss_pred HHHHHcC-CEEEEEEeeCCCC------cCHHHHHHHHHhCCCCEEEE-ecCCcHHHHHHHHHHHcCCCCC---EEeecCc
Confidence 9999999 9988776676544 45888888888888999999 8877788889999999999876 3333322
Q ss_pred cccccccChhhhhccccEEEEEee------ccC---CChhHHHHHHHHHHhcccCCCCCCCCC-CchhhhhHhHHHHHHH
Q 004136 271 ANALDSLNTTVISSMEGTLGIKSY------YSD---DSSPYKEFSALFRRNFTSEYPEEDHFH-PSIHALRAHDSIKIIT 340 (771)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~------~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~a~~~YDav~~~a 340 (771)
.. ... .....+..+|++....+ .+. .++..++|.++|+++| +.. |+.+++.+||++++++
T Consensus 224 ~~-~~~-~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~--------g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 224 AS-PDF-LRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY--------GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred Cc-HHH-HHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh--------CCCCCCchhHHHHHHHHHHH
Confidence 21 111 11222456777654321 121 1257889999999887 333 7788999999999998
No 83
>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=99.93 E-value=5.3e-24 Score=214.73 Aligned_cols=324 Identities=14% Similarity=0.107 Sum_probs=242.1
Q ss_pred cCchHHHHHHHHHHHHHhcCC--CCcEEEE----------EEecCCCC--HHHHHHHHHHHHh-cCCeEEEEcCCchHhH
Q 004136 46 QMGKQAITAMKIAVQNFNSDS--RNHKLSL----------QIRDHNRD--PFQAATAAQELIN-KEKVKVIAGMETWEET 110 (771)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~--~g~~i~l----------~~~D~~~~--~~~a~~~~~~li~-~~~v~aviGp~~s~~~ 110 (771)
+.-+..+.|++.|++.+++.. .|..+++ ++.+.+|- .=++++...+|.. ++..++++||.|...+
T Consensus 15 ~s~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat 94 (380)
T cd06369 15 WSLKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYAT 94 (380)
T ss_pred hhHHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceeh
Confidence 345678899999999998765 6777777 66665442 3366677777765 4567799999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH------HHcCCeEEEEEEEeCCCCCCcc
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA------RKYNWRRVAAIYEDNVYGGDSG 184 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l------~~~~w~~v~ii~~~~~~g~~~~ 184 (771)
.++++....+++|+||.++- . ++=..++++-|+.|+....+..+.++. ++++|++.. ||.+++-. +.
T Consensus 95 ~~~~~~~~~~~~P~ISaGsf--g--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~--ed 167 (380)
T cd06369 95 FQMVDDEFNLSLPIISAGSF--G--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENT--ED 167 (380)
T ss_pred hhhhhhhhcCCCceEecccc--c--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCc--cc
Confidence 99999999999999998866 2 332344589999999999999999999 489998555 88876421 11
Q ss_pred ---hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 185 ---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 185 ---~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
..+++....+..+ ..+...+..... .++.+.+++.++ .+|||++ ++++++.++++.+ ++..++
T Consensus 168 Cf~~i~al~a~~~~f~-~~~~~~~~l~~~-------~~~~~il~~~~~-~sRIiIm-CG~p~~ir~lm~~----~~~~gD 233 (380)
T cd06369 168 CFWYINALEAGVAYFS-SALKFKELLRTE-------EELQKLLTDKNR-KSNVIIM-CGTPEDIVNLKGD----RAVAED 233 (380)
T ss_pred eeeEhHhhhhhhhhhh-hcccceeeecCc-------hhHHHHHHHhcc-CccEEEE-eCCHHHHHHHHhc----CccCCC
Confidence 2566666555555 444444433322 458888888775 6999999 9999999999886 444568
Q ss_pred eEEEeeCcccccccccChhhhhccccEEEEEeeccCCChhHHHHHHHHHHhcccCCCCCCCCCC-chhhhhHhHHHHHHH
Q 004136 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHALRAHDSIKIIT 340 (771)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~a~~~YDav~~~a 340 (771)
|++|..+....... .+....+++++++.+++..++. +.+++ . .+. +... +.+++..||||+++|
T Consensus 234 YVf~~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~-~~~~~-------~----~~f--n~~l~~~~aa~fyDaVLLYa 298 (380)
T cd06369 234 IVIILIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNS-TNNSS-------F----TTD--NSLLKDDYVAAYHDGVLLFG 298 (380)
T ss_pred EEEEEEecccchhc-cCcchHHHHhceEEEecCCCCC-ccccc-------C----CCC--CcchHHHHHHHHHHHHHHHH
Confidence 99999987754332 1233456789999998877755 33332 0 110 2222 278999999999999
Q ss_pred HHHHhhccCC--CChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEee--CCceEEEEEecCCCC
Q 004136 341 EAIGRLNYNI--SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV--GKKYKELDFWLPNFG 406 (771)
Q Consensus 341 ~Al~~~~~~~--~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~--~~~~~~vg~w~~~~~ 406 (771)
+||++...+. ..+..+.+.|+|.+|+|++|+|++|++|||. .+|.++.+. .++++.||.|+...+
T Consensus 299 ~AL~EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd-~dfsLl~ms~~tg~y~vV~~y~t~~n 367 (380)
T cd06369 299 HVLKKFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRD-VNFTLLYTSTDTSKYKVLFEFDTSTN 367 (380)
T ss_pred HHHHHHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCcc-CceEEEEeeCCCCCeEEEEEEECCCC
Confidence 9999876531 2337899999999999999999999999998 899998874 489999999998653
No 84
>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=99.92 E-value=2.9e-23 Score=217.33 Aligned_cols=279 Identities=24% Similarity=0.370 Sum_probs=230.7
Q ss_pred EEEEEEeCC---CcCchHHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
+||+++|++ +..|.+...|++.|++++|+.+ +|++++++++|+++++..+.+.+++++ ++++.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~-~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELV-DDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHH-hCCceEEEcCCcchhH
Confidence 589999998 4678899999999999999987 589999999999999999999999999 6799999999998888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCCCCcchHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.++.+.+...+||+|++.+. .+.+.+..+|++|++.|++..++++++++++..+ |+++++++.+++++ ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~--~~~~~~~ 155 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGAT--SPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYG--RGLAAAF 155 (298)
T ss_pred HhhHHHHHhCCCcEEccCCC--CcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchh--HHHHHHH
Confidence 88999999999999999887 5655444679999999999999999999998887 99999999998898 8899999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.| +++.....++... +++...++++++.++++|++ .+++..+..+++++++.|+.. .|++.+.
T Consensus 156 ~~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (298)
T cd06268 156 REALKKLG-GEVVAEETYPPGA------TDFSPLIAKLKAAGPDAVFL-AGYGGDAALFLKQAREAGLKV---PIVGGDG 224 (298)
T ss_pred HHHHHHcC-CEEEEEeccCCCC------ccHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCCC---cEEecCc
Confidence 99999999 8988776665443 45888999999889999999 888899999999999999843 5777766
Q ss_pred ccccccccChhhhhccccEEEEEeeccCC-ChhHHHHH-HHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHH
Q 004136 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFS-ALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (771)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a 340 (771)
+...... ....+..+|++...++.+.. .+....+. +.|++.+ +..++.++..+||++++++
T Consensus 225 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 225 AAAPALL--ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--------GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred cCCHHHH--HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--------CCCcccchHHHHHHHHHHc
Confidence 5432211 22235667887777654433 23344454 6666665 4468889999999999987
No 85
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.80 E-value=8.3e-19 Score=181.85 Aligned_cols=199 Identities=14% Similarity=0.158 Sum_probs=160.3
Q ss_pred CCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHH----HCCC-cccEEEecCCCChHHHHHH
Q 004136 449 PSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVD----HLNY-DLPYEFVPHDGVYDDLING 523 (771)
Q Consensus 449 ~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~----~l~f-~~~~~~~~~~~~~~~~i~~ 523 (771)
...+++|+|++.. .++||.+.++++ .+.||++||++.|++ ++|. .+++++++. +|..++..
T Consensus 36 i~~~g~L~Vg~~~--~~pP~~f~~~~g----------~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~--~~~~~i~~ 101 (302)
T PRK10797 36 IAKNGVIVVGHRE--SSVPFSYYDNQQ----------KVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI--TSQNRIPL 101 (302)
T ss_pred HHhCCeEEEEEcC--CCCCcceECCCC----------CEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc--ChHhHHHH
Confidence 3467889999854 567888865444 789999998777665 6653 244677775 47789999
Q ss_pred HhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccC
Q 004136 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (771)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (771)
|.+|++||+++++++|++|.+.++||.||+.++..+++++.+.
T Consensus 102 L~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~------------------------------------- 144 (302)
T PRK10797 102 LQNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGD------------------------------------- 144 (302)
T ss_pred HHCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCCC-------------------------------------
Confidence 9999999999999999999999999999999999999988652
Q ss_pred ccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCC
Q 004136 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (771)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~ 683 (771)
|++++||. |
T Consensus 145 ---------------------------------------------------------------------i~sl~dL~--G 153 (302)
T PRK10797 145 ---------------------------------------------------------------------IKDFADLK--G 153 (302)
T ss_pred ---------------------------------------------------------------------CCChHHcC--C
Confidence 78999998 8
Q ss_pred ceEEEecChHHHHHHHHhcC--CCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHh--cCCceeEee-eeeec
Q 004136 684 LKVGCVDDSFVKKYLEEVLG--FRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK--YCKKYTAIN-TYRFG 758 (771)
Q Consensus 684 ~~~g~~~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~--~c~~l~~~~-~~~~~ 758 (771)
++||+..++....+++.... ....++..+.+ .++++++|.+|++|+++.|...+.+.+.+ ..+.+++++ .+...
T Consensus 154 k~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~-~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~ 232 (302)
T PRK10797 154 KAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKD-HGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQE 232 (302)
T ss_pred CEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCC-HHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcC
Confidence 99999999999888865311 12346677787 99999999999999999999887665443 234578888 77888
Q ss_pred eEEEEEecCCCC
Q 004136 759 GLGFVSNIIYSH 770 (771)
Q Consensus 759 ~~g~~~~k~s~~ 770 (771)
+||++++|+++.
T Consensus 233 ~~~~a~~k~~~~ 244 (302)
T PRK10797 233 AYGCMLRKDDPQ 244 (302)
T ss_pred ceeEEEeCCCHH
Confidence 999999998764
No 86
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.79 E-value=1.7e-18 Score=175.88 Aligned_cols=200 Identities=14% Similarity=0.239 Sum_probs=159.8
Q ss_pred cccCCCCCceEEEeccCCCccceEEecc-CCCCCCCCCCCcccccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHH
Q 004136 446 WAMPSNQEPMRIGVPTRTFFEKFVVIKD-DPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLING 523 (771)
Q Consensus 446 ~~~~~~~~~~~v~~~~~~~~~p~~~~~~-~~~~~~~g~~~~~~~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~ 523 (771)
+..+...++|+|++.. +++||.+.+. ++ ++.||++||++++++++ |..+++++... +|...+..
T Consensus 31 l~~i~~~g~l~vg~~~--~~pP~~~~~~~~g----------~~~G~~vdl~~~ia~~llg~~~~~~~~~~--~~~~~~~~ 96 (259)
T PRK11917 31 LESIKSKGQLIVGVKN--DVPHYALLDQATG----------EIKGFEIDVAKLLAKSILGDDKKIKLVAV--NAKTRGPL 96 (259)
T ss_pred HHHHHhCCEEEEEECC--CCCCceeeeCCCC----------ceeEeeHHHHHHHHHHhcCCCccEEEEEc--ChhhHHHH
Confidence 3445678899999964 5678888643 33 79999999999999995 86555665554 36667789
Q ss_pred HhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccC
Q 004136 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (771)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (771)
|.+|++|++++++++|++|.+.++||.||+.++..+++++.++
T Consensus 97 l~~g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~------------------------------------- 139 (259)
T PRK11917 97 LDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKN------------------------------------- 139 (259)
T ss_pred HHCCCccEEEecccCChhhhheeeeccCceeeceEEEEECCCC-------------------------------------
Confidence 9999999999999999999999999999999999999988753
Q ss_pred ccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCC
Q 004136 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (771)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~ 683 (771)
+++++||. |
T Consensus 140 ---------------------------------------------------------------------~~s~~dL~--g 148 (259)
T PRK11917 140 ---------------------------------------------------------------------YKSLADMK--G 148 (259)
T ss_pred ---------------------------------------------------------------------CCCHHHhC--C
Confidence 78999998 9
Q ss_pred ceEEEecChHHHHHHHHhcC--CCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-eeeeceE
Q 004136 684 LKVGCVDDSFVKKYLEEVLG--FRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGL 760 (771)
Q Consensus 684 ~~~g~~~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~~~~~~ 760 (771)
.+||+..++.....+.+... ....++..+.+ ..+++++|.+|++|+++.+...+.++.++. ..+++ .+...+|
T Consensus 149 ~~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~l~~GrvDa~~~d~~~~~~~~~~~---~~~~~~~~~~~~~ 224 (259)
T PRK11917 149 ANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPD-YPSIKAALDAKRVDAFSVDKSILLGYVDDK---SEILPDSFEPQSY 224 (259)
T ss_pred CeEEEecCCcHHHHHHHhhHhcCCceeEEecCC-HHHHHHHHHcCCCcEEEecHHHHHHhhhcC---CeecCCcCCCCce
Confidence 99999999888776654311 11234556777 899999999999999999988776655432 45666 7888899
Q ss_pred EEEEecCCCCC
Q 004136 761 GFVSNIIYSHL 771 (771)
Q Consensus 761 g~~~~k~s~~l 771 (771)
|++++|+++.|
T Consensus 225 ~~a~~k~~~~l 235 (259)
T PRK11917 225 GIVTKKDDPAF 235 (259)
T ss_pred EEEEeCCCHHH
Confidence 99999998753
No 87
>PRK11260 cystine transporter subunit; Provisional
Probab=99.79 E-value=2.6e-18 Score=176.06 Aligned_cols=202 Identities=17% Similarity=0.294 Sum_probs=167.8
Q ss_pred ccccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHH
Q 004136 445 GWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGV 524 (771)
Q Consensus 445 ~~~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l 524 (771)
.......+++|+|++.. .++||.+.++++ ++.|+.+|+++.+++++|.++++... .|.+++..+
T Consensus 33 ~l~~i~~~~~l~v~~~~--~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~e~~~~----~~~~~~~~l 96 (266)
T PRK11260 33 LLNKVKERGTLLVGLEG--TYPPFSFQGEDG----------KLTGFEVEFAEALAKHLGVKASLKPT----KWDGMLASL 96 (266)
T ss_pred cHHHhhcCCeEEEEeCC--CcCCceEECCCC----------CEEEehHHHHHHHHHHHCCeEEEEeC----CHHHHHHHH
Confidence 33444577899999853 466787765444 78999999999999999998666542 499999999
Q ss_pred hcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCc
Q 004136 525 YDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNP 604 (771)
Q Consensus 525 ~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~ 604 (771)
.+|++|+++++++.+.+|.+.+.||.|++..+..+++++.+..
T Consensus 97 ~~G~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------- 139 (266)
T PRK11260 97 DSKRIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEG------------------------------------- 139 (266)
T ss_pred hcCCCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcC-------------------------------------
Confidence 9999999998899999999999999999999999998876532
Q ss_pred cCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCc
Q 004136 605 EFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNL 684 (771)
Q Consensus 605 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~ 684 (771)
.+++++||. +.
T Consensus 140 -------------------------------------------------------------------~~~~~~dL~--g~ 150 (266)
T PRK11260 140 -------------------------------------------------------------------TIKTAADLK--GK 150 (266)
T ss_pred -------------------------------------------------------------------CCCCHHHcC--CC
Confidence 178899997 88
Q ss_pred eEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-eeeeceEEEE
Q 004136 685 KVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLGFV 763 (771)
Q Consensus 685 ~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~~~~~~g~~ 763 (771)
++|+..|+....++++. .+..++..+.+ ..+++++|.+|++|+++.+...+.+++++..+.+.+.. .+...+++++
T Consensus 151 ~Igv~~G~~~~~~l~~~--~~~~~i~~~~~-~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (266)
T PRK11260 151 KVGVGLGTNYEQWLRQN--VQGVDVRTYDD-DPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVA 227 (266)
T ss_pred EEEEecCCcHHHHHHHh--CCCCceEecCC-HHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEE
Confidence 99999999888888764 55567778888 99999999999999999999988888887665455556 7778899999
Q ss_pred EecCCCCC
Q 004136 764 SNIIYSHL 771 (771)
Q Consensus 764 ~~k~s~~l 771 (771)
++|+++.|
T Consensus 228 v~~~~~~l 235 (266)
T PRK11260 228 LRKGNPDL 235 (266)
T ss_pred EeCCCHHH
Confidence 99998743
No 88
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.78 E-value=4.8e-18 Score=172.22 Aligned_cols=191 Identities=18% Similarity=0.339 Sum_probs=159.8
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
+.++|+|++. +.++||.+. +++ ++.|+++||++++++++|.+++++ +. +|.+++..+.+|++|
T Consensus 23 ~~~~l~v~~~--~~~~P~~~~-~~g----------~~~G~~vdl~~~ia~~lg~~~~~~--~~--~~~~~~~~l~~G~vD 85 (247)
T PRK09495 23 ADKKLVVATD--TAFVPFEFK-QGD----------KYVGFDIDLWAAIAKELKLDYTLK--PM--DFSGIIPALQTKNVD 85 (247)
T ss_pred cCCeEEEEeC--CCCCCeeec-CCC----------ceEEEeHHHHHHHHHHhCCceEEE--eC--CHHHHHHHHhCCCcC
Confidence 4578999975 346678774 234 789999999999999999886664 32 599999999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
+++++++.|++|++.++||.||+.++..+++++.+..
T Consensus 86 i~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------- 122 (247)
T PRK09495 86 LALAGITITDERKKAIDFSDGYYKSGLLVMVKANNND------------------------------------------- 122 (247)
T ss_pred EEEecCccCHHHHhhccccchheecceEEEEECCCCC-------------------------------------------
Confidence 9988899999999999999999999999999876542
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
+++++||. +.+||+..
T Consensus 123 --------------------------------------------------------------~~~~~dL~--g~~I~v~~ 138 (247)
T PRK09495 123 --------------------------------------------------------------IKSVKDLD--GKVVAVKS 138 (247)
T ss_pred --------------------------------------------------------------CCChHHhC--CCEEEEec
Confidence 88999998 88999999
Q ss_pred ChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhc-CCceeEee-eeeeceEEEEEecCC
Q 004136 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY-CKKYTAIN-TYRFGGLGFVSNIIY 768 (771)
Q Consensus 691 ~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~-c~~l~~~~-~~~~~~~g~~~~k~s 768 (771)
++....+++.. .+..+++.+.+ ..+++++|.+|++|+++.+...+.+++++. ...+..++ ......++++++|++
T Consensus 139 g~~~~~~l~~~--~~~~~i~~~~~-~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 215 (247)
T PRK09495 139 GTGSVDYAKAN--IKTKDLRQFPN-IDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGS 215 (247)
T ss_pred CchHHHHHHhc--CCCCceEEcCC-HHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcH
Confidence 98888888763 44557777887 899999999999999999999888877764 34477777 677788999999986
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.75 E-value=2.5e-17 Score=168.20 Aligned_cols=197 Identities=19% Similarity=0.287 Sum_probs=153.1
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
..++++|++. +.++||.+.++++ .+.|+++||++++++++|.+++|+ .. +|+.++..+..|++|
T Consensus 24 ~~~~l~v~~~--~~~pPf~~~~~~g----------~~~G~~vdl~~~ia~~lg~~~~~~--~~--~~~~~~~~l~~g~~D 87 (260)
T PRK15010 24 LPETVRIGTD--TTYAPFSSKDAKG----------DFVGFDIDLGNEMCKRMQVKCTWV--AS--DFDALIPSLKAKKID 87 (260)
T ss_pred cCCeEEEEec--CCcCCceeECCCC----------CEEeeeHHHHHHHHHHhCCceEEE--eC--CHHHHHHHHHCCCCC
Confidence 4577899885 3466788865545 789999999999999999986555 32 599999999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
++++++..|++|++.++||.||+.+...+++++....
T Consensus 88 i~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------- 124 (260)
T PRK15010 88 AIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI------------------------------------------- 124 (260)
T ss_pred EEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC-------------------------------------------
Confidence 9998899999999999999999999999999887642
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
..+++||. |.+||+.+
T Consensus 125 --------------------------------------------------------------~~~~~dl~--g~~Igv~~ 140 (260)
T PRK15010 125 --------------------------------------------------------------QPTLDSLK--GKHVGVLQ 140 (260)
T ss_pred --------------------------------------------------------------CCChhHcC--CCEEEEec
Confidence 33688887 89999999
Q ss_pred ChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHH-HHHh-cCCceeEee-eeee-----ceEEE
Q 004136 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDK-YCKKYTAIN-TYRF-----GGLGF 762 (771)
Q Consensus 691 ~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~-~~~~-~c~~l~~~~-~~~~-----~~~g~ 762 (771)
++....++.........++..+.+ .++++++|.+|++|+++.+...+.+ +.++ ..+.+...+ .... ..+++
T Consensus 141 gs~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (260)
T PRK15010 141 GSTQEAYANETWRSKGVDVVAYAN-QDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGV 219 (260)
T ss_pred CchHHHHHHHhcccCCceEEecCC-HHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEE
Confidence 998888876542222335556777 8999999999999999999887764 3333 234455554 3222 34689
Q ss_pred EEecCCCCC
Q 004136 763 VSNIIYSHL 771 (771)
Q Consensus 763 ~~~k~s~~l 771 (771)
+++++.+.|
T Consensus 220 a~~~~~~~L 228 (260)
T PRK15010 220 GLRKDDAEL 228 (260)
T ss_pred EEeCCCHHH
Confidence 999987643
No 90
>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=99.75 E-value=1.7e-17 Score=165.95 Aligned_cols=194 Identities=18% Similarity=0.347 Sum_probs=157.5
Q ss_pred eEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEe
Q 004136 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (771)
Q Consensus 455 ~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~ 534 (771)
|||++.. .++||.+.++++ .+.|+++||++++++++|+++++... +|.+++..|.+|++|++++
T Consensus 1 l~V~~~~--~~~P~~~~~~~~----------~~~G~~~dl~~~i~~~~g~~~~~~~~----~~~~~~~~l~~g~~D~~~~ 64 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDEDG----------EPSGIDVDLLRAIAKRLGIKIEFVPM----PWSRLLEMLENGKADIIIG 64 (225)
T ss_dssp EEEEEES--EBTTTBEEETTS----------EEESHHHHHHHHHHHHHTCEEEEEEE----EGGGHHHHHHTTSSSEEES
T ss_pred CEEEEcC--CCCCeEEECCCC----------CEEEEhHHHHHHHHhhcccccceeec----ccccccccccccccccccc
Confidence 5788832 455677876655 89999999999999999999666653 4899999999999999999
Q ss_pred eEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchH
Q 004136 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (771)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (771)
+++.|.+|.+.++||.|++.....+++++.+...
T Consensus 65 ~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~---------------------------------------------- 98 (225)
T PF00497_consen 65 GLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPP---------------------------------------------- 98 (225)
T ss_dssp SEB-BHHHHTTEEEESESEEEEEEEEEETTSTCS----------------------------------------------
T ss_pred cccccccccccccccccccchhheeeeccccccc----------------------------------------------
Confidence 9999999999999999999999999999754210
Q ss_pred HHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecChHH
Q 004136 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (771)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~s~~ 694 (771)
...+++++||. +.++|+..++..
T Consensus 99 -------------------------------------------------------~~~~~~~~dl~--~~~i~~~~g~~~ 121 (225)
T PF00497_consen 99 -------------------------------------------------------IKTIKSLDDLK--GKRIGVVRGSSY 121 (225)
T ss_dssp -------------------------------------------------------TSSHSSGGGGT--TSEEEEETTSHH
T ss_pred -------------------------------------------------------cccccchhhhc--CcccccccchhH
Confidence 11267788996 889999999998
Q ss_pred HHHHHHhcCCC-CCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEe-e-eeeeceEEEEEecCCCC
Q 004136 695 KKYLEEVLGFR-SGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAI-N-TYRFGGLGFVSNIIYSH 770 (771)
Q Consensus 695 ~~~l~~~~~~~-~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~-~-~~~~~~~g~~~~k~s~~ 770 (771)
..++++. .+ ..+++.+.+ .++++++|.+|++|+++.+...+.+++++........ . .....+++++++++.+.
T Consensus 122 ~~~l~~~--~~~~~~~~~~~~-~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (225)
T PF00497_consen 122 ADYLKQQ--YPSNINIVEVDS-PEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPE 197 (225)
T ss_dssp HHHHHHH--THHTSEEEEESS-HHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHH
T ss_pred HHHhhhh--ccchhhhccccc-HHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccH
Confidence 8888774 22 556677888 9999999999999999999999999998875423333 5 77788888888887653
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.74 E-value=3.4e-17 Score=165.80 Aligned_cols=191 Identities=20% Similarity=0.328 Sum_probs=153.9
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
.+++|+|++. +.++||.+.+.++ .+.|+++|+++.+++++|++++|. .. .|..++..+.+|++|
T Consensus 19 ~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~--~~--~~~~~~~~l~~g~~D 82 (243)
T PRK15007 19 AAETIRFATE--ASYPPFESIDANN----------QIVGFDVDLAQALCKEIDATCTFS--NQ--AFDSLIPSLKFRRVE 82 (243)
T ss_pred cCCcEEEEeC--CCCCCceeeCCCC----------CEEeeeHHHHHHHHHHhCCcEEEE--eC--CHHHHhHHHhCCCcC
Confidence 4568999985 3456778765444 799999999999999999996665 32 599999999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
++++++..+++|.+.++||.||+..+..++.++..
T Consensus 83 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~--------------------------------------------- 117 (243)
T PRK15007 83 AVMAGMDITPEREKQVLFTTPYYDNSALFVGQQGK--------------------------------------------- 117 (243)
T ss_pred EEEEcCccCHHHhcccceecCccccceEEEEeCCC---------------------------------------------
Confidence 99888899999999999999999988777765443
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
+++++||. +.++|+..
T Consensus 118 --------------------------------------------------------------~~~~~dL~--g~~Igv~~ 133 (243)
T PRK15007 118 --------------------------------------------------------------YTSVDQLK--GKKVGVQN 133 (243)
T ss_pred --------------------------------------------------------------CCCHHHhC--CCeEEEec
Confidence 67899997 89999999
Q ss_pred ChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-eee-----eceEEEEE
Q 004136 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYR-----FGGLGFVS 764 (771)
Q Consensus 691 ~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~~-----~~~~g~~~ 764 (771)
++....++++. .+..++..+.+ .++++++|.+|++|+++.+...+.++.++..+ +..++ .+. ...+++++
T Consensus 134 g~~~~~~l~~~--~~~~~~~~~~~-~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 209 (243)
T PRK15007 134 GTTHQKFIMDK--HPEITTVPYDS-YQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPK-LAAVGDKVTDKDYFGTGLGIAV 209 (243)
T ss_pred CcHHHHHHHHh--CCCCeEEEcCC-HHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCC-ceeecCcccccccCCcceEEEE
Confidence 99888888764 44456667777 99999999999999999999988887776655 44444 222 23578999
Q ss_pred ecCCCC
Q 004136 765 NIIYSH 770 (771)
Q Consensus 765 ~k~s~~ 770 (771)
+++++.
T Consensus 210 ~~~~~~ 215 (243)
T PRK15007 210 RQGNTE 215 (243)
T ss_pred eCCCHH
Confidence 988754
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.74 E-value=4.4e-17 Score=165.80 Aligned_cols=204 Identities=18% Similarity=0.289 Sum_probs=163.0
Q ss_pred CCCccccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHH
Q 004136 442 NPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLI 521 (771)
Q Consensus 442 ~p~~~~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i 521 (771)
+|+.+.-+.. ++|+|++. +.++||.+.++++ ++.|+++||++.+++.+|.+++|+ +. +|..++
T Consensus 14 ~~~~~~~~~~-~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~--~~--~~~~~~ 76 (250)
T TIGR01096 14 SAATAAAAKE-GSVRIGTE--TGYPPFESKDANG----------KLVGFDVDLAKALCKRMKAKCKFV--EQ--NFDGLI 76 (250)
T ss_pred chhhHHHhhC-CeEEEEEC--CCCCCceEECCCC----------CEEeehHHHHHHHHHHhCCeEEEE--eC--CHHHHH
Confidence 3444544444 78999984 3566788865555 789999999999999999886554 43 599999
Q ss_pred HHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccc
Q 004136 522 NGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQ 601 (771)
Q Consensus 522 ~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~ 601 (771)
..+.+|++|++++++..+.+|.+.+.||.|++..+..+++++.+..
T Consensus 77 ~~l~~G~~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~---------------------------------- 122 (250)
T TIGR01096 77 PSLKAKKVDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSDL---------------------------------- 122 (250)
T ss_pred HHHhCCCcCEEEecCccCHHHhhccccccchhcCCeEEEEECCCCc----------------------------------
Confidence 9999999999988888999999999999999999999999877642
Q ss_pred cCccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhh
Q 004136 602 SNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKS 681 (771)
Q Consensus 602 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~ 681 (771)
+.+++||.
T Consensus 123 -----------------------------------------------------------------------~~~~~dl~- 130 (250)
T TIGR01096 123 -----------------------------------------------------------------------AKTLEDLD- 130 (250)
T ss_pred -----------------------------------------------------------------------CCChHHcC-
Confidence 56788997
Q ss_pred CCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCC--ceeEee-eeeec
Q 004136 682 GNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCK--KYTAIN-TYRFG 758 (771)
Q Consensus 682 ~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~--~l~~~~-~~~~~ 758 (771)
+.++|+..++....++++..+. ..++..+.+ .++++++|.+|++|+++.+...+.+++++... ++.+++ .+...
T Consensus 131 -g~~i~~~~g~~~~~~l~~~~~~-~~~~~~~~s-~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 207 (250)
T TIGR01096 131 -GKTVGVQSGTTHEQYLKDYFKP-GVDIVEYDS-YDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDE 207 (250)
T ss_pred -CCEEEEecCchHHHHHHHhccC-CcEEEEcCC-HHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccc
Confidence 8899999999988888774221 445667777 99999999999999999999999988876542 366666 44432
Q ss_pred -----eEEEEEecCCCCC
Q 004136 759 -----GLGFVSNIIYSHL 771 (771)
Q Consensus 759 -----~~g~~~~k~s~~l 771 (771)
.++++++|+++.|
T Consensus 208 ~~~~~~~~~~~~~~~~~l 225 (250)
T TIGR01096 208 KYFGDGYGIGLRKGDTEL 225 (250)
T ss_pred cccCCceEEEEeCCCHHH
Confidence 4899999987643
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.72 E-value=1.3e-16 Score=162.94 Aligned_cols=196 Identities=20% Similarity=0.264 Sum_probs=151.5
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
..+.|+|++. +.++||.+.++++ ++.|+++|+++++++++|.+++++.. .|+.++..+.+|++|
T Consensus 24 ~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~vdi~~~ia~~lg~~i~~~~~----pw~~~~~~l~~g~~D 87 (259)
T PRK15437 24 IPQNIRIGTD--PTYAPFESKNSQG----------ELVGFDIDLAKELCKRINTQCTFVEN----PLDALIPSLKAKKID 87 (259)
T ss_pred cCCeEEEEeC--CCCCCcceeCCCC----------CEEeeeHHHHHHHHHHcCCceEEEeC----CHHHHHHHHHCCCCC
Confidence 4577889874 3456787765555 78999999999999999998666532 499999999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
+++++++.|++|++.++||.|++..+..+++++..+.
T Consensus 88 ~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------- 124 (259)
T PRK15437 88 AIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI------------------------------------------- 124 (259)
T ss_pred EEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC-------------------------------------------
Confidence 9999999999999999999999999999999887642
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
..+++||. +.+||+.+
T Consensus 125 --------------------------------------------------------------~~~~~dl~--g~~Igv~~ 140 (259)
T PRK15437 125 --------------------------------------------------------------QPTVESLK--GKRVGVLQ 140 (259)
T ss_pred --------------------------------------------------------------CCChHHhC--CCEEEEec
Confidence 34788997 89999999
Q ss_pred ChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHH-HHHhc-CCceeEee-ee-----eeceEEE
Q 004136 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKY-CKKYTAIN-TY-----RFGGLGF 762 (771)
Q Consensus 691 ~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~-~~~~~-c~~l~~~~-~~-----~~~~~g~ 762 (771)
++..+.++++.......++..+.+ .++++++|.+|++|+++.+...+.+ +.++. -..+...+ .+ ....+++
T Consensus 141 g~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i 219 (259)
T PRK15437 141 GTTQETFGNEHWAPKGIEIVSYQG-QDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGM 219 (259)
T ss_pred CcHHHHHHHhhccccCceEEecCC-HHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEE
Confidence 999888877632222345667777 8899999999999999999987754 33322 22243333 22 2234789
Q ss_pred EEecCCCC
Q 004136 763 VSNIIYSH 770 (771)
Q Consensus 763 ~~~k~s~~ 770 (771)
+++++.+.
T Consensus 220 a~~~~~~~ 227 (259)
T PRK15437 220 GLRKEDNE 227 (259)
T ss_pred EEeCCCHH
Confidence 99887654
No 94
>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=99.72 E-value=1.1e-16 Score=164.64 Aligned_cols=201 Identities=16% Similarity=0.179 Sum_probs=158.3
Q ss_pred ccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCc-ccEEEecCCCChHHHHHHHh
Q 004136 447 AMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYD-LPYEFVPHDGVYDDLINGVY 525 (771)
Q Consensus 447 ~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~-~~~~~~~~~~~~~~~i~~l~ 525 (771)
.-+...++|+|++.. ++||.+.+.++ ++.|+++||++++++++|.+ +++... .|+.++..+.
T Consensus 27 ~~i~~~~~l~v~~~~---~pP~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~~~~----~w~~~~~~l~ 89 (275)
T TIGR02995 27 EELKEQGFARIAIAN---EPPFTYVGADG----------KVSGAAPDVARAIFKRLGIADVNASIT----EYGALIPGLQ 89 (275)
T ss_pred HHHHhCCcEEEEccC---CCCceeECCCC----------ceecchHHHHHHHHHHhCCCceeeccC----CHHHHHHHHH
Confidence 334567889999864 45677765555 78999999999999999986 334332 5999999999
Q ss_pred cccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCcc
Q 004136 526 DKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPE 605 (771)
Q Consensus 526 ~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~ 605 (771)
+|++|+++.++++|++|.+.++||.||+.+...+++++.+...
T Consensus 90 ~G~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~------------------------------------- 132 (275)
T TIGR02995 90 AGRFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKG------------------------------------- 132 (275)
T ss_pred CCCcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCC-------------------------------------
Confidence 9999999888999999999999999999999999998876321
Q ss_pred CcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhh-CCc
Q 004136 606 FRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKS-GNL 684 (771)
Q Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~-~~~ 684 (771)
+++++||.+ .+.
T Consensus 133 -------------------------------------------------------------------i~~~~dl~~~~g~ 145 (275)
T TIGR02995 133 -------------------------------------------------------------------LKSYKDIAKNPDA 145 (275)
T ss_pred -------------------------------------------------------------------CCCHHHhccCCCc
Confidence 788999964 479
Q ss_pred eEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcC-CceeEeeeeee----ce
Q 004136 685 KVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC-KKYTAINTYRF----GG 759 (771)
Q Consensus 685 ~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c-~~l~~~~~~~~----~~ 759 (771)
+||+..++....++++ .+.+..++..+.+ .++++++|.+|++|+++.+...+.+.+++.- ..+..+..+.. ..
T Consensus 146 ~Igv~~g~~~~~~l~~-~~~~~~~i~~~~~-~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (275)
T TIGR02995 146 KIAAPGGGTEEKLARE-AGVKREQIIVVPD-GQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYY 223 (275)
T ss_pred eEEEeCCcHHHHHHHH-cCCChhhEEEeCC-HHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccc
Confidence 9999999999888877 3344456777888 9999999999999999999999998877542 12444332211 23
Q ss_pred EEEEEecCCCC
Q 004136 760 LGFVSNIIYSH 770 (771)
Q Consensus 760 ~g~~~~k~s~~ 770 (771)
++++++++++.
T Consensus 224 ~~~~~~~~~~~ 234 (275)
T TIGR02995 224 GGAAFRPEDKE 234 (275)
T ss_pred eeEEECCCCHH
Confidence 48889887654
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.69 E-value=3.2e-16 Score=173.15 Aligned_cols=201 Identities=13% Similarity=0.089 Sum_probs=157.2
Q ss_pred CccccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHH
Q 004136 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLING 523 (771)
Q Consensus 444 ~~~~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~ 523 (771)
..+....+.++|+|++... | +.+...++ ...||++||++++++++|.+++++... +|+.++..
T Consensus 34 ~~l~~I~~~g~LrVg~~~~-P---~~~~~~~~----------~~~G~~~DLl~~ia~~LGv~~e~v~~~---~~~~ll~a 96 (482)
T PRK10859 34 NQLEQIQERGELRVGTINS-P---LTYYIGND----------GPTGFEYELAKRFADYLGVKLEIKVRD---NISQLFDA 96 (482)
T ss_pred ccHHHHHhCCEEEEEEecC-C---CeeEecCC----------CcccHHHHHHHHHHHHhCCcEEEEecC---CHHHHHHH
Confidence 4455556788999999753 3 23332333 348999999999999999996665333 69999999
Q ss_pred HhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccC
Q 004136 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (771)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (771)
|.+|++|++++++++|++|.+.++||.||+.....+++++.+..
T Consensus 97 L~~G~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~~------------------------------------ 140 (482)
T PRK10859 97 LDKGKADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQPR------------------------------------ 140 (482)
T ss_pred HhCCCCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCCC------------------------------------
Confidence 99999999988999999999999999999999999999876632
Q ss_pred ccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCC
Q 004136 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (771)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~ 683 (771)
+++++||. |
T Consensus 141 ---------------------------------------------------------------------i~~l~dL~--G 149 (482)
T PRK10859 141 ---------------------------------------------------------------------PRSLGDLK--G 149 (482)
T ss_pred ---------------------------------------------------------------------CCCHHHhC--C
Confidence 78999998 9
Q ss_pred ceEEEecChHHHHHHHHhc-CCCCCCc--ccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-eeeece
Q 004136 684 LKVGCVDDSFVKKYLEEVL-GFRSGNI--VPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGG 759 (771)
Q Consensus 684 ~~~g~~~~s~~~~~l~~~~-~~~~~~~--~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~~~~~ 759 (771)
.+||+..++.....+++.. ..+..++ ..+.+ .++++++|.+|++|+++.|...+.+....+.+ +.+.. .....+
T Consensus 150 k~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s-~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~-l~v~~~l~~~~~ 227 (482)
T PRK10859 150 GTLTVAAGSSHVETLQELKKKYPELSWEESDDKD-SEELLEQVAEGKIDYTIADSVEISLNQRYHPE-LAVAFDLTDEQP 227 (482)
T ss_pred CeEEEECCCcHHHHHHHHHHhCCCceEEecCCCC-HHHHHHHHHCCCCCEEEECcHHHHHHHHhCCC-ceeeeecCCCce
Confidence 9999999999888776521 1233332 23456 99999999999999999999887766555555 66655 545678
Q ss_pred EEEEEecC-CCC
Q 004136 760 LGFVSNII-YSH 770 (771)
Q Consensus 760 ~g~~~~k~-s~~ 770 (771)
++++++|+ ++.
T Consensus 228 ~~~av~k~~~~~ 239 (482)
T PRK10859 228 VAWALPPSGDDS 239 (482)
T ss_pred eEEEEeCCCCHH
Confidence 99999994 443
No 96
>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=99.64 E-value=3.8e-15 Score=150.43 Aligned_cols=188 Identities=14% Similarity=0.189 Sum_probs=136.2
Q ss_pred ceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHH---HHHhccccc
Q 004136 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLI---NGVYDKTYD 530 (771)
Q Consensus 454 ~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i---~~l~~~~~D 530 (771)
+|+||+ .+.|+||.+. ++ .||++||+++|++++|+++++... .|++++ ..|.+|++|
T Consensus 1 ~l~vg~--~~~~pPf~~~--~~------------~Gfdvdl~~~ia~~lg~~~~~~~~----~~~~~~~~~~~L~~g~~D 60 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTK--DG------------SGFENKIAAALAAAMGRKVVFVWL----AKPAIYLVRDGLDKKLCD 60 (246)
T ss_pred CeEEEe--CCCCCCCccC--CC------------CcchHHHHHHHHHHhCCCeEEEEe----ccchhhHHHHHHhcCCcc
Confidence 367887 5578888884 22 599999999999999999665533 466665 699999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
+++ ++++|++| +.||.||+.++.++++++.+...
T Consensus 61 ii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~------------------------------------------ 94 (246)
T TIGR03870 61 VVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRNLD------------------------------------------ 94 (246)
T ss_pred EEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCCCC------------------------------------------
Confidence 998 58888877 67999999999999999876421
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhH--hhhCCc-eEE
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQS--LKSGNL-KVG 687 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~d--L~~~~~-~~g 687 (771)
+++++| |. |. ++|
T Consensus 95 --------------------------------------------------------------~~~~~d~~L~--g~~~vg 110 (246)
T TIGR03870 95 --------------------------------------------------------------IKSWNDPRLK--KVSKIG 110 (246)
T ss_pred --------------------------------------------------------------CCCccchhhc--cCceEE
Confidence 677765 55 87 999
Q ss_pred EecChHHHHHHHHhcCCC-----CCCcccCC-------C-CHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeE--e
Q 004136 688 CVDDSFVKKYLEEVLGFR-----SGNIVPFG-------N-TEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTA--I 752 (771)
Q Consensus 688 ~~~~s~~~~~l~~~~~~~-----~~~~~~~~-------~-~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~--~ 752 (771)
+..++..+.++++..... ...+..+. . +..+++++|.+|++||++.+...+.+++.+....+.+ +
T Consensus 111 v~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~ 190 (246)
T TIGR03870 111 VIFGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVI 190 (246)
T ss_pred EecCChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEec
Confidence 999999999988631110 01112221 1 2678999999999999999988877776653322332 2
Q ss_pred e-eee---------eceEEEEEecCCCCC
Q 004136 753 N-TYR---------FGGLGFVSNIIYSHL 771 (771)
Q Consensus 753 ~-~~~---------~~~~g~~~~k~s~~l 771 (771)
+ ... ...+||+++|+++.|
T Consensus 191 ~~~~~~~~~~~~~~~~~~~iav~k~~~~L 219 (246)
T TIGR03870 191 PDDATRSDGAKIPMQYDQSMGVRKDDTAL 219 (246)
T ss_pred cccccccCCCCcceeeEEEEEEccCCHHH
Confidence 2 210 114699999998754
No 97
>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=99.63 E-value=5.2e-14 Score=144.26 Aligned_cols=217 Identities=22% Similarity=0.375 Sum_probs=177.2
Q ss_pred EEEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
+||+++|.+ ...+.....|++.+++++ |+.+++.+.|+++++....+.+.+++ .+++.++||+.++.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~ 74 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-----GRGLEVILADSQSDPERALEALRDLI-QQGVDGIIGPPSSSSALAV 74 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-----CCceEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEecCCCHHHHHH
Confidence 589999988 566778888999888887 56789999999999988999999998 6789999999888777667
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC-CCCCCcchHHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGKLALLAEA 192 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~-~~g~~~~~~~~l~~~ 192 (771)
...+...++|+|..... .+... .+++++++.+++...++.+++++.+.+|+++++++.+. ..+ ....+.+++.
T Consensus 75 ~~~~~~~~ip~v~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~--~~~~~~~~~~ 148 (269)
T cd01391 75 VELAAAAGIPVVSLDAT--APDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYG--RERLEGFKAA 148 (269)
T ss_pred HHHHHHcCCcEEEecCC--CCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchh--hHHHHHHHHH
Confidence 88889999999999877 44443 56899999999999999999999999999999999887 566 7778999999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC-CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
+++.| .++......+... + .++....+.+++. ++++|++ .++ ..+..+++++++.|+.++++.|++.+.+.
T Consensus 149 ~~~~~-~~~~~~~~~~~~~---~--~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 149 LKKAG-IEVVAIEYGDLDT---E--KGFQALLQLLKAAPKPDAIFA-CND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred HHhcC-cEEEeccccCCCc---c--ccHHHHHHHHhcCCCCCEEEE-cCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 99998 7776544433222 1 3466666777766 6898888 666 88999999999999985567788777654
Q ss_pred c
Q 004136 272 N 272 (771)
Q Consensus 272 ~ 272 (771)
.
T Consensus 221 ~ 221 (269)
T cd01391 221 A 221 (269)
T ss_pred c
Confidence 3
No 98
>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=3.4e-16 Score=145.04 Aligned_cols=107 Identities=29% Similarity=0.644 Sum_probs=82.8
Q ss_pred CHHHHHHHHHHHHHHHHhhhhhccccCccCcC-------cccchHHHHHHHHHHHhhccC-cccccchhhHHHHHHHHHH
Q 004136 577 TWEMWMVTAASFIYTMFIVWLLEHQSNPEFRG-------TLKDQISNILWFAFSTIFFSH-RANIQSNLTRVVVVLWLFV 648 (771)
Q Consensus 577 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~s~Rl~~~~~~~~ 648 (771)
+++||++++++++++++++|+++|..+..++. +...++.+++|++++++++|+ ...|++.++|++.++||+|
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 58999999999999999999999977655543 233468899999999999877 6678999999999999999
Q ss_pred HHHHHHHhhcccccceeecccCCCCCChhHhhhCC
Q 004136 649 VFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (771)
Q Consensus 649 ~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~ 683 (771)
+++++++|||+|+|+||.++...+|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999766
No 99
>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=99.59 E-value=3.8e-14 Score=142.33 Aligned_cols=187 Identities=16% Similarity=0.202 Sum_probs=138.8
Q ss_pred eEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEe
Q 004136 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (771)
Q Consensus 455 ~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~ 534 (771)
|+|++ ++.|+||.+. +..||++||++++++++|.+++++..+. .+..++..+.+|++|++++
T Consensus 2 l~v~~--~~~~~P~~~~--------------~~~G~~~el~~~i~~~~g~~i~~~~~~~--~~~~~~~~l~~g~~Di~~~ 63 (232)
T TIGR03871 2 LRVCA--DPNNLPFSNE--------------KGEGFENKIAQLLADDLGLPLEYTWFPQ--RRGFVRNTLNAGRCDVVIG 63 (232)
T ss_pred eEEEe--CCCCCCccCC--------------CCCchHHHHHHHHHHHcCCceEEEecCc--chhhHHHHHhcCCccEEEe
Confidence 67776 4566777651 2369999999999999999977776553 2444677899999999876
Q ss_pred eEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchH
Q 004136 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (771)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (771)
+.+|.+.++||.||+..+..+++++.+...
T Consensus 64 ----~~~r~~~~~fs~py~~~~~~lv~~~~~~~~---------------------------------------------- 93 (232)
T TIGR03871 64 ----VPAGYEMVLTTRPYYRSTYVFVTRKDSLLD---------------------------------------------- 93 (232)
T ss_pred ----ccCccccccccCCcEeeeEEEEEeCCCccc----------------------------------------------
Confidence 577889999999999999999998875321
Q ss_pred HHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecChHH
Q 004136 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (771)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~s~~ 694 (771)
+++++|+.-.+.+||+..++..
T Consensus 94 ----------------------------------------------------------~~~~~d~~l~g~~V~v~~g~~~ 115 (232)
T TIGR03871 94 ----------------------------------------------------------VKSLDDPRLKKLRIGVFAGTPP 115 (232)
T ss_pred ----------------------------------------------------------ccchhhhhhcCCeEEEEcCChH
Confidence 7888883223899999999999
Q ss_pred HHHHHHhcCCCCCCccc---------CCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-ee------eec
Q 004136 695 KKYLEEVLGFRSGNIVP---------FGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TY------RFG 758 (771)
Q Consensus 695 ~~~l~~~~~~~~~~~~~---------~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~------~~~ 758 (771)
..++.+. +. ..++.. ..+ ..+++++|.+|++|+++.+...+.+++++....+.+.. .. ...
T Consensus 116 ~~~l~~~-~~-~~~~~~~~~~~~~~~~~~-~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (232)
T TIGR03871 116 AHWLARH-GL-VENVVGYSLFGDYRPESP-PGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDY 192 (232)
T ss_pred HHHHHhc-Cc-ccccccccccccccccCC-HHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccc
Confidence 8888763 21 122221 234 78999999999999999999888888776433355544 22 233
Q ss_pred eEEEEEecCCCC
Q 004136 759 GLGFVSNIIYSH 770 (771)
Q Consensus 759 ~~g~~~~k~s~~ 770 (771)
.++++++|+++.
T Consensus 193 ~~~~~~~~~~~~ 204 (232)
T TIGR03871 193 RIAMGVRKGDKA 204 (232)
T ss_pred eEEEEEecCCHH
Confidence 578889998754
No 100
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.56 E-value=3e-14 Score=177.46 Aligned_cols=193 Identities=10% Similarity=0.167 Sum_probs=154.7
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
++++++|++ .+.|+||.+.++++ .+.||.+|+++.|++++|.++ ++++.. .|...+..|.+|++|
T Consensus 300 ~~~~l~v~~--~~~~pP~~~~d~~g----------~~~G~~~Dll~~i~~~~g~~~--~~v~~~-~~~~~~~~l~~g~~D 364 (1197)
T PRK09959 300 QHPDLKVLE--NPYSPPYSMTDENG----------SVRGVMGDILNIITLQTGLNF--SPITVS-HNIHAGTQLNPGGWD 364 (1197)
T ss_pred HCCceEEEc--CCCCCCeeEECCCC----------cEeeehHHHHHHHHHHHCCeE--EEEecC-CHHHHHHHHHCCCce
Confidence 456788887 55778999986656 899999999999999999884 444432 577888999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
++.+ ++.|++|.+.++||.||+.+...+++++....
T Consensus 365 ~i~~-~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~------------------------------------------- 400 (1197)
T PRK09959 365 IIPG-AIYSEDRENNVLFAEAFITTPYVFVMQKAPDS------------------------------------------- 400 (1197)
T ss_pred Eeec-ccCCccccccceeccccccCCEEEEEecCCCC-------------------------------------------
Confidence 8755 66899999999999999999999998765421
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
+.++ . .|.++|+..
T Consensus 401 --------------------------------------------------------------~~~~---~-~g~~vav~~ 414 (1197)
T PRK09959 401 --------------------------------------------------------------EQTL---K-KGMKVAIPY 414 (1197)
T ss_pred --------------------------------------------------------------cccc---c-cCCEEEEeC
Confidence 2222 2 489999999
Q ss_pred ChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcC-Ccee-Eee-eeeeceEEEEEecC
Q 004136 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC-KKYT-AIN-TYRFGGLGFVSNII 767 (771)
Q Consensus 691 ~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c-~~l~-~~~-~~~~~~~g~~~~k~ 767 (771)
++....++++. ++..+++.|.+ .++++++|.+|++||++.+...+.|+++++. +.+. ... .+....++|+++|+
T Consensus 415 g~~~~~~~~~~--~p~~~~~~~~~-~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~ 491 (1197)
T PRK09959 415 YYELHSQLKEM--YPEVEWIKVDN-ASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRG 491 (1197)
T ss_pred CcchHHHHHHH--CCCcEEEEcCC-HHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCC
Confidence 99888888765 56678888998 9999999999999999999999999988753 2233 333 45567899999999
Q ss_pred CCCC
Q 004136 768 YSHL 771 (771)
Q Consensus 768 s~~l 771 (771)
.|.|
T Consensus 492 ~~~L 495 (1197)
T PRK09959 492 EPEL 495 (1197)
T ss_pred CHHH
Confidence 8754
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.55 E-value=3.6e-14 Score=176.74 Aligned_cols=198 Identities=12% Similarity=0.129 Sum_probs=161.1
Q ss_pred cCCCCCceEEEeccCCCccc-eEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhc
Q 004136 448 MPSNQEPMRIGVPTRTFFEK-FVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYD 526 (771)
Q Consensus 448 ~~~~~~~~~v~~~~~~~~~p-~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~ 526 (771)
+..++++|+||+.. ++.| +.+.++++ ++.||.+|+++.|++++|.+++|+... +|++++.+|.+
T Consensus 51 ~l~~~~~l~vgv~~--~~~p~~~~~~~~g----------~~~G~~~D~l~~ia~~lG~~~e~v~~~---~~~~~l~~l~~ 115 (1197)
T PRK09959 51 WLASKKNLVIAVHK--SQTATLLHTDSQQ----------RVRGINADYLNLLKRALNIKLTLREYA---DHQKAMDALEE 115 (1197)
T ss_pred HHhhCCeEEEEecC--CCCCCceeecCCC----------ccceecHHHHHHHHHhcCCceEEEeCC---CHHHHHHHHHc
Confidence 34577889999853 3333 44433444 899999999999999999885554322 69999999999
Q ss_pred ccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccC
Q 004136 527 KTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEF 606 (771)
Q Consensus 527 ~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 606 (771)
|++|++++.++.+.+|.+.++||.||+.+...+++++...
T Consensus 116 g~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~---------------------------------------- 155 (1197)
T PRK09959 116 GEVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDS---------------------------------------- 155 (1197)
T ss_pred CCCcEecCccccccccccchhcCCCccCCCceEEEeCCCC----------------------------------------
Confidence 9999999889999999999999999999999999988653
Q ss_pred cCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceE
Q 004136 607 RGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKV 686 (771)
Q Consensus 607 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~ 686 (771)
+++++||. ++++
T Consensus 156 ------------------------------------------------------------------~~~~~~l~--~~~i 167 (1197)
T PRK09959 156 ------------------------------------------------------------------MRPLTSSK--PVNI 167 (1197)
T ss_pred ------------------------------------------------------------------CCCccccc--CeEE
Confidence 66778886 8899
Q ss_pred EEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcC-CceeEee-e-eeeceEEEE
Q 004136 687 GCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC-KKYTAIN-T-YRFGGLGFV 763 (771)
Q Consensus 687 g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c-~~l~~~~-~-~~~~~~g~~ 763 (771)
++.+|+....++++. ++..+++.|++ ..+++++|.+|++||++.+...+.|+++++- .++.+++ . .....++++
T Consensus 168 ~~~~g~~~~~~~~~~--~p~~~i~~~~s-~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~ 244 (1197)
T PRK09959 168 ARVANYPPDEVIHQS--FPKATIISFTN-LYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFL 244 (1197)
T ss_pred EEeCCCCCHHHHHHh--CCCCEEEeCCC-HHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEE
Confidence 999999988888875 66778889998 9999999999999999999999999988753 2466665 2 233456788
Q ss_pred EecCCCCC
Q 004136 764 SNIIYSHL 771 (771)
Q Consensus 764 ~~k~s~~l 771 (771)
++|+++.|
T Consensus 245 ~~~~~~~L 252 (1197)
T PRK09959 245 TRKESVIL 252 (1197)
T ss_pred EcCCcHHH
Confidence 89988743
No 102
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.53 E-value=2e-13 Score=141.11 Aligned_cols=196 Identities=21% Similarity=0.318 Sum_probs=153.4
Q ss_pred CCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccccc
Q 004136 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 451 ~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
..+.++|++... ..+||.+.+... | .+.||++|+++.+++.++......++.. .|++++..+..|++|
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~-----~----~~~G~dvdl~~~ia~~l~~~~~~~~~~~--~~~~~~~~l~~g~~D 99 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKG-----G----KLVGFDVDLAKAIAKRLGGDKKVEFVPV--AWDGLIPALKAGKVD 99 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCC-----C----eEEeeeHHHHHHHHHHhCCcceeEEecc--chhhhhHHHhcCCcC
Confidence 456778888643 234787764441 2 7999999999999999987632333332 699999999999999
Q ss_pred EEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (771)
++++.+++|.+|.+.++||.||+..+..+++++.+...
T Consensus 100 ~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~------------------------------------------ 137 (275)
T COG0834 100 IIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG------------------------------------------ 137 (275)
T ss_pred EEEeccccCHHHhccccccccccccCeEEEEECCCCcC------------------------------------------
Confidence 99999999999999999999999999999999887531
Q ss_pred cchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec
Q 004136 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~ 690 (771)
+.+.+||. +.++|+..
T Consensus 138 --------------------------------------------------------------~~~~~DL~--gk~v~v~~ 153 (275)
T COG0834 138 --------------------------------------------------------------IKSLEDLK--GKKVGVQL 153 (275)
T ss_pred --------------------------------------------------------------cCCHHHhC--CCEEEEEc
Confidence 67999999 89999999
Q ss_pred ChH--HHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHH--HHhcCCceeEee-eeee-ceEEEEE
Q 004136 691 DSF--VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF--LDKYCKKYTAIN-TYRF-GGLGFVS 764 (771)
Q Consensus 691 ~s~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~--~~~~c~~l~~~~-~~~~-~~~g~~~ 764 (771)
++. ........ .....+..|.+ ..+.+++|++|++|+++.|...+.++ ..+..+...... .... .+||+++
T Consensus 154 gt~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (275)
T COG0834 154 GTTDEAEEKAKKP--GPNAKIVAYDS-NAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIAL 230 (275)
T ss_pred CcchhHHHHHhhc--cCCceEEeeCC-HHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEe
Confidence 988 44444331 33456778888 89999999999999999999999984 334443233333 4444 7999999
Q ss_pred ecC
Q 004136 765 NII 767 (771)
Q Consensus 765 ~k~ 767 (771)
+|+
T Consensus 231 ~~~ 233 (275)
T COG0834 231 RKG 233 (275)
T ss_pred ccC
Confidence 998
No 103
>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=99.49 E-value=5.3e-13 Score=136.93 Aligned_cols=199 Identities=12% Similarity=0.186 Sum_probs=136.4
Q ss_pred CCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhccccc
Q 004136 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (771)
Q Consensus 452 ~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D 530 (771)
.++|++++.. |+||.+.+.++ ...|+..++++++++++ ++++++... .|.+++..+ .++.|
T Consensus 17 ~~~l~~~~~~---~pPf~~~~~~~----------~~~G~~~~i~~~i~~~~~~~~~~~~~~----pw~r~l~~l-~~~~d 78 (268)
T TIGR02285 17 KEAITWIVND---FPPFFIFSGPS----------KGRGVFDVILQEIRRALPQYEHRFVRV----SFARSLKEL-QGKGG 78 (268)
T ss_pred cceeEEEecc---cCCeeEeCCCC----------CCCChHHHHHHHHHHHcCCCceeEEEC----CHHHHHHHH-hcCCC
Confidence 4678888754 55677754333 67899999999999998 877655543 499999999 78888
Q ss_pred EEEeeEeeeccceeeeecccceee-ccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCc
Q 004136 531 AAVGDLTILGNRTEYVEFTQPYAE-SGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT 609 (771)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~-~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 609 (771)
+++.++++|++|++.++||.||+. ....+++++.+...+
T Consensus 79 ~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~---------------------------------------- 118 (268)
T TIGR02285 79 VCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGV---------------------------------------- 118 (268)
T ss_pred eEEeeccCCcchhhceeecCCccccCCceEEEccchhhhc----------------------------------------
Confidence 888789999999999999999985 578888887653210
Q ss_pred ccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCC-CCCChhHhh-hCCceEE
Q 004136 610 LKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEP-NVTDIQSLK-SGNLKVG 687 (771)
Q Consensus 610 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~-~i~~~~dL~-~~~~~~g 687 (771)
..... ++ ++.+|. ..++++|
T Consensus 119 ---------------------------------------------------------~~~~d~~~-~~~~l~~l~g~~vg 140 (268)
T TIGR02285 119 ---------------------------------------------------------RDEQDGDV-DLKKLLASKKKRLG 140 (268)
T ss_pred ---------------------------------------------------------cccCCCCc-cHHHHhcCCCeEEE
Confidence 00000 01 133332 2378999
Q ss_pred EecChHH----HHHHHHhcCCCC-CCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhc---CCceeEee-ee--e
Q 004136 688 CVDDSFV----KKYLEEVLGFRS-GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY---CKKYTAIN-TY--R 756 (771)
Q Consensus 688 ~~~~s~~----~~~l~~~~~~~~-~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~---c~~l~~~~-~~--~ 756 (771)
+..++.. +.++++ ..... .++..+.+ .++++++|..|++|+++.+...+.+++++. ...+..+. .. .
T Consensus 141 v~~g~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (268)
T TIGR02285 141 VIASRSYGQQIDDILSD-SGYQHNTRIIGNAA-MGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPA 218 (268)
T ss_pred EecceeccHHHHHHHHh-CCcccceeeeccch-HHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCcc
Confidence 9887654 334433 11111 23445566 788999999999999999999999887642 22354444 22 2
Q ss_pred eceEEEEEecCC
Q 004136 757 FGGLGFVSNIIY 768 (771)
Q Consensus 757 ~~~~g~~~~k~s 768 (771)
...++|+++|++
T Consensus 219 ~~~~~i~~~k~~ 230 (268)
T TIGR02285 219 HISVWVACPKTE 230 (268)
T ss_pred ceEEEEEeCCCH
Confidence 236899999864
No 104
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.46 E-value=2e-12 Score=127.83 Aligned_cols=188 Identities=18% Similarity=0.374 Sum_probs=153.4
Q ss_pred ceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEE
Q 004136 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAV 533 (771)
Q Consensus 454 ~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~ 533 (771)
+|+|++. +.++||.+.+.++ .+.|+..|+++.+.+++|+++++. .. .|..++..+.+|++|+++
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~~~~~--~~--~~~~~~~~l~~g~~D~~~ 64 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADEDG----------ELTGFDVDLAKAIAKELGLKVEFV--EV--SFDNLLTALKSGKIDVVA 64 (219)
T ss_pred CEEEEec--CCCCCcEEECCCC----------CcccchHHHHHHHHHHhCCeEEEE--ec--cHHHHHHHHHCCcccEEe
Confidence 4788884 4667888765554 789999999999999999885554 43 589999999999999999
Q ss_pred eeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccch
Q 004136 534 GDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQ 613 (771)
Q Consensus 534 ~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 613 (771)
+....+.+|.+.+.|+.|+...+..+++++.++
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------- 97 (219)
T smart00062 65 AGMTITPERAKQVDFSDPYYKSGQVILVRKDSP----------------------------------------------- 97 (219)
T ss_pred ccccCCHHHHhheeeccceeeceeEEEEecCCC-----------------------------------------------
Confidence 877778888888999999999999999887663
Q ss_pred HHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecChH
Q 004136 614 ISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSF 693 (771)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~s~ 693 (771)
+++++||. |.++++..++.
T Consensus 98 -----------------------------------------------------------~~~~~dL~--g~~i~~~~g~~ 116 (219)
T smart00062 98 -----------------------------------------------------------IKSLEDLK--GKKVAVVAGTT 116 (219)
T ss_pred -----------------------------------------------------------CCChHHhC--CCEEEEecCcc
Confidence 78999997 89999988888
Q ss_pred HHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhc--CCceeEee-eeee-ceEEEEEecCCC
Q 004136 694 VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY--CKKYTAIN-TYRF-GGLGFVSNIIYS 769 (771)
Q Consensus 694 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~--c~~l~~~~-~~~~-~~~g~~~~k~s~ 769 (771)
...++... ....++..+.+ ..+.+++|.+|++|+++.+.+.+.+...+. ++ +.++. .... ..++++++|+++
T Consensus 117 ~~~~~~~~--~~~~~~~~~~~-~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 192 (219)
T smart00062 117 GEELLKKL--YPEAKIVSYDS-QAEALAALKAGRADAAVADAPALAALVKQHGLPE-LKIVGDPLDTPEGYAFAVRKGDP 192 (219)
T ss_pred HHHHHHHh--CCCceEEEcCC-HHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCc-eeeccCCCCCCcceEEEEECCCH
Confidence 88887763 23445666777 889999999999999999999888877665 44 66666 4444 789999999875
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=99.45 E-value=3.2e-12 Score=126.41 Aligned_cols=187 Identities=20% Similarity=0.368 Sum_probs=148.4
Q ss_pred eEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEe
Q 004136 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (771)
Q Consensus 455 ~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~ 534 (771)
|+|++.. .++||.+.+.++ .+.|+..++++.+++++|.++++. .. .|..++..|.+|++|+++.
T Consensus 1 l~i~~~~--~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~~~~~--~~--~~~~~~~~l~~g~~D~~~~ 64 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDANG----------ELTGFDVDLAKAIAKELGVKVKFV--EV--DWDGLITALKSGKVDLIAA 64 (218)
T ss_pred CEEecCC--CCCCeeEECCCC----------CEEeeeHHHHHHHHHHhCCeEEEE--eC--CHHHHHHHHhcCCcCEEee
Confidence 4566644 557888865444 899999999999999999774444 43 2899999999999999998
Q ss_pred eEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchH
Q 004136 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (771)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (771)
....+.+|.+.+.|+.|+......+++++.+.
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------------ 96 (218)
T cd00134 65 GMTITPERAKQVDFSDPYYKSGQVILVKKGSP------------------------------------------------ 96 (218)
T ss_pred cCcCCHHHHhhccCcccceeccEEEEEECCCC------------------------------------------------
Confidence 77788899999999999999999999998774
Q ss_pred HHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecChHH
Q 004136 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (771)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~s~~ 694 (771)
+.+++||. |.++++..++..
T Consensus 97 ----------------------------------------------------------~~~~~dl~--g~~i~~~~~~~~ 116 (218)
T cd00134 97 ----------------------------------------------------------IKSVKDLK--GKKVAVQKGSTA 116 (218)
T ss_pred ----------------------------------------------------------CCChHHhC--CCEEEEEcCchH
Confidence 56899997 889999888888
Q ss_pred HHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhc-CCceeEee-e--eeeceEEEEEecCCC
Q 004136 695 KKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY-CKKYTAIN-T--YRFGGLGFVSNIIYS 769 (771)
Q Consensus 695 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~-c~~l~~~~-~--~~~~~~g~~~~k~s~ 769 (771)
..++.+. .....+..+.+ .++.+++|.+|++|+++.+...+.+..++. ++ ++++. . .....++++.+++++
T Consensus 117 ~~~~~~~--~~~~~~~~~~~-~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~ 191 (218)
T cd00134 117 EKYLKKA--LPEAKVVSYDD-NAEALAALENGRADAVIVDEIALAALLKKHPPE-LKIVGPSIDLEPLGFGVAVGKDNK 191 (218)
T ss_pred HHHHHHh--CCcccEEEeCC-HHHHHHHHHcCCccEEEeccHHHHHHHHhcCCC-cEEeccccCCCccceEEEEcCCCH
Confidence 8887764 22345667777 999999999999999999999998877765 55 77666 4 233445666555543
No 106
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.42 E-value=8.6e-12 Score=137.93 Aligned_cols=311 Identities=13% Similarity=0.175 Sum_probs=170.4
Q ss_pred CcEEEEEEEeCCCc---CchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 33 EVTKIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 33 ~~I~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
.+-+|++++|+|+. .|..+..||..|. +.. .+...++.++|+..++. .....+.+ .+|+.+||||..-+.
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~-~~~~~~l~~~Dt~~~~~--~~~~~~a~-~~ga~~ViGPL~k~~ 290 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD-ADSRPELRFYDTNADSA--DALYQQAV-ADGADFVIGPLLKSN 290 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH-------TT--S-EEEEETTTS-H--HHHHHHHH-HTT--EEE---SHHH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc-ccCCCceEEecCCCCCH--HHHHHHHH-HcCCCEEEcCCCHHH
Confidence 45689999999964 4566777777776 111 23466888889877633 34456666 789999999999888
Q ss_pred HHHHHHhhcc--CCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHH
Q 004136 110 TAVVAEIASR--VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 110 ~~~v~~~~~~--~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (771)
...++..-.. ..||++..... +.. . ..+.+|...-+....++.+++.+..-|.++..||+.++++| ..+.+
T Consensus 291 V~~l~~~~~~~~~~vp~LaLN~~--~~~-~--~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g--~R~~~ 363 (536)
T PF04348_consen 291 VEALAQLPQLQAQPVPVLALNQP--DNS-Q--APPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWG--QRMAE 363 (536)
T ss_dssp HHHHHH-GG-GGTT-EEEES-----TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHH--HHHHH
T ss_pred HHHHHhcCcccccCCceeeccCC--Ccc-c--CccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHH--HHHHH
Confidence 8888766442 58999988766 332 1 12445555556678999999999999999999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.|.+.+.+.| +.+.....+.. . .++...++.-...+.|.||+ .+.+.+++.+--...-. ..+.--+|-.+
T Consensus 364 aF~~~W~~~g-g~~~~~~~~~~-~------~~~~~~i~~r~r~d~D~ifl-~a~~~~ar~ikP~l~~~-~a~~lPvyatS 433 (536)
T PF04348_consen 364 AFNQQWQALG-GQVAEVSYYGS-P------ADLQAAIQPRRRQDIDAIFL-VANPEQARLIKPQLDFH-FAGDLPVYATS 433 (536)
T ss_dssp HHHHHHHHHH-SS--EEEEESS-T------THHHHHHHHS--TT--EEEE----HHHHHHHHHHHTT--T-TT-EEEE-G
T ss_pred HHHHHHHHcC-CCceeeEecCC-H------HHHHHHHhhcCCCCCCEEEE-eCCHHHHHHHhhhcccc-cCCCCCEEEec
Confidence 9999999998 87766666653 2 46888888666678999999 99999998887776543 11111133333
Q ss_pred CcccccccccChhhhhccccEEEEEeeccCC--ChhHHHHHHHHHHhcccCCCCCCCCCCchhhhhHhHHHHHHHHHHHh
Q 004136 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDD--SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (771)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (771)
....+. .++.....+.|+.+...+.--. .+... .+...+... ........+++|||..++.+= .
T Consensus 434 ~~~~g~---~~~~~~~dL~gv~f~d~Pwll~~~~~~~~----~~~~~~~~~-----~~~~~RL~AlG~DA~~L~~~l-~- 499 (536)
T PF04348_consen 434 RSYSGS---PNPSQDRDLNGVRFSDMPWLLDPNSPLRQ----QLAALWPNA-----SNSLQRLYALGIDAYRLAPRL-P- 499 (536)
T ss_dssp GG--HH---T-HHHHHHTTT-EEEE-GGGG---SHHHH----HHH-HHTTT------HHHHHHHHHHHHHHHHHHTH-H-
T ss_pred cccCCC---CCcchhhhhcCCEEeccccccCCCchHHH----HHHhhccCC-----ccHHHHHHHHHHHHHHHHHHH-H-
Confidence 332221 2233446788987766542211 12222 333332110 011234568889987776321 1
Q ss_pred hccCCCChHHHHHHHHcCceeceeeeEEEeCCCCCCCCeEEEEEeeC
Q 004136 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG 392 (771)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~ 392 (771)
-++.+....+.|.||.+++|++|... ....-.++++
T Consensus 500 ----------~l~~~~~~~~~G~TG~L~~~~~g~i~-R~l~wa~f~~ 535 (536)
T PF04348_consen 500 ----------QLRQFPGYRLDGLTGQLSLDEDGRIE-RQLSWAQFRN 535 (536)
T ss_dssp ----------HHHHSTT--EEETTEEEEE-TT-BEE-EE-EEEEEET
T ss_pred ----------HHhhCCCCcccCCceeEEECCCCeEE-EeecceeecC
Confidence 12223335789999999999988643 5555555544
No 107
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.16 E-value=3e-10 Score=112.62 Aligned_cols=198 Identities=12% Similarity=0.071 Sum_probs=152.9
Q ss_pred cccCCCCCceEEEeccCCCccceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHh
Q 004136 446 WAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVY 525 (771)
Q Consensus 446 ~~~~~~~~~~~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~ 525 (771)
+.-+...++|+|++.++|- .+....+ ...|+++++.+.+++.||.+ +++.+.. +.+.++.+|.
T Consensus 16 l~~Iq~rGvLrV~tinsp~----sy~~~~~----------~p~G~eYelak~Fa~yLgV~--Lki~~~~-n~dqLf~aL~ 78 (473)
T COG4623 16 LAAIQARGVLRVSTINSPL----SYFEDKG----------GPTGLEYELAKAFADYLGVK--LKIIPAD-NIDQLFDALD 78 (473)
T ss_pred HHHHHhcCeEEEEeecCcc----ceeccCC----------CccchhHHHHHHHHHHhCCe--EEEEecC-CHHHHHHHHh
Confidence 4445678999999998753 3322222 45799999999999999988 5544432 5788999999
Q ss_pred cccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCcc
Q 004136 526 DKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPE 605 (771)
Q Consensus 526 ~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~ 605 (771)
+|++|++..++....+|.+.+.....|++.+..++.++....
T Consensus 79 ng~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R-------------------------------------- 120 (473)
T COG4623 79 NGNADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR-------------------------------------- 120 (473)
T ss_pred CCCcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC--------------------------------------
Confidence 999999999999999999999998889999999999888754
Q ss_pred CcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCce
Q 004136 606 FRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLK 685 (771)
Q Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~ 685 (771)
-++++||. +.+
T Consensus 121 -------------------------------------------------------------------p~~l~~L~--g~~ 131 (473)
T COG4623 121 -------------------------------------------------------------------PRSLGQLK--GRQ 131 (473)
T ss_pred -------------------------------------------------------------------CCCHHHcc--Cce
Confidence 57899998 777
Q ss_pred EEEecChHHHHHHHHh--cCCCCCCcccC-CCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee-eeeeceEE
Q 004136 686 VGCVDDSFVKKYLEEV--LGFRSGNIVPF-GNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLG 761 (771)
Q Consensus 686 ~g~~~~s~~~~~l~~~--~~~~~~~~~~~-~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~-~~~~~~~g 761 (771)
+.+.+|+....-++.. ..++.-..+.- ..+.+|.+++|..|+++..+.|++.+..+.+-+++ |.+.- .-...+.+
T Consensus 132 i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P~-laVafd~tde~~v~ 210 (473)
T COG4623 132 ITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHPE-LAVAFDLTDEQPVA 210 (473)
T ss_pred eeccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCcc-ceeeeecccccCce
Confidence 7778888766555442 12332222111 11599999999999999999999999888777887 77766 55567888
Q ss_pred EEEecCC
Q 004136 762 FVSNIIY 768 (771)
Q Consensus 762 ~~~~k~s 768 (771)
+.+|.++
T Consensus 211 Wy~~~~d 217 (473)
T COG4623 211 WYLPRDD 217 (473)
T ss_pred eeccCCc
Confidence 8888754
No 108
>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=99.13 E-value=2.7e-11 Score=90.74 Aligned_cols=57 Identities=30% Similarity=0.620 Sum_probs=44.4
Q ss_pred ceEEeccCCCCCCCCCCCcccccchHHHHHHHHHHCCCcccEEEecC--------CCChHHHHHHHhc
Q 004136 467 KFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH--------DGVYDDLINGVYD 526 (771)
Q Consensus 467 p~~~~~~~~~~~~~g~~~~~~~G~~~~l~~~~a~~l~f~~~~~~~~~--------~~~~~~~i~~l~~ 526 (771)
||++.+++..+ ..++.+++|||+||+++||+.|||++++..+++ +|+|+|||++|++
T Consensus 1 Pfvm~~~~~~~---~~g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGEN---LTGNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSG---SBGGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcc---cCCCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 67888777322 123779999999999999999999988888865 6899999999974
No 109
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.89 E-value=2.2e-08 Score=101.93 Aligned_cols=170 Identities=14% Similarity=0.026 Sum_probs=121.6
Q ss_pred ccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeec---cceeeeecccceeec------c
Q 004136 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILG---NRTEYVEFTQPYAES------G 556 (771)
Q Consensus 486 ~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~---~r~~~~~fs~p~~~~------~ 556 (771)
.+.+...++.+.+++++|.++++... ++|+.++..+.+|++|+++.+..... +|.+..+|+.|+... .
T Consensus 46 ~~~~~~~~l~~~l~~~~g~~v~~~~~---~~~~~~~~~l~~g~~Di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 122 (254)
T TIGR01098 46 NLTRRWEPLADYLEKKLGIKVQLFVA---TDYSAVIEAMRFGRVDIAWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYY 122 (254)
T ss_pred HHHHHHHHHHHHHHHHhCCcEEEEeC---CCHHHHHHHHHcCCccEEEECcHHHHHHHHhcCCceEEeeccccCCCCceE
Confidence 34566779999999999988555432 25899999999999999986654433 566677888876643 2
Q ss_pred EEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccCcccccch
Q 004136 557 FSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSN 636 (771)
Q Consensus 557 ~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 636 (771)
..+++++.++
T Consensus 123 ~~lvv~~d~~---------------------------------------------------------------------- 132 (254)
T TIGR01098 123 SVIIVKADSP---------------------------------------------------------------------- 132 (254)
T ss_pred EEEEEECCCC----------------------------------------------------------------------
Confidence 4666766543
Q ss_pred hhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEec-ChHH-----HHHHHHhcCCCC----
Q 004136 637 LTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD-DSFV-----KKYLEEVLGFRS---- 706 (771)
Q Consensus 637 s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~-~s~~-----~~~l~~~~~~~~---- 706 (771)
|++++||. |.++++.. ++.. ..++.+..+...
T Consensus 133 ------------------------------------i~~~~dL~--gk~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~ 174 (254)
T TIGR01098 133 ------------------------------------IKSLKDLK--GKTFAFGDPASTSGYLVPRYQLKKEGGLDADGFF 174 (254)
T ss_pred ------------------------------------CCChHHhc--CCEEEeeCCCCccchHhHHHHHHHhcCCChHHhh
Confidence 89999997 88999854 3221 234444322111
Q ss_pred CCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcC---CceeEee-eeeeceEEEEEecC
Q 004136 707 GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC---KKYTAIN-TYRFGGLGFVSNII 767 (771)
Q Consensus 707 ~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c---~~l~~~~-~~~~~~~g~~~~k~ 767 (771)
.++....+ ..+.+++|.+|++|+.+.+.+.+..+.++.. ..+++++ .+...+++++++|+
T Consensus 175 ~~i~~~~~-~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (254)
T TIGR01098 175 SEVVFSGS-HDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKD 238 (254)
T ss_pred hheeecCc-hHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECC
Confidence 23444444 7889999999999999999999887766643 2478888 66667899999998
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=98.88 E-value=1.2e-07 Score=96.83 Aligned_cols=198 Identities=15% Similarity=0.127 Sum_probs=141.9
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+++|.+ .+.......+++.+.++. | +++.+.|+..++....+.+.+++ ++++.++|+...+.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~l~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~ 72 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA-----G--YQVLLANSQNDAEKQLSALENLI-ARGVDGIIIAPSDLTAPTIV 72 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc-----C--CeEEEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCcchhHH
Confidence 589999986 455667777777777773 3 56677788888888888888888 66899888766554444456
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .+. .++++++.+++...+..+++++.+.+.++++++..+.. ++ ....+.+++.
T Consensus 73 ~~l~~~~ip~v~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~~~~~~~~~ 143 (264)
T cd01537 73 KLARKAGIPVVLVDRD--IPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTA--RERVAGFKDA 143 (264)
T ss_pred HHhhhcCCCEEEeccC--CCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcH--HHHHHHHHHH
Confidence 7888899999998766 332 25677888999999999999998888999999987655 44 5667888888
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
+++.|...+.......... .+....+.++.+.+ +++|+. .+...+..++++++++|..
T Consensus 144 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 144 LKEAGPIEIVLVQEGDWDA------EKGYQAAEELLTAHPDPTAIFA--ANDDMALGALRALREAGLR 203 (264)
T ss_pred HHHcCCcChhhhccCCCCH------HHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhCCC
Confidence 8776511222111112111 45666777777665 566665 4445677789999999985
No 111
>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=98.84 E-value=4.2e-07 Score=93.18 Aligned_cols=207 Identities=14% Similarity=0.093 Sum_probs=141.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc-hHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~-s~~~~~v 113 (771)
+||++.|.. .........+++.+.++. .+++.+.++..++......+.+++ .+++.++|+... .......
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~-------g~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgvi~~~~~~~~~~~~ 72 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL-------GVELIVLDAQNDVSKQIQQIEDLI-AQGVDGIIISPVDSAALTPA 72 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc-------CceEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCchhHHHH
Confidence 589999875 556677788888887773 355666777778888888888888 568998875433 3333345
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC--CCCCcchHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l 189 (771)
...+...++|+|..... .+. .+.+..+.+++...+..+++++... +-+++++++.... ++ ....+.|
T Consensus 73 ~~~l~~~~ip~V~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~r~~gf 143 (267)
T cd01536 73 LKKANAAGIPVVTVDSD--IDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNA--QERVKGF 143 (267)
T ss_pred HHHHHHCCCcEEEecCC--CCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchH--HHHHHHH
Confidence 56667789999998765 221 2345567888888889999998776 8899999987653 55 6678889
Q ss_pred HHHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 190 ~~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
++.+++. | .++.......... .+..+.+.++.+.. +++|+. ++...+..+++++++.|+. ++...++
T Consensus 144 ~~~~~~~~~-~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~i~~--~~d~~a~~~~~~l~~~g~~-~~i~ivg 213 (267)
T cd01536 144 RDALKEYPD-IEIVAVQDGNWDR------EKALQAMEDLLQANPDIDAIFA--ANDSMALGAVAALKAAGRK-GDVKIVG 213 (267)
T ss_pred HHHHHhCCC-cEEEEEecCCCcH------HHHHHHHHHHHHhCCCccEEEE--ecCCchHHHHHHHHhcCCC-CCceEEe
Confidence 9999887 5 5554322211111 34566677766554 444444 5556778899999999986 4444454
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 214 ~d~ 216 (267)
T cd01536 214 VDG 216 (267)
T ss_pred cCC
Confidence 443
No 112
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=98.81 E-value=1.8e-08 Score=91.37 Aligned_cols=95 Identities=14% Similarity=0.206 Sum_probs=79.7
Q ss_pred CCCChhHhhhC-CceEEEecChHHHHHHHHhcCCC---------CCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHH
Q 004136 672 NVTDIQSLKSG-NLKVGCVDDSFVKKYLEEVLGFR---------SGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF 741 (771)
Q Consensus 672 ~i~~~~dL~~~-~~~~g~~~~s~~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~ 741 (771)
||++++||..+ +.+||+..++..+.++++..... ..++..|.+ ..+++.+|++|+ ||++.|.+.+.++
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~g~-da~v~d~~~~~~~ 78 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKS-YAEGVQRVRVSN-YAFLMESTYLDYE 78 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCC-HHHHHHHHHcCC-CEEEeehHhHHHH
Confidence 48899999843 48999999999999998731110 025667888 999999999999 9999999999998
Q ss_pred HHhcCCceeEee-eeeeceEEEEEecCCC
Q 004136 742 LDKYCKKYTAIN-TYRFGGLGFVSNIIYS 769 (771)
Q Consensus 742 ~~~~c~~l~~~~-~~~~~~~g~~~~k~s~ 769 (771)
+++.|+ +.+++ .+..++||+++||+++
T Consensus 79 ~~~~~~-~~~~~~~~~~~~~~ia~~k~~~ 106 (134)
T smart00079 79 LSQNCD-LMTVGENFGRKGYGIAFPKGSP 106 (134)
T ss_pred HhCCCC-eEEcCcccCCCceEEEecCCCH
Confidence 888887 88888 8888999999999975
No 113
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.71 E-value=7.9e-07 Score=92.80 Aligned_cols=313 Identities=11% Similarity=0.106 Sum_probs=192.9
Q ss_pred CcEEEEEEEeCCC---cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 33 EVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 33 ~~I~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
.+=||++++|+++ ..|.....||..|-. .+...++-..++.+.||...+..++. .+.. ..++..|+||.--..
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~~~~~~~~~i~dT~~~~l~~i~--aqaq-q~G~~~VVGPLlK~n 331 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQTAQVAELKIYDTSAQPLDAIL--AQAQ-QDGADFVVGPLLKPN 331 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccCCccccceeeccCCcccHHHHH--HHHH-hcCCcEEeccccchh
Confidence 3568999999995 356677777776654 22222332367888888776665553 2333 789999999999988
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
...+...-. ..||++.-..+ .. + +..+.+....-+.+..++..++.+-.-|.+...++...+++| +...++|
T Consensus 332 Ve~L~~~~q-~~i~vLALN~~--~n--~-r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG--~Rv~~AF 403 (604)
T COG3107 332 VEALLASNQ-QPIPVLALNQP--EN--S-RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLG--DRVANAF 403 (604)
T ss_pred HHHHHhCcC-CCCceeeecCC--cc--c-cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHH--HHHHHHH
Confidence 888865544 78888877655 11 1 233444455555566899999999999999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHH-----------------------HHhhhCC-ceEEEEEecChhHH
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL-----------------------KKVQDKQ-SRVFIVLQASLDMT 245 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l-----------------------~~l~~~~-~~vIv~~~~~~~~~ 245 (771)
.+++++.| +..+....|.... .+...+ ..+.+.+ .|.|++ ...+.++
T Consensus 404 ~~~Wq~~g-g~~v~~~~fg~~~-------~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyi-vAtp~el 474 (604)
T COG3107 404 NQEWQKLG-GGTVLQQKFGSTS-------ELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYI-VATPSEL 474 (604)
T ss_pred HHHHHHhc-CCchhHhhcCcHH-------HHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEE-EecchhH
Confidence 99999998 7444433332211 111111 1112223 889999 8999988
Q ss_pred HHHHHHHHHcCCCCCCeEEEeeCcccccccccChhhhhccccEEEEEee--ccCCChhHHHHHHHHHHhcccCCCCCCCC
Q 004136 246 IHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSY--YSDDSSPYKEFSALFRRNFTSEYPEEDHF 323 (771)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~ 323 (771)
+.|=-...-.+....--.+..+.... ...+++....++|+.+-..+ ...+.|.+++....|...
T Consensus 475 ~~IKP~ia~~~~~~~~p~yaSSr~~~---gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~----------- 540 (604)
T COG3107 475 ALIKPMIAMANGSDSPPLYASSRSSQ---GTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND----------- 540 (604)
T ss_pred hHHhhHHHhhcCCCCcceeeeccccc---cCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc-----------
Confidence 87755544333222101233332221 22334445567776543322 122235666665554322
Q ss_pred CCchhhhhHhHHHHHHHHHHHhhccCCCChHHHHHHHHc------CceeceeeeEEEeCCCCCCCCeEEEEEeeCCceEE
Q 004136 324 HPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLS------SDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKE 397 (771)
Q Consensus 324 ~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~------~~f~G~tG~v~Fd~~g~~~~~~~~I~~~~~~~~~~ 397 (771)
|..+.++|.++ |.+.|..++.+ ..++|+||.++.|+++... ....=.++++|..++
T Consensus 541 ---------~sl~RLyAmGv--------DAwrLan~f~elrqV~G~~i~G~TG~Lsad~~c~I~-R~l~Waqy~~G~vvP 602 (604)
T COG3107 541 ---------YSLARLYAMGV--------DAWRLANHFSELRQVPGYQIDGLTGTLSADPDCVIE-RKLSWAQYQQGQVVP 602 (604)
T ss_pred ---------hHHHHHHHhcc--------hHHHHHHHhHHhhcCCCcccccccceeecCCCceEe-ecchHHHhcCCCeee
Confidence 44455555443 33334333333 3678999999999987654 555555666666665
Q ss_pred E
Q 004136 398 L 398 (771)
Q Consensus 398 v 398 (771)
+
T Consensus 603 ~ 603 (604)
T COG3107 603 V 603 (604)
T ss_pred C
Confidence 4
No 114
>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=98.68 E-value=1e-06 Score=90.00 Aligned_cols=198 Identities=16% Similarity=0.147 Sum_probs=138.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||++.|.. .+.......+++.+.++. | +++.+.+...++....+.+++++ .+++.+++....+..... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~iii~~~~~~~~~-~ 71 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-----G--YSVLLCNSDEDPEKEREALELLL-SRRVDGIILAPSRLDDEL-L 71 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-----C--CEEEEEcCCCCHHHHHHHHHHHH-HcCcCEEEEecCCcchHH-H
Confidence 489999986 455566667777776663 3 44556677788888888899998 678888876555544544 6
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .+. +.+..+.++....++.+++++...|.+++++++.+.. ++ ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~g~~~~ 141 (264)
T cd06267 72 EELAALGIPVVLVDRP--LDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTA--RERLEGYREA 141 (264)
T ss_pred HHHHHcCCCEEEeccc--ccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchH--HHHHHHHHHH
Confidence 6788899999998765 332 3456678888889999999998889999999987654 45 6667888899
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
+++.| ..+..........+ .++....+.++.+.+ +++|+. .+...+..+++++++.|+..
T Consensus 142 ~~~~~-~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~ 203 (264)
T cd06267 142 LEEAG-IPLDEELIVEGDFS----EESGYEAARELLASGERPTAIFA--ANDLMAIGALRALRELGLRV 203 (264)
T ss_pred HHHcC-CCCCcceEEecccc----hhhHHHHHHHHHhcCCCCcEEEE--cCcHHHHHHHHHHHHhCCCC
Confidence 98877 54322222221111 134566677666555 666665 45566778899999999863
No 115
>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=98.67 E-value=3.6e-06 Score=86.63 Aligned_cols=203 Identities=15% Similarity=0.097 Sum_probs=135.9
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch-HhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s-~~~~~v 113 (771)
|||+++|.. .++-.+...+++.+.++.-. .|+++++.+.|+..++....+...+++ .+++.+||....+ ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~--~g~~~~l~i~~~~~~~~~~~~~~~~~~-~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKK--AGLISEFIVTSADGDVAQQIADIRNLI-AQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhc--cCCeeEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhhhHHH
Confidence 689999765 33334555566555554211 267788999999999999999999988 6799988874433 323334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeC--CCCCCcchHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDN--VYGGDSGKLALL 189 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~--~~g~~~~~~~~l 189 (771)
...+...++|+|..... .+ . +.+.++.+++...+..+++++... +-++++++..+. ..+ ....+.+
T Consensus 78 l~~~~~~~iPvv~~~~~--~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~R~~g~ 147 (272)
T cd06300 78 IEEACEAGIPVVSFDGT--VT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVD--EDRYAGA 147 (272)
T ss_pred HHHHHHCCCeEEEEecC--CC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcch--HHHHHHH
Confidence 55667789999988754 22 1 456778999999999999999766 788999997532 234 5567888
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
++.+.+.|.+++....... . + ..+..+.+.++.+++ +++|+. .+.. +..+++++++.|+..+
T Consensus 148 ~~a~~~~~~~~~~~~~~~~--~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~d~-A~g~~~al~~~g~~~p 211 (272)
T cd06300 148 KEVLKEYPGIKIVGEVYGD--W---D-QAVAQKAVADFLASNPDVDGIWT--QGGD-AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHHHCCCcEEEeecCCC--C---C-HHHHHHHHHHHHHhCCCcCEEEe--cCCC-cHHHHHHHHHcCCCCc
Confidence 8888776413443221111 1 1 134566677776554 455555 4444 8899999999998544
No 116
>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=98.66 E-value=4.4e-06 Score=86.16 Aligned_cols=212 Identities=10% Similarity=0.067 Sum_probs=135.4
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEE-EEcCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~a-viGp~~s~~~~~v 113 (771)
|||++.|.. .+.......+++.+.++. |+++.+...|+..++....+...+++ ++++.+ |+.|..+....+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 74 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-----GVSVDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSPISDVNLVPA 74 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-----CCeEEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECCCChHHhHHH
Confidence 589999853 445556666777777663 67777776777778877778888888 678886 4566554444445
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+ ....+ .+.+++...++.+++++... +.++++++.............+.+.+
T Consensus 75 ~~~~~~~~iPvV~~~~~--~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 75 VERAKKKGIPVVNVNDK--LI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHCCCeEEEECCC--CC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 56677889999987654 21 11112 36778888899999999665 88899999754332100445688999
Q ss_pred HHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 192 ~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
.+++. | +++....... .. ..+....+.++.+..+++-.+.+.+...+..+++++++.|.. ++...++.+.
T Consensus 147 ~~~~~~~-~~~~~~~~~~-~~-----~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~d~ 217 (275)
T cd06320 147 AIKKASG-IEVVASQPAD-WD-----REKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGTDG 217 (275)
T ss_pred HHhhCCC-cEEEEecCCC-cc-----HHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEecCC
Confidence 99998 8 7765422111 11 123445666665444433333135556677788999999986 3344444433
No 117
>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=98.59 E-value=4e-06 Score=86.74 Aligned_cols=201 Identities=14% Similarity=0.166 Sum_probs=136.8
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
|||++.|.+.+.......+++-.+++.+-. .|+++++.+.|+..++......+.+++ ++++.++|+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~~~~~~~g~~-~g~~v~l~~~~~~~~~~~~~~~~~~l~-~~~vd~iI~~~~~~-~~~~-- 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFKDGLKEAGYK-EGKNVKIDYQNAQGDQSNLPTIARKFV-ADKPDLIVAIATPA-AQAA-- 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHHHHHHHhCcc-CCceEEEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCcHH-HHHH--
Confidence 589999876555556666666555544332 368999999999999999999999988 67999999865432 2222
Q ss_pred hhccCCccEEeecCCCCCCCcc----CCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcchHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSM----SRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLAL 188 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~----~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~ 188 (771)
.+...++|+|..+.. .+... ....+....+..++...+..+++++.+. +.+++++++.+.. ++ ....+.
T Consensus 76 ~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~--~~r~~g 151 (281)
T cd06325 76 ANATKDIPIVFTAVT--DPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANS--VVQVKE 151 (281)
T ss_pred HHcCCCCCEEEEecC--CccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccH--HHHHHH
Confidence 256679999988754 33211 1111222234445666778888888765 9999999986543 55 667789
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
+++.+++.| +++..... ... .++.+.++++.+ ++++|+. .. ...+..+++++++.++
T Consensus 152 ~~~~~~~~g-~~~~~~~~--~~~------~~~~~~~~~~~~-~~dai~~-~~-d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 152 LKKAAAKLG-IEVVEATV--SSS------NDVQQAAQSLAG-KVDAIYV-PT-DNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHhCC-CEEEEEec--CCH------HHHHHHHHHhcc-cCCEEEE-cC-chhHHhHHHHHHHHHH
Confidence 999999999 87765321 111 456777777765 3687777 44 4566778888888875
No 118
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.58 E-value=2.4e-05 Score=77.87 Aligned_cols=202 Identities=12% Similarity=0.145 Sum_probs=140.6
Q ss_pred CCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCc-EEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNH-KLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 32 ~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~-~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
.+.++||+....+.+.-.....|++-|+++. |+ .+++.+.+..+|+..+.+.++++. .++.+++++-. +..+
T Consensus 28 ~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~-----G~~n~~i~~~na~~~~~~a~~iarql~-~~~~dviv~i~-tp~A 100 (322)
T COG2984 28 ADQITVAITQFVEHPALDAAREGVKEALKDA-----GYKNVKIDYQNAQGDLGTAAQIARQLV-GDKPDVIVAIA-TPAA 100 (322)
T ss_pred ccceeEEEEEeecchhHHHHHHHHHHHHHhc-----CccCeEEEeecCCCChHHHHHHHHHhh-cCCCcEEEecC-CHHH
Confidence 3668899998888655566677777777765 33 788889999999999999999999 67777777644 4445
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccC----CCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCc
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMS----RRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDS 183 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~----~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~-~g~~~ 183 (771)
.++..-. .++|+|-.+.+ ++.-.. -.-|----+.-+|..-...-+++++.. +.++++++|..++ .. .
T Consensus 101 q~~~s~~--~~iPVV~aavt--d~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns--~ 174 (322)
T COG2984 101 QALVSAT--KTIPVVFAAVT--DPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANS--V 174 (322)
T ss_pred HHHHHhc--CCCCEEEEccC--chhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCccc--H
Confidence 5554333 34999988776 333222 112323345666666566666777664 8899999998765 55 7
Q ss_pred chHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh---HHHHHHHHHHHcCC
Q 004136 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD---MTIHLFTEANRMGL 257 (771)
Q Consensus 184 ~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~---~~~~il~~a~~~g~ 257 (771)
...+.+++++++.| +++.... .+.. .|....++.+. .++|+|++ .++.. ....+++.+.+.+.
T Consensus 175 ~l~eelk~~A~~~G-l~vve~~-v~~~-------ndi~~a~~~l~-g~~d~i~~-p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAG-LEVVEAA-VTSV-------NDIPRAVQALL-GKVDVIYI-PTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCC-CEEEEEe-cCcc-------cccHHHHHHhc-CCCcEEEE-ecchHHHHHHHHHHHHHHHhCC
Confidence 78899999999999 8876432 2222 34677777776 47999999 77764 35556777777775
No 119
>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=98.46 E-value=1.3e-05 Score=82.03 Aligned_cols=204 Identities=12% Similarity=0.135 Sum_probs=130.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++.+.++. |+.+. +.++..++....+...+++ .+++.++|....+.......
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~--~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~ 72 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-----GYSLL--LATTDYDAEREADAVETLL-RQRVDGLILTVADAATSPAL 72 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-----CCEEE--EeeCCCCHHHHHHHHHHHH-hcCCCEEEEecCCCCchHHH
Confidence 378999864 344455666666666552 34444 4566677887778888887 67899887533332223455
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEe---CCCCCCcchHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED---NVYGGDSGKLALLAE 191 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~---~~~g~~~~~~~~l~~ 191 (771)
..+...++|+|..... .+ ...++ +..++...+..+++++...+.++++++..+ .+++ ....+.+++
T Consensus 73 ~~~~~~~ipvV~~~~~--~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 141 (266)
T cd06282 73 DLLDAERVPYVLAYND--PQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRA--RQRYAGYRA 141 (266)
T ss_pred HHHhhCCCCEEEEecc--CC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchH--HHHHHHHHH
Confidence 6678889999887654 22 22344 346778889999999988899999999743 2244 556788999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
.+++.| +.+.......... .+....+.++.+. .+++|+. ++...+..+++++++.|+..+ +...++.
T Consensus 142 ~l~~~~-~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~p~di~v~g~ 211 (266)
T cd06282 142 AMRAAG-LAPLPPVEIPFNT------AALPSALLALLTAHPAPTAIFC--SNDLLALAVIRALRRLGLRVPDDLSVVGF 211 (266)
T ss_pred HHHHcC-CCCCccccCCCcH------HHHHHHHHHHhcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEEee
Confidence 999988 6543322222111 2233444544333 4676665 666777889999999998543 3334433
No 120
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.44 E-value=6.8e-05 Score=78.12 Aligned_cols=210 Identities=11% Similarity=0.126 Sum_probs=129.0
Q ss_pred cEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeE-EEEcCCchHhHH
Q 004136 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETA 111 (771)
Q Consensus 34 ~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~-aviGp~~s~~~~ 111 (771)
.-+||+++|.. .++..+...+++.+.++. |+ ++.+.++..++........+++ .+++. ++++|..+....
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~-----G~--~~~~~~~~~d~~~~~~~~~~l~-~~~~dgiii~~~~~~~~~ 97 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKL-----GY--NLVVLDSQNNPAKELANVQDLT-VRGTKILLINPTDSDAVG 97 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHc-----CC--eEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHHH
Confidence 45799999853 445566777777777764 34 4445677778887877788887 56776 555665555444
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-CC-eEEEEEEEeCC--CCCCcchHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNV--YGGDSGKLA 187 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-~w-~~v~ii~~~~~--~g~~~~~~~ 187 (771)
.....+...++|+|..... .+ ..+.+..+.+++...+..+++++... +. .++.++..+.. .. ....+
T Consensus 98 ~~l~~~~~~~ipvV~~~~~--~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~--~~R~~ 168 (295)
T PRK10653 98 NAVKMANQANIPVITLDRG--AT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAA--RERGE 168 (295)
T ss_pred HHHHHHHHCCCCEEEEccC--CC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccH--HHHHH
Confidence 5556777789999988744 11 11234456777777778888888554 54 35666654322 22 45678
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.|++.+++.| ..+.... .... + ..+....+.++.+..++.-.+.+.+...+..++++++++|+ .+...++.
T Consensus 169 gf~~al~~~g-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~ 239 (295)
T PRK10653 169 GFKQAVAAHK-FNVLASQ--PADF---D-RTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGF 239 (295)
T ss_pred HHHHHHhhCC-CEEEEec--CCCC---C-HHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEe
Confidence 8999999999 7664221 1111 1 12334455556544443223313555666678999999998 24455554
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 240 d~ 241 (295)
T PRK10653 240 DG 241 (295)
T ss_pred CC
Confidence 44
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=98.39 E-value=4.6e-05 Score=78.07 Aligned_cols=205 Identities=11% Similarity=0.071 Sum_probs=130.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEE-EEcCCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~a-viGp~~s~~~~~v~ 114 (771)
||+++|.. .+...+...+++.+.++. |+.+ .+.++..++....+...+++ .+++.+ |+++..+.......
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~-----g~~v--~~~~~~~~~~~~~~~~~~~~-~~~~dgii~~~~~~~~~~~~l 73 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL-----GYEL--TVLDAQNDAAKQLNDIEDLI-TRGVDAIIINPTDSDAVVPAV 73 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc-----CceE--EecCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHHHHHH
Confidence 78888853 455567777777777763 3444 55677778888888888887 677886 55565544434444
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC--CCCCcchHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALLA 190 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l~ 190 (771)
..+...++|+|..... .+. .+.+-.+..++...+..+++++.+. +-+++++++.+.. .+ ....+.++
T Consensus 74 ~~l~~~~ipvv~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~--~~r~~g~~ 144 (268)
T cd06323 74 KAANEAGIPVFTIDRE--ANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAA--RERGKGFH 144 (268)
T ss_pred HHHHHCCCcEEEEccC--CCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccH--HHHHHHHH
Confidence 5566789999988754 221 1223346667777788889988766 7789999986432 44 56678889
Q ss_pred HHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 191 ~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
+.+++. | .++.......... .+....+.++.+. ++++|+ +.+...+..+++++++.|. ++...++.
T Consensus 145 ~~l~~~~~-~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 145 EVVDKYPG-LKVVASQPADFDR------AKGLNVMENILQAHPDIKGVF--AQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHHHhCCC-cEEEecccCCCCH------HHHHHHHHHHHHHCCCcCEEE--EcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 999884 7 6654322111111 2233344454433 345543 3555556678999999998 44455554
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 214 d~ 215 (268)
T cd06323 214 DG 215 (268)
T ss_pred CC
Confidence 43
No 122
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.33 E-value=4.5e-06 Score=85.83 Aligned_cols=138 Identities=12% Similarity=0.162 Sum_probs=106.9
Q ss_pred ChHHHHHHHhcccccEEEeeEeeeccceeeeecccc--eeeccEEEEEecCCCCCccccccCCCHHHHHHHHHHHHHHHH
Q 004136 516 VYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQP--YAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMF 593 (771)
Q Consensus 516 ~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p--~~~~~~~~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~ 593 (771)
.+.+++..|.+|++|+++++..++.+|.+.++|+.| |....+.++++...+
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~--------------------------- 104 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSD--------------------------- 104 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCC---------------------------
Confidence 578999999999999999999999999999999988 777788888887764
Q ss_pred hhhhhccccCccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHHHHHHHHHHHhhcccccceeecccCCCC
Q 004136 594 IVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNV 673 (771)
Q Consensus 594 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i 673 (771)
|
T Consensus 105 -------------------------------------------------------------------------------i 105 (287)
T PRK00489 105 -------------------------------------------------------------------------------W 105 (287)
T ss_pred -------------------------------------------------------------------------------C
Confidence 8
Q ss_pred CChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee
Q 004136 674 TDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN 753 (771)
Q Consensus 674 ~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~ 753 (771)
++++||. |.++++.-+.....++.+. +. ..+++.+.+ ..|. ++..|..|+++....+...+.++ + ++++.
T Consensus 106 ~sl~DL~--Gk~ia~~~~~~~~~~l~~~-gi-~~~iv~~~g-s~ea--a~~~G~aDaivd~~~~~~~l~~~--~-L~~v~ 175 (287)
T PRK00489 106 QGVEDLA--GKRIATSYPNLTRRYLAEK-GI-DAEVVELSG-AVEV--APRLGLADAIVDVVSTGTTLRAN--G-LKIVE 175 (287)
T ss_pred CChHHhC--CCEEEEcCcHHHHHHHHHc-CC-ceEEEECCC-chhh--hhcCCcccEEEeeHHHHHHHHHC--C-CEEEE
Confidence 8899998 8899998888888888772 32 335556665 4443 56669999998877776655553 3 66666
Q ss_pred eeeeceEEEEEec--CCC
Q 004136 754 TYRFGGLGFVSNI--IYS 769 (771)
Q Consensus 754 ~~~~~~~g~~~~k--~s~ 769 (771)
.+....++++.+| .++
T Consensus 176 ~~~~~~~~li~~k~~~~~ 193 (287)
T PRK00489 176 VILRSEAVLIARKGWLDP 193 (287)
T ss_pred eeeeeeEEEEEcccccCh
Confidence 4445569999998 554
No 123
>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=98.31 E-value=6.2e-05 Score=76.67 Aligned_cols=203 Identities=17% Similarity=0.180 Sum_probs=141.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v~ 114 (771)
||++.|.. .++......+++-+.++.+ ..+.+. .|...++..-.+.+.+++ ++++.+|| .|..+.......
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g-----~~~~~~-~~~~~d~~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~~~~l 73 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG-----YEVEIV-FDAQNDPEEQIEQIEQAI-SQGVDGIIVSPVDPDSLAPFL 73 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT-----CEEEEE-EESTTTHHHHHHHHHHHH-HTTESEEEEESSSTTTTHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC-----CEEEEe-CCCCCCHHHHHHHHHHHH-HhcCCEEEecCCCHHHHHHHH
Confidence 78898888 4466778899999999873 445554 789999999999999999 77888665 677776677777
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCC--eEEEEEEEeCCCCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW--RRVAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w--~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
..+...+||+|.... + .....+....+.++....+..+++++....- .+++++.....+..+....+.+++.
T Consensus 74 ~~~~~~gIpvv~~d~----~--~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 74 EKAKAAGIPVVTVDS----D--EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHTTSEEEEESS----T--HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHhhcCceEEEEec----c--ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 788889999998653 2 1122345567888999999999999854322 6788776554432113457778888
Q ss_pred Hhc-cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC-ceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 193 LQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 193 ~~~-~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
+++ .+ +++.......... .+.....+.++.+.+ .++| + +++...+..+++++++.|+.++
T Consensus 148 l~~~~~-~~~~~~~~~~~~~-----~~~a~~~~~~~l~~~~~~~i-~-~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPG-VEIVDEYEYTDWD-----PEDARQAIENLLQANPVDAI-I-ACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTT-EEEEEEEEECTTS-----HHHHHHHHHHHHHHTTEEEE-E-ESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcce-eeeeeeeeccCCC-----HHHHHHHHHHhhhcCCceEE-E-eCCChHHHHHHHHHHHcCCccc
Confidence 888 45 7776633222222 144555555555555 3433 3 5888888889999999999665
No 124
>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=98.28 E-value=9.3e-05 Score=76.26 Aligned_cols=208 Identities=10% Similarity=0.051 Sum_probs=128.9
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEE-EcCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~av-iGp~~s~~~~~v 113 (771)
+||++.|.. .++......+++.+.++. |+ ++.+.++..++....+...+++ .+++.++ +++..+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-----g~--~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 72 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-----GY--DAVELSAENSAKKELENLRTAI-DKGVSGIIISPTNSSAAVTL 72 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-----CC--eEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCCchhhhHHH
Confidence 488998864 333445555555555543 34 4455677788888888888887 6788866 566555544556
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc------CCeEEEEEEEeC--CCCCCcch
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDN--VYGGDSGK 185 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~~~--~~g~~~~~ 185 (771)
...+...++|+|..... .+ . ..++..+.+++...+..+++++.+. +.++++++.... ..+ ...
T Consensus 73 l~~~~~~~ipvV~~~~~--~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~--~~r 143 (277)
T cd06319 73 LKLAAQAKIPVVIADIG--AE---G--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNG--QKR 143 (277)
T ss_pred HHHHHHCCCCEEEEecC--CC---C--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccH--HHH
Confidence 67777889999987543 11 1 1234456777777777777776443 668999998532 234 566
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc--eEEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS--RVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~--~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (771)
.+.+++.+++.| ..+.... ...+. + ..+....+.++.++.+ ++|+. .+...+..+++++++.|+. ++..
T Consensus 144 ~~gf~~~l~~~~-~~~~~~~-~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~-~di~ 214 (277)
T cd06319 144 TKGFKEAMKEAG-CDLAGIR-QQKDF---S-YQETFDYTNDLLTANPDIRAIWL--QGSDRYQGALDAIATAGKT-GKVL 214 (277)
T ss_pred HHHHHHHHHhcC-CceEeec-cCCCC---C-HHHHHHHHHHHHHhCCCCCEEEE--CCCccchHHHHHHHHcCCC-CCEE
Confidence 788999999998 6644221 11111 1 1233445555554444 44443 4555567899999999986 3444
Q ss_pred EEeeCc
Q 004136 264 WIVTNT 269 (771)
Q Consensus 264 ~i~~~~ 269 (771)
.++.+.
T Consensus 215 vvg~d~ 220 (277)
T cd06319 215 LICFDA 220 (277)
T ss_pred EEEcCC
Confidence 444443
No 125
>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=98.28 E-value=6.2e-05 Score=77.49 Aligned_cols=212 Identities=16% Similarity=0.125 Sum_probs=129.7
Q ss_pred EEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 37 IGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 37 IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
||+++|.. .++......+++.+.++. |+. +.+.++..++....+....++ .+++.++|. +..+......
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~-----g~~--~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~ 73 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEED-----GVE--VIVLDANGDVARQAAQVEDLI-AQKVDGIILWPTDGQAYIPG 73 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhc-----CCE--EEEEcCCcCHHHHHHHHHHHH-HcCCCEEEEecCCccccHHH
Confidence 78899863 456667777888777773 344 455677788888888888888 678987754 4444433445
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEE-eecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR-MASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr-~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
...+...++|+|..... .+ ....++++. +.+++...+..+++.+.+. +-++++++....++.......+.++
T Consensus 74 l~~~~~~~iPvV~~~~~--~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~ 148 (275)
T cd06317 74 LRKAKQAGIPVVITNSN--IS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFE 148 (275)
T ss_pred HHHHHHCCCcEEEeCCC--CC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHH
Confidence 56667889999977654 21 222344433 3455566777777777554 6679999986443321044568889
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
+.+++.| ..+.......... +. .+....+.++.+. ++++|+. ++...+..++++++++|+. .+...++.
T Consensus 149 ~~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~-~dv~v~g~ 220 (275)
T cd06317 149 DELAEVC-PGVEVLDTQPADW---DR-EKAQVAMEALITKFGDDIDGVYA--GDDNMARGALNAAKEAGLA-GGIVIVGA 220 (275)
T ss_pred HHHHhhC-CCCEEEeccCCCC---CH-HHHHHHHHHHHHhCCCCccEEEE--CCCcHHHHHHHHHHhcCCc-CCcEEEEe
Confidence 9998886 4333222111111 10 2223334443322 3677666 5555578899999999987 44444444
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 221 d~ 222 (275)
T cd06317 221 NN 222 (275)
T ss_pred CC
Confidence 43
No 126
>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=98.25 E-value=0.00019 Score=73.86 Aligned_cols=211 Identities=12% Similarity=0.030 Sum_probs=127.2
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
|||++.|.. .++......+++.+.++. |+++.+...++..++....+...+++ .+++.++|- +.........
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgvii~~~~~~~~~~~ 74 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKEL-----GVKVTFQGPASETDVAGQVNLLENAI-ARGPDAILLAPTDAKALVPP 74 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHc-----CCEEEEecCccCCCHHHHHHHHHHHH-HhCCCEEEEcCCChhhhHHH
Confidence 689999863 333345555555555442 56666654444568887778888887 678887775 3322222344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+ + . ..+-.+..++...+..+++++... |.++++++....++.......+.+++
T Consensus 75 l~~~~~~~ipvV~~~~~--~~---~-~-~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 75 LKEAKDAGIPVVLIDSG--LN---S-D-IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHCCCCEEEecCC--CC---C-C-cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 45556789999987643 11 1 1 112235666667778888888666 89999999754433211345688889
Q ss_pred HHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 192 ~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
.+++. | ..+.... .... + ..+-...+.++.+. .+++|+ +.+...+..+++.+++.|+. ++...++.+
T Consensus 148 a~~~~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~~i~--~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPG-IEIVATQ--YSDS---D-YAKALDITEDLLTANPDLKGIF--GANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCC-cEEEecc--cCCc---C-HHHHHHHHHHHHHhCCCceEEE--ecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99888 8 6654311 1111 1 12233344454433 345443 36667788899999999986 445555544
Q ss_pred c
Q 004136 269 T 269 (771)
Q Consensus 269 ~ 269 (771)
.
T Consensus 218 ~ 218 (273)
T cd06310 218 A 218 (273)
T ss_pred C
Confidence 4
No 127
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.24 E-value=0.00016 Score=74.26 Aligned_cols=214 Identities=13% Similarity=0.070 Sum_probs=132.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
+||+++|.. .++......+++.+.++. . .+++.+.++..++....+....++ +.++.++| .|..+.....+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--~----~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 73 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL--G----GVELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVDTAATAPI 73 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc--C----CcEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCchhhhHHH
Confidence 589999864 344445555565555551 1 355566777788888888888888 67888665 55554444555
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+.. .+.+..+..++...+..+++++... +-++++++.............+.|++
T Consensus 74 ~~~l~~~~iPvv~~~~~--~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 74 VKAANAAGIPLVYVNRR--PENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHCCCeEEEecCC--CCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 56678889999987644 2211 1334567888888889998988654 45699999764332100445688888
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
.+++.|..++... ..... +. ......++++.+. .+++|+. .+...+..+++.+++.|..+++...++.+.
T Consensus 148 ~l~~~~~~~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANW---SR-AEAMDLMENWLSSGGKIDAVVA--NNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHCCCcEEEec--CCCCc---cH-HHHHHHHHHHHHhCCCCCEEEE--CCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 8887651222211 11111 11 2223444554433 4566544 666677789999999998754666666554
Q ss_pred c
Q 004136 270 V 270 (771)
Q Consensus 270 ~ 270 (771)
.
T Consensus 220 ~ 220 (272)
T cd06301 220 T 220 (272)
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=98.24 E-value=0.00016 Score=74.21 Aligned_cols=209 Identities=11% Similarity=0.056 Sum_probs=135.4
Q ss_pred EEEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEc-CCchHhHH
Q 004136 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAG-METWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~-~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~ 111 (771)
|||++.|.. .++..+...+++.+.++. |+.+.+ .++.. ++....+...+++ .+++.++|. |.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~-----g~~v~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~ 72 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL-----GVDVEY--RGPETFDVADMARLIEAAI-AAKPDGIVVTIPDPDALD 72 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh-----CCEEEE--ECCCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChHHhH
Confidence 689999865 455667778888888874 455544 44444 7887888888888 678887775 33333233
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.....+...++|+|..... .+... ..+.+..+..++...+..+++++.+ .+-++++++..+.. .+ ....+.
T Consensus 73 ~~l~~~~~~~ipvV~~~~~--~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~--~~r~~g 146 (271)
T cd06312 73 PAIKRAVAAGIPVISFNAG--DPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTL--EDRCAG 146 (271)
T ss_pred HHHHHHHHCCCeEEEeCCC--CCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccH--HHHHHH
Confidence 4445567789999988754 22211 2245667888999999999999988 88899999975322 33 556788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+++.+++.+ +.+... .... + ..+....++++.+. ++++|+. .+...+..+++.+++.|+. +....++
T Consensus 147 ~~~~~~~~~-~~~~~~---~~~~---~-~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~di~vvg 215 (271)
T cd06312 147 FADGLGGAG-ITEEVI---ETGA---D-PTEVASRIAAYLRANPDVDAVLT--LGAPSAAPAAKALKQAGLK-GKVKLGG 215 (271)
T ss_pred HHHHHHhcC-ceeeEe---ecCC---C-HHHHHHHHHHHHHhCCCccEEEE--eCCccchHHHHHHHhcCCC-CCeEEEE
Confidence 999998888 654321 1111 1 12334445554333 3566555 5566678888999999987 4444444
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 216 ~d~ 218 (271)
T cd06312 216 FDL 218 (271)
T ss_pred ecC
Confidence 433
No 129
>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=98.12 E-value=0.00031 Score=72.22 Aligned_cols=214 Identities=13% Similarity=0.075 Sum_probs=130.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
+||++.|.- .++-.....+++.+.++. |++ +.+.++..+...-.+....++ .+++.++| .|.........
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR-----GFD--LKFADAQQKQENQISAIRSFI-AQGVDVIILAPVVETGWDPV 72 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc-----CCE--EEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCccccchHH
Confidence 488998853 434445555555555553 444 444666667777777788887 67788665 44443333444
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+. ....+++.++.+++...+..+++++... +-++++++..+..........+.|++
T Consensus 73 i~~~~~~~iPvV~~~~~--~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 73 LKEAKAAGIPVILVDRG--VDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHCCCCEEEEecC--cCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 45677889999988754 221 1113467778999999999999999776 78899999765332101345678888
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCC-CCeEEEee
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVT 267 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~~ 267 (771)
.+++.+..++.... .... + ..+..+.+.++.+. .+++|+. .+...+..+++++++.|+.. ++...++.
T Consensus 149 ~l~~~~~~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~~aI~~--~~d~~a~g~~~a~~~~g~~ip~di~iig~ 220 (273)
T cd06309 149 VIKKYPNMKIVASQ--TGDF---T-RAKGKEVMEALLKAHGDDIDAVYA--HNDEMALGAIQAIKAAGKKPGKDIKIVSI 220 (273)
T ss_pred HHHHCCCCEEeecc--CCcc---c-HHHHHHHHHHHHHhCCCCccEEEE--CCcHHHHHHHHHHHHcCCCCCCCeEEEec
Confidence 88876314443211 1111 1 12333444554433 3565544 56666677899999999864 34555554
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 221 d~ 222 (273)
T cd06309 221 DG 222 (273)
T ss_pred CC
Confidence 44
No 130
>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=98.11 E-value=0.0002 Score=73.34 Aligned_cols=205 Identities=19% Similarity=0.221 Sum_probs=131.0
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE--cCCchHhHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi--Gp~~s~~~~~ 112 (771)
+||+++|.. .........+++.++++. |+.+ .+.|+..++....+....++ ++++.++| ++..+ ..
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~---~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH-----GYTL--LVASSGYDLDREYAQARKLL-ERGVDGLALIGLDHS---PA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEE--EEecCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCCC---HH
Confidence 489999864 444556666776666664 3444 45788888888888888888 56777655 33222 23
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC---CCCCCcchHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALL 189 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~---~~g~~~~~~~~l 189 (771)
....+...++|+|..... .+. ...++ +..++...+..+++++...|.+++++|.... .++ ....+.|
T Consensus 70 ~~~~l~~~~iPvv~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf 139 (268)
T cd06273 70 LLDLLARRGVPYVATWNY--SPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRA--RARRAGV 139 (268)
T ss_pred HHHHHHhCCCCEEEEcCC--CCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccH--HHHHHHH
Confidence 345667789999987644 221 22333 5678888999999999778999999998532 234 5667889
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEe
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIV 266 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~ 266 (771)
.+.+++.+ +.+.....+.... + ..+..+.+.++.+ ..+++|+. ++...+..+++++++.|+..+ ....++
T Consensus 140 ~~~l~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~~~~~~l~~~g~~~p~~i~vig 212 (268)
T cd06273 140 RAALAEAG-LELPELWQVEAPY---S-IADGRAALRQLLEQPPRPTAVIC--GNDVLALGALYEARRLGLSVPEDLSIVG 212 (268)
T ss_pred HHHHHHcC-CCCCHHHeeeCCC---c-HHHHHHHHHHHHcCCCCCCEEEE--cChHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 99999887 5543222221111 0 1223445555543 34777665 666777788999999998543 344444
Q ss_pred eC
Q 004136 267 TN 268 (771)
Q Consensus 267 ~~ 268 (771)
.+
T Consensus 213 ~d 214 (268)
T cd06273 213 FD 214 (268)
T ss_pred cC
Confidence 43
No 131
>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=98.10 E-value=0.00028 Score=72.34 Aligned_cols=211 Identities=16% Similarity=0.147 Sum_probs=131.2
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||+++|.. .+.......|++.+.++. |+.+.+...|.. .......+.+++..+++.++|.............
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~ 74 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDT-----GYQLVIEPCDSG--SPDLAERVRALLQRSRVDGVILTPPLSDNPELLD 74 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhC-----CCeEEEEeCCCC--chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHH
Confidence 89999875 556777888888887753 567766655533 2224445565554788998887544332344456
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~ 195 (771)
.+...++|+|..... .+. ...++ +..+....+..+++++...|.++++++..+..+.......+.|++.+++
T Consensus 75 ~~~~~~ipvv~i~~~--~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~ 146 (270)
T cd01545 75 LLDEAGVPYVRIAPG--TPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALAE 146 (270)
T ss_pred HHHhcCCCEEEEecC--CCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHHH
Confidence 677789999988755 322 22233 4567788889999999888999999998655432113446788889888
Q ss_pred cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
.| ..+........... ..+-...+.++.+ .++++|+. ++...+..+++++++.|...+ ....++.+.
T Consensus 147 ~~-~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~~~~~~g~~~p~~i~vig~d~ 216 (270)
T cd01545 147 AG-LPLDPELVAQGDFT----FESGLEAAEALLALPDRPTAIFA--SNDDMAAGVLAVAHRRGLRVPDDLSVVGFDD 216 (270)
T ss_pred cC-CCCChhhEEeCCCC----hhhHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEEECC
Confidence 88 65421111111110 0122234444433 24676665 556777899999999998543 344554444
No 132
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.09 E-value=0.0017 Score=69.22 Aligned_cols=204 Identities=11% Similarity=0.008 Sum_probs=120.6
Q ss_pred CCcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHh
Q 004136 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEE 109 (771)
Q Consensus 32 ~~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~ 109 (771)
..+-+||++.|.. .+.......+++-+.++. |+.+.+...+...+...-.+....++ ++++.+|| .|.....
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-----G~~l~i~~~~~~~~~~~q~~~i~~l~-~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-----GVDLKVLEAGGYYNLAKQQQQLEQCV-AWGADAILLGAVTPDG 117 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-----CCEEEEEcCCCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChHH
Confidence 3578999999875 334445666666666653 45554443222345555556677777 67888666 4444333
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-----CCeEEEEEEEeCCCCCCcc
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-----NWRRVAAIYEDNVYGGDSG 184 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-----~w~~v~ii~~~~~~g~~~~ 184 (771)
..... .+...++|+|..... .. ... ....+..++...++.+++++... |-.+++++..+........
T Consensus 118 ~~~~l-~~~~~giPvV~~~~~--~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 118 LNPDL-ELQAANIPVIALVNG--ID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred hHHHH-HHHHCCCCEEEecCC--CC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 22333 456789999976433 11 111 12346788888888888888554 4679999875432210034
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
..+.|++.+++.| +++.... ..... .+.-...++++.+. ++++|+. +...+..+++.+++.|+..
T Consensus 190 R~~Gf~~~l~~~~-i~~~~~~-~~~~~-----~~~~~~~~~~~l~~~~~~~ai~~---~d~~A~ga~~al~~~g~~~ 256 (343)
T PRK10936 190 VEQGFRAAIAGSD-VRIVDIA-YGDND-----KELQRNLLQELLERHPDIDYIAG---SAVAAEAAIGELRGRNLTD 256 (343)
T ss_pred HHHHHHHHHhcCC-CEEEEee-cCCCc-----HHHHHHHHHHHHHhCCCccEEEe---CCHHHHHHHHHHHhcCCCC
Confidence 5778899998888 7765421 11111 12233444554433 3576643 3456777889999999843
No 133
>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=98.05 E-value=0.00087 Score=68.92 Aligned_cols=213 Identities=9% Similarity=0.059 Sum_probs=128.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v~ 114 (771)
||++.|.. .++-.....+++.+.++....+.| +++.+.+...++....+....++ .+++.+|| .|..........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g--~~~~~~~~~~~~~~~~~~~~~l~-~~~vDgiii~~~~~~~~~~~i 78 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPD--VEFILVTASNDTEQQNAQQDLLI-NRKIDALVILPFESAPLTQPV 78 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCC--eEEEEEcCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCchhhHHHH
Confidence 78888753 444456677777777776554333 55666677667766666666677 67787555 344333333333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
..+...+||+|..... .+ ... .....+.++....+..+++++... +.++++++....... .....+.|.+.
T Consensus 79 ~~~~~~gIpvV~~d~~--~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~-~~~R~~gf~~~ 151 (274)
T cd06311 79 AKAKKAGIFVVVVDRG--LS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPI-DNERVDAFDAA 151 (274)
T ss_pred HHHHHCCCeEEEEcCC--CC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcc-hhHHHHHHHHH
Confidence 4556789999987654 11 111 112246777788888888888665 778999997543321 14457889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
+++.| +++.... .... + .......+.++.+. ++++|+. .+...+..+++++++.|... ....++.+.
T Consensus 152 l~~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~-~~~ivg~d~ 220 (274)
T cd06311 152 IAKYP-IKILDRQ--YANW---N-RDDAFSVMQDLLTKFPKIDAVWA--HDDDMAVGVLAAIKQAGRTD-IKFVVGGAG 220 (274)
T ss_pred HhhCC-cEEEecc--CCCC---c-HHHHHHHHHHHHHhCCCcCEEEE--CCCcHHHHHHHHHHHcCCCC-CceEEEeCC
Confidence 99888 7665421 1111 1 12223444444333 4666555 45555778899999999764 234444444
No 134
>PRK09701 D-allose transporter subunit; Provisional
Probab=98.04 E-value=0.0025 Score=66.84 Aligned_cols=217 Identities=10% Similarity=0.018 Sum_probs=126.2
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
+||+++|.. .++......+++-+.++. |+++.+...+...+.....+....++ .+++.+||- +..+......
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-----GVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-----CCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChHHHHHH
Confidence 699999864 444455666666665543 56666654455567777777777887 677886653 3333322222
Q ss_pred HHhhccCCccEEeecCCCCCCC--ccCCCCceEEEeecCcHHHHHHHHHHHHH-cCC--eEEEEEEEeCCCCCCcchHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPL--SMSRRWPYLIRMASNDSEQMKCIADLARK-YNW--RRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~--l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w--~~v~ii~~~~~~g~~~~~~~~ 188 (771)
...+...++|+|..... .+. +.....+....+..+....+..+++++.. .+- ++++++.............+.
T Consensus 100 l~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 100 VARAWKKGIYLVNLDEK--IDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHCCCcEEEeCCC--CCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 33445689999988754 221 11111123345778888889999998854 353 689988654332111455688
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
|++.+++.|.+++.... .... + ..+-...++++.+. ++++|+ +.+...+..+++++++.|... +...++
T Consensus 178 f~~al~~~~~~~~~~~~--~~~~---~-~~~~~~~~~~ll~~~~~~~~I~--~~~d~~A~g~~~al~~~G~~~-dv~vvg 248 (311)
T PRK09701 178 ATEAFKKASQIKLVASQ--PADW---D-RIKALDVATNVLQRNPNIKAIY--CANDTMAMGVAQAVANAGKTG-KVLVVG 248 (311)
T ss_pred HHHHHHhCCCcEEEEec--CCCC---C-HHHHHHHHHHHHHhCCCCCEEE--ECCcchHHHHHHHHHHcCCCC-CEEEEE
Confidence 88888876523332211 1111 1 12233444555433 356544 466677888999999999863 344444
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 249 ~d~ 251 (311)
T PRK09701 249 TDG 251 (311)
T ss_pred eCC
Confidence 443
No 135
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.98 E-value=0.0022 Score=67.64 Aligned_cols=219 Identities=12% Similarity=0.124 Sum_probs=139.9
Q ss_pred cEEEEEEEeCCC-cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeE-EEEcCCchHhHH
Q 004136 34 VTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETA 111 (771)
Q Consensus 34 ~I~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~-aviGp~~s~~~~ 111 (771)
..+||++.+..+ ++...+..+++-+.+++ |....+...|...++..-.+.+.+++ .+++. .++.|.++....
T Consensus 33 ~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~-----g~~~~~~~~~~~~d~~~Q~~~i~~~i-a~~~daIiv~~~d~~~~~ 106 (322)
T COG1879 33 GKTIGVVVPTLGNPFFQAVRKGAEAAAKKL-----GVVVAVVIADAQNDVAKQIAQIEDLI-AQGVDAIIINPVDPDALT 106 (322)
T ss_pred CceEEEEeccCCChHHHHHHHHHHHHHHHc-----CCcEEEEecccccChHHHHHHHHHHH-HcCCCEEEEcCCChhhhH
Confidence 388999998773 34444555555555444 22567777888899999999999998 78887 455788888888
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHH-HcCC-eEEEEEEEeCCCCCCcchHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-KYNW-RRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~-~~~w-~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.....+...+||+|..... .+.- .+....+..+....++..++++. +++- -++.++........+....+.+
T Consensus 107 ~~v~~a~~aGIpVv~~d~~--~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 107 PAVKKAKAAGIPVVTVDSD--IPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred HHHHHHHHCCCcEEEEecC--CCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 9999999999999998866 2221 23444455577777777788773 3432 3466666543322125567889
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
++.+++.+ ..+........+. + .+.-......+.++.+++-.++..+...+....+++++.|..+. ...++.+.
T Consensus 181 ~~~l~~~~-~~~~v~~~~~~~~---~-~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~~-v~v~g~D~ 254 (322)
T COG1879 181 RDALKEHP-PDIEVVDVQTGDW---D-RDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKGD-VVVVGFDG 254 (322)
T ss_pred HHHHHhCC-CcEEEeeccCCcc---c-HHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCCc-eEEEEecC
Confidence 99999887 4322222122111 1 13344555666666777766634555556566778888888773 33334444
Q ss_pred c
Q 004136 270 V 270 (771)
Q Consensus 270 ~ 270 (771)
.
T Consensus 255 ~ 255 (322)
T COG1879 255 T 255 (322)
T ss_pred C
Confidence 3
No 136
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.97 E-value=0.00084 Score=68.92 Aligned_cols=209 Identities=12% Similarity=0.078 Sum_probs=129.1
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcC-CchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp-~~s~~~~~v 113 (771)
+||+++|.. .++......+++-+.++. |+.+ .+.++..++....+....++ .+++.++|.. ..+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~l~~~~-~~~vdgii~~~~~~~~~~~~ 72 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL-----GGDL--RVYDAGGDDAKQADQIDQAI-AQKVDAIIIQHGRAEVLKPW 72 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc-----CCEE--EEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhhHHH
Confidence 488998854 344456667776666664 4444 44677888888888888888 6789988764 333333444
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH--cCCeEEEEEEEeCC-CCCCcchHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNV-YGGDSGKLALLA 190 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~--~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (771)
...+...++|+|..... .+. +.+..+..++...++.+++++.. .+.++++++...+. .. ....+.++
T Consensus 73 i~~~~~~~ipvV~~~~~--~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~g~~ 142 (273)
T cd06305 73 VKRALDAGIPVVAFDVD--SDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPL--DRRYDVWQ 142 (273)
T ss_pred HHHHHHcCCCEEEecCC--CCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchH--HHHHHHHH
Confidence 55677889999988754 221 23345777888899989998866 58899999975421 22 33456777
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc----eEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS----RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~----~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+.+++.+...+.......... ..++....++++.+..+ ++|+. .+...+..+++++++.|+.. +...++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~-di~iig 215 (273)
T cd06305 143 AVLKAYPGIKEVAELGDVSNN----TAQDAAAQVEAVLKKYPKGGIDAIWA--AWDEFAKGAKQALDEAGRTD-EIKIYG 215 (273)
T ss_pred HHHHHCCCcEEeccccccccc----chhHHHHHHHHHHHHCCCcccCeEEE--cChhhhHHHHHHHHHcCCCC-CceEEE
Confidence 777765512222211111011 11234445555554444 44444 56667788899999999864 344555
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 216 ~d~ 218 (273)
T cd06305 216 VDI 218 (273)
T ss_pred ecC
Confidence 444
No 137
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.96 E-value=0.0022 Score=67.83 Aligned_cols=207 Identities=13% Similarity=0.106 Sum_probs=115.7
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~ 110 (771)
.+.+||++.|.. .+...+...+++-+.++. +++ .+.+.++..++....+....++ .++|.++|= +..+...
T Consensus 23 ~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~----g~~--~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~ 95 (330)
T PRK15395 23 ADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA----PDV--QLLMNDSQNDQSKQNDQIDVLL-AKGVKALAINLVDPAAA 95 (330)
T ss_pred CCceEEEEEecCcchHHHHHHHHHHHHHHhc----CCe--EEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEeccCHHHH
Confidence 568899999843 333344555555554443 223 4455666667766666677776 678886664 3333333
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc------------CCeEEEEEEEeCC
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------------NWRRVAAIYEDNV 178 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~------------~w~~v~ii~~~~~ 178 (771)
......+...++|+|..... .+.-.-...+-...+..++...++.+++++.++ +-.++++|.....
T Consensus 96 ~~~l~~l~~~giPvV~vd~~--~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~ 173 (330)
T PRK15395 96 PTVIEKARGQDVPVVFFNKE--PSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEPG 173 (330)
T ss_pred HHHHHHHHHCCCcEEEEcCC--ccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCCC
Confidence 44445567789999998754 211000111223346677777777766655332 3233454543322
Q ss_pred --CCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC----CceEEEEEecChhHHHHHHHHH
Q 004136 179 --YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEA 252 (771)
Q Consensus 179 --~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~----~~~vIv~~~~~~~~~~~il~~a 252 (771)
.. ....+.+++.+++.| +.+.... ...... + ...-.+.++++.+. .+++|+. ++...+..+++++
T Consensus 174 ~~~~--~~R~~G~~~al~~~g-~~~~~~~-~~~~~~--~-~~~a~~~~~~~l~~~~~~~~~ai~~--~~d~~A~gvl~al 244 (330)
T PRK15395 174 HPDA--EARTTYVIKELNDKG-IKTEQLQ-LDTAMW--D-TAQAKDKMDAWLSGPNANKIEVVIA--NNDAMAMGAVEAL 244 (330)
T ss_pred CchH--HHHHHHHHHHHHhcC-CCeeeee-cccCCc--C-HHHHHHHHHHHHhhCcCCCeeEEEE--CCchHHHHHHHHH
Confidence 22 445788899998888 6544321 111110 1 12223344454432 3565554 6667778899999
Q ss_pred HHcCC
Q 004136 253 NRMGL 257 (771)
Q Consensus 253 ~~~g~ 257 (771)
++.|+
T Consensus 245 ~~~Gl 249 (330)
T PRK15395 245 KAHNK 249 (330)
T ss_pred HhcCC
Confidence 99997
No 138
>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=97.95 E-value=0.00072 Score=69.19 Aligned_cols=208 Identities=16% Similarity=0.138 Sum_probs=130.2
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+++|.. .+.......+++-+.++. |+.+.+. .+..++....+...+++ +.+++++|-..+. ......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~~~~~~ 71 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-----KYNIILS--NSDNDKEKELKVLNNLL-AKQVDGIIFMGGK-ISEEHR 71 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-----CCeEEEE--eCCCCHHHHHHHHHHHH-HhcCCEEEEeCCC-CcHHHH
Confidence 378998864 344455566666655553 4555544 44556777777777777 6788877732221 122344
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~l~~ 191 (771)
..+...++|+|..... .+ ....+ .+.+++...+..+++++...|-++++++..+.. ++ ....+.|++
T Consensus 72 ~~l~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~--~~r~~gf~~ 141 (268)
T cd06298 72 EEFKRSPTPVVLAGSV--DE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSING--DERLAGYKE 141 (268)
T ss_pred HHHhcCCCCEEEEccc--cC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccch--hHHHHHHHH
Confidence 4556679999988754 21 12223 367788888899999998888899999985433 44 667888999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC-ceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
.+++.| .++.......... +. ......++++.+.. +++|+. ++...+..+++++++.|+..+ +..+++.+.
T Consensus 142 ~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~di~vvg~d~ 214 (268)
T cd06298 142 ALSEAN-IEFDESLIFEGDY---TY-ESGYELAEELLEDGKPTAAFV--TDDELAIGILNAAQDAGLKVPEDFEIIGFNN 214 (268)
T ss_pred HHHHcC-CCCCHHHeEeCCC---Ch-hHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEEEeecc
Confidence 999888 6543211111111 10 22334555655444 677666 555557789999999998643 445555544
No 139
>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=97.94 E-value=0.0017 Score=67.04 Aligned_cols=216 Identities=13% Similarity=0.070 Sum_probs=122.0
Q ss_pred EEEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCC--CCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~--~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
|||+++|.. .+.......+++.+.++ . |+.+.+...++. .++..-.+....++ ++++.+||-...+....
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~---~--g~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEE---L--NIPYELTQFSSRPGIDHRLQSQQLNEAL-QSKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHH---c--CCcEEEEEeccCcccCHHHHHHHHHHHH-HcCCCEEEEcCCchhhH
Confidence 589999873 23333333444433333 2 567776654443 35566666666777 78888777533222222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH--cCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~--~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.....+...++|.|...... .+.......+....+.+++...+..+++++.. .+.++++++........ ....+.|
T Consensus 75 ~~~~~l~~~~~p~V~i~~~~-~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~-~~R~~gf 152 (280)
T cd06303 75 KLIERVLASGKTKIILQNIT-TPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYIS-TARGDTF 152 (280)
T ss_pred HHHHHHHhCCCCeEEEeCCC-CCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcch-hHHHHHH
Confidence 22233444577766553220 12100001122344677888888888998876 78899999976432221 4457888
Q ss_pred HHHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 190 ~~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
++.+++. | +++... ..... + ..+....+.++.+. ++++|+. ++...+..+++++++.|+. ++...++
T Consensus 153 ~~al~~~~~-~~~~~~--~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~l~al~~~G~~-~dv~vvg 222 (280)
T cd06303 153 IDCVHARNN-WTLTSE--FYTDA---T-RQKAYQATSDILSNNPDVDFIYA--CSTDIALGASDALKELGRE-DDILING 222 (280)
T ss_pred HHHHHhCCC-ceEEEe--ecCCC---C-HHHHHHHHHHHHHhCCCCcEEEE--CCcHHHHHHHHHHHHcCCC-CCcEEEe
Confidence 9999887 6 654322 11111 1 12233445555433 3566554 6667777899999999986 4455555
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 223 ~d~ 225 (280)
T cd06303 223 WGG 225 (280)
T ss_pred cCC
Confidence 544
No 140
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=97.90 E-value=0.00013 Score=75.63 Aligned_cols=94 Identities=18% Similarity=0.144 Sum_probs=57.5
Q ss_pred CCChhHhhhCCceEEEe-cChHHH-----HHHHHhcCCCCC---CcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHH
Q 004136 673 VTDIQSLKSGNLKVGCV-DDSFVK-----KYLEEVLGFRSG---NIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLD 743 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~-~~s~~~-----~~l~~~~~~~~~---~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~ 743 (771)
|++++||. |.++|+. .++... ..+.+..+.... ....+..+..+.+++|.+|++|+.+.+...+..+++
T Consensus 127 i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~vDa~~~~~~~~~~~~~ 204 (288)
T TIGR03431 127 IKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRMIR 204 (288)
T ss_pred CCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCCCCeEeccHHHHHHHHH
Confidence 89999996 8999975 333322 122222222211 123344227889999999999999999888887776
Q ss_pred hc-C---CceeEee-eeeeceEEEEEecCC
Q 004136 744 KY-C---KKYTAIN-TYRFGGLGFVSNIIY 768 (771)
Q Consensus 744 ~~-c---~~l~~~~-~~~~~~~g~~~~k~s 768 (771)
+. . ..+++.. .......+++++++-
T Consensus 205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (288)
T TIGR03431 205 KGQPDAMEDLRIIWKSPLIPNGPIVYRKDL 234 (288)
T ss_pred cCCCCchhheEEEEEcCCCCCCcEEEeCCC
Confidence 32 2 1244443 222335678888873
No 141
>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=97.89 E-value=0.0023 Score=66.86 Aligned_cols=219 Identities=9% Similarity=0.088 Sum_probs=125.3
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
|||++.|.. .++......+++.+.++. +..+++.+.+...++..-.+....++ .+++.++| .|..+......
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~-----~~g~~~~~~~~~~~~~~q~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 74 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN-----GGKVEFTFYDAKNNQSTQNEQIDTAL-AKGVDLLAVNLVDPTAAQTV 74 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh-----CCCeeEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEecCchhhHHHH
Confidence 589999864 344455666666666665 12355666677778887777788887 67888655 45444434455
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCe-----------EEEEEEEeCCCC
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWR-----------RVAAIYEDNVYG 180 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~-----------~v~ii~~~~~~g 180 (771)
...+...++|+|..... .+...-...+-+..+.++....+..+++++... +-+ .++++..+....
T Consensus 75 ~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 75 INKAKQKNIPVIFFNRE--PEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHCCCCEEEeCCC--CcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 56667789999987654 221111112224457778777778888877543 221 234454432221
Q ss_pred CCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 181 ~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
......+.+++.+++.| ..+.......... + .......+.++.+. .+++|+. .+...+..+++++++.|.
T Consensus 153 ~~~~R~~gf~~~l~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~L~~~~~~~~ai~~--~~d~~a~g~~~al~~~g~ 225 (303)
T cd01539 153 DAIARTKYSIETLNDAG-IKTEELASDTANW---D-RAQAKDKMDALLLKYGDKIEAVIA--NNDAMALGAIEALQKYGY 225 (303)
T ss_pred hhhhhhhhHHHHHHhcC-CCeEEEEeecCCC---C-HHHHHHHHHHHHHhcCCCccEEEE--CCchHHHHHHHHHHHcCC
Confidence 01344677889998888 5543221111111 1 01223344444322 2566554 555666678899999998
Q ss_pred CCC----CeEEEeeCc
Q 004136 258 VGK----DSVWIVTNT 269 (771)
Q Consensus 258 ~~~----~~~~i~~~~ 269 (771)
..+ +...++.+.
T Consensus 226 ~~p~~~~di~iig~d~ 241 (303)
T cd01539 226 NKGDKSKNIPVVGVDA 241 (303)
T ss_pred CcCCCCCceEEEccCC
Confidence 653 455555444
No 142
>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=97.89 E-value=0.0028 Score=64.84 Aligned_cols=202 Identities=15% Similarity=0.110 Sum_probs=123.7
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v~ 114 (771)
||++.|.. .++..+...+++.+.++ . |+.+ .+.++..++....+...+++ ++++.++|- |..+.......
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~---~--g~~~--~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~~~~~~~~~~ 73 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK---Q--KVNL--IVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPVDSKGIRAAI 73 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh---c--CCEE--EEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChhhhHHHH
Confidence 78888875 23334555555555554 2 4444 45666677877778788887 678887765 44433333334
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcchHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLAE 191 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l~~ 191 (771)
..+...++|+|..... .+ ..+.+..+.++....+..+++++... |-+++++++..+. .. ....+.+++
T Consensus 74 ~~~~~~~ipvV~~~~~--~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~gf~~ 144 (267)
T cd06322 74 AKAKKAGIPVITVDIA--AE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSV--VDRVRGFKE 144 (267)
T ss_pred HHHHHCCCCEEEEccc--CC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccH--HHHHHHHHH
Confidence 5566789999988643 11 11233457788878888888888664 7789999975432 22 445688889
Q ss_pred HHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 192 ~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+++. | +++.... ... +. +.....+.++.+. ++++|+. ++...+..+++++++.|. ++...++.
T Consensus 145 ~~~~~~~-~~~~~~~---~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~--~di~vvg~ 211 (267)
T cd06322 145 ALADYPN-IKIVAVQ---PGI---TR-AEALTAAQNILQANPDLDGIFA--FGDDAALGAVSAIKAAGR--DNVKVIGF 211 (267)
T ss_pred HHHhCCC-cEEEEec---CCC---Ch-HHHHHHHHHHHHhCCCCCEEEE--cCCcHHHHHHHHHHHCCC--CCeEEEEe
Confidence 99888 8 7653221 111 10 2223334444332 4666554 666667788999999998 33444443
No 143
>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=97.88 E-value=0.0023 Score=65.55 Aligned_cols=211 Identities=14% Similarity=0.127 Sum_probs=126.4
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
+||+++|.. .+.......+++.+.++. +|+.+ .+.++..++..-.+...+++ .+++.+||- |.........
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~----~g~~~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 73 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY----PDVEL--IIADAADDNSKQVADIENFI-RQGVDLLIISPNEAAPLTPV 73 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc----CCcEE--EEEcCCCCHHHHHHHHHHHH-HhCCCEEEEecCchhhchHH
Confidence 589999853 333344444444443332 24555 44566667777777777777 677776553 3333322333
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+ +. .....+..++...+..+++++.+. |-++++++.............+.+++
T Consensus 74 ~~~~~~~~ipvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 74 VEEAYRAGIPVILLDRK--IL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHCCCCEEEeCCC--CC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 34456689999987743 11 11 223357788888899999988764 88999999754332211345688899
Q ss_pred HHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 192 ~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
.+++. | +++.... .... + ..+....+.++.++ ++++|+. .+...+..+++++++.|+. ++...++.+
T Consensus 147 ~l~~~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPK-IKIVAQQ--DGDW---L-KEKAEEKMEELLQANPDIDLVYA--HNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCC-CEEEEec--CCCc---c-HHHHHHHHHHHHHhCCCCcEEEe--CCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99988 8 7654321 1111 1 01222334444322 4676554 6677777899999999987 555556555
Q ss_pred cc
Q 004136 269 TV 270 (771)
Q Consensus 269 ~~ 270 (771)
..
T Consensus 217 ~~ 218 (270)
T cd06308 217 GL 218 (270)
T ss_pred CC
Confidence 53
No 144
>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=97.87 E-value=0.00081 Score=68.78 Aligned_cols=209 Identities=11% Similarity=0.107 Sum_probs=130.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++.+.++. |+++ .+.++..++..-.+...+++ ++++.++|...+........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-----g~~~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 72 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-----GYTV--FLANSGEDVERQEQLLSTML-EHGVAGIILCPAAGTSPDLL 72 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCccHHHH
Confidence 378999864 445566777777777764 4554 44566667777777778877 68888877654433333345
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .+. ...+ .+.++....+..+++++...|-++++++..+.. .. ....+.|.+.
T Consensus 73 ~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~ 142 (268)
T cd06289 73 KRLAESGIPVVLVARE--VAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTR--RERLAGYRAA 142 (268)
T ss_pred HHHHhcCCCEEEEecc--CCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccch--HHHHHHHHHH
Confidence 5677889999987644 221 2222 366777888888999888888899999875433 33 5567889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
+++.| ..+.....+....+ .......+.++.+. .+++|+. .+...+..+++++++.|+..+ ....++.+.
T Consensus 143 l~~~~-~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~p~di~iig~d~ 215 (268)
T cd06289 143 LAEAG-LPFDSELVVEGPPS----RQGGAEAVAQLLDLPPRPTAIVC--FNDLVAFGAMSGLRRAGLTPGRDIAVVGFDD 215 (268)
T ss_pred HHHcC-CCCCchhEEecCcc----hhhHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEeecC
Confidence 98877 44322111111110 02233444444333 4576555 556667778999999998643 344444443
No 145
>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=97.87 E-value=0.0017 Score=66.53 Aligned_cols=207 Identities=12% Similarity=0.052 Sum_probs=129.0
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
+||+++|.. .++-.+...+++-+.++.+ ..+.+.+.++..++..-.+....++ .+++.++| .|.........
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN-----PGVKVTVVSADYDLNKQVSQIDNFI-AAKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC-----CCeEEEEccCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChhHhHHH
Confidence 489999865 4445566777777777652 2345566677777776667777777 67787554 44333323333
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcchHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLA 190 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (771)
...+...++|+|..... .+ + . ...+..++...++.+++++... |.++++++..... .. ....+.++
T Consensus 75 i~~~~~~~ipvv~~~~~--~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~--~~R~~g~~ 143 (271)
T cd06321 75 VKRAQAAGIVVVAVDVA--AE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAV--LDRVAGCK 143 (271)
T ss_pred HHHHHHCCCeEEEecCC--CC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchH--HHHHHHHH
Confidence 34556679999998765 22 1 1 1246788888889999999776 8899999976533 22 45568888
Q ss_pred HHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 191 ~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
+.+++. + ++..... ..... +. ..-...+.++.+. .+++|+. .+...+..+++++++.|+ .+..+++.
T Consensus 144 ~~~~~~~~-~~~~~~~-~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~--~di~v~g~ 213 (271)
T cd06321 144 AALAKYPG-IKLLSDD-QNGKG---SR-DGGLRVMQGLLTRFPKLDGVFA--INDPTAIGADLAAKQAGR--NDIKITSV 213 (271)
T ss_pred HHHHhCCC-cEEEeee-cCCCC---Ch-hhHHHHHHHHHHhCCCCCEEEE--CCchhHHHHHHHHHHcCC--CCcEEEEe
Confidence 888887 5 5432211 11111 11 1122344454433 4676555 566677788999999998 34555555
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 214 d~ 215 (271)
T cd06321 214 DG 215 (271)
T ss_pred cC
Confidence 44
No 146
>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=97.86 E-value=0.0015 Score=66.78 Aligned_cols=209 Identities=11% Similarity=0.096 Sum_probs=124.4
Q ss_pred EEEEEeCC-----CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 37 IGAIVDAN-----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 37 IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
||+++|.. .+....+..+++.+.++ . |+.+.+...+.. ....+.+.+++.++++.++|...+....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~--g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~~~- 72 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H--GYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRPDD- 72 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C--CceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCCCC-
Confidence 78999863 34445555566555544 2 566666544432 3344556677656678877754332222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
.....+...++|+|..... .+ ...+++ +.+++...+..+++++...|.++++++.............+.|++
T Consensus 73 ~~~~~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 144 (268)
T cd06271 73 PRVALLLERGFPFVTHGRT--EL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRR 144 (268)
T ss_pred hHHHHHHhcCCCEEEECCc--CC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHH
Confidence 2234556789999987644 22 123444 557778888888999888899999999754332100455788999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
.+++.| ..+.....+.... + .....+.++++.+. .+++|+. ++...+..+++++++.|+..+ ....++.+
T Consensus 145 ~~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp~~i~iig~d 217 (268)
T cd06271 145 ALAEAG-LPLDPALIVSGDM---T-EEGGYAAAAELLALPDRPTAIVC--SSELMALGVLAALAEAGLRPGRDVSVVGFD 217 (268)
T ss_pred HHHHhC-CCCCCceEEeCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHhCCCCCcceeEEEec
Confidence 999888 6542221222111 1 12233445555433 3677666 556667789999999998644 34444444
Q ss_pred c
Q 004136 269 T 269 (771)
Q Consensus 269 ~ 269 (771)
.
T Consensus 218 ~ 218 (268)
T cd06271 218 D 218 (268)
T ss_pred C
Confidence 3
No 147
>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=97.85 E-value=0.0012 Score=67.50 Aligned_cols=205 Identities=13% Similarity=0.092 Sum_probs=124.8
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. .+.-.....+++-|.++. |+.+ .+.|+..++....+....++ .+++.++|......... ...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~~~~~~-~~~ 72 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA-----GYGV--LLGDTRSDPEREQEYLDLLR-RKQADGIILLDGSLPPT-ALT 72 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHH-HcCCCEEEEecCCCCHH-HHH
Confidence 78888875 344456666666666663 4444 55677777776666666666 78899777632222222 222
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCCCCcchHHHHHHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--VYGGDSGKLALLAEAL 193 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~--~~g~~~~~~~~l~~~~ 193 (771)
.. ..++|+|..... .+ . +.+..+..+....++.+++++...|.++++++..+. ..+ ....+.|++.+
T Consensus 73 ~~-~~~ipvv~~~~~--~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~~ 141 (267)
T cd06284 73 AL-AKLPPIVQACEY--IP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLA--RDRLEGYRQAL 141 (267)
T ss_pred HH-hcCCCEEEEecc--cC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhH--HHHHHHHHHHH
Confidence 33 349999976533 11 1 223346778888899999999888999999997642 234 55678899999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
++.| +++.......... + .++....+.++.+. .+++|+. ++...+..+++++++.|...+ +...++.+
T Consensus 142 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~al~~~g~~~p~~v~v~g~d 212 (267)
T cd06284 142 AEAG-LPADEELIQEGDF---S-LESGYAAARRLLALPDRPTAIFC--FSDEMAIGAISALKELGLRVPEDISVVGFD 212 (267)
T ss_pred HHcC-CCCCcceEEeCCC---C-hHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCccceeEEEeC
Confidence 9887 5433211111111 1 02233444554333 4677666 455567788999999998643 33444443
No 148
>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=97.83 E-value=0.00071 Score=69.60 Aligned_cols=202 Identities=14% Similarity=0.118 Sum_probs=132.8
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+++|.. .+...+...+++-+.++- |+.+-+ .++..++..- +....|. +++|.++|-.........+.
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~-----Gy~l~l--~~t~~~~~~e-~~i~~l~-~~~vDGiI~~s~~~~~~~l~ 73 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH-----GYQLLL--CNTGDDEEKE-EYIELLL-QRRVDGIILASSENDDEELR 73 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT-----TCEEEE--EEETTTHHHH-HHHHHHH-HTTSSEEEEESSSCTCHHHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc-----CCEEEE--ecCCCchHHH-HHHHHHH-hcCCCEEEEecccCChHHHH
Confidence 699999987 344455555665555553 565544 5566666666 6666665 78898777443333335566
Q ss_pred HhhccCCccEEeecCCCCCCCccCC-CCceEEEeecCcHHHHHHHHHHHHHcCCeE-EEEEEEeCCCCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRR-VAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~-~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~-v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
.+.+. ++|+|..... . ... ..|+ +..++..-+..++++|...|-++ |+++..+.....-....+.++++
T Consensus 74 ~~~~~-~iPvV~~~~~--~---~~~~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~A 144 (279)
T PF00532_consen 74 RLIKS-GIPVVLIDRY--I---DNPEGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDA 144 (279)
T ss_dssp HHHHT-TSEEEEESS---S---CTTCTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHH
T ss_pred HHHHc-CCCEEEEEec--c---CCcccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHH
Confidence 66666 9999987755 1 112 3444 45667888888999999999999 99999876532004456779999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce--EEEEEecChhHHHHHHHHHHHcC-CCCCCe
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR--VFIVLQASLDMTIHLFTEANRMG-LVGKDS 262 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~--vIv~~~~~~~~~~~il~~a~~~g-~~~~~~ 262 (771)
+++.| +.+.......... +.++-...++++.+.+|+ +|+. ++..-+..+++++++.| ...+.-
T Consensus 145 l~~~G-l~~~~~~i~~~~~----~~~~g~~~~~~ll~~~p~idai~~--~nd~~A~ga~~~l~~~gr~~ip~d 210 (279)
T PF00532_consen 145 LKEAG-LPIDEEWIFEGDF----DYESGYEAARELLESHPDIDAIFC--ANDMMAIGAIRALRERGRLKIPED 210 (279)
T ss_dssp HHHTT-SCEEEEEEEESSS----SHHHHHHHHHHHHHTSTT-SEEEE--SSHHHHHHHHHHHHHTT-TCTTTE
T ss_pred HHHcC-CCCCcccccccCC----CHHHHHHHHHHHHhhCCCCEEEEE--eCHHHHHHHHHHHHHcCCcccChh
Confidence 99999 7555443332222 113344556666666666 7655 88888999999999999 766643
No 149
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.79 E-value=0.012 Score=62.35 Aligned_cols=201 Identities=9% Similarity=0.017 Sum_probs=115.9
Q ss_pred EEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHH
Q 004136 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (771)
Q Consensus 35 I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~ 112 (771)
.+|+++.... .++......|++.+.++. |+++.+. ..+..+...-.+...+++ .+++.+|+- |..+.....
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-----G~~v~~~-~~~~~d~~~q~~~i~~li-~~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL-----GVDVTYD-GPTEPSVSGQVQLINNFV-NQGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh-----CCEEEEE-CCCCCCHHHHHHHHHHHH-HcCCCEEEEecCCHHHHHH
Confidence 4799888655 455556667777766654 4566542 334556666677788888 788886664 555554456
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeec-CcHHHHHHHHHHHHHc---CCeEEEEEEEeCCCCCCcchHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLARKY---NWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p-~~~~~~~a~~~~l~~~---~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
....+...+||+|..... .+. .. . .+-+.. ++...++.+++++.+. +-.+++++........+....+.
T Consensus 97 ~l~~a~~~gIpVV~~d~~--~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 97 ALKRAMQRGVKVLTWDSD--TKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHCCCeEEEeCCC--CCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 667778889999998765 221 11 1 122232 3346777777777442 34688888754322111334566
Q ss_pred HHHHHhcc--CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc--eEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 189 LAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS--RVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 189 l~~~~~~~--g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~--~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
+++.+++. + ++++... +... + ...-.+.++.+.++.+ ++|+. .+...+...++++++.|..
T Consensus 170 ~~~~l~~~~p~-~~vv~~~-~~~~----d-~~~a~~~~~~lL~~~pdi~aI~~--~~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPG-WEIVTTQ-FGYN----D-ATKSLQTAEGILKAYPDLDAIIA--PDANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCC-CEEEeec-CCCC----c-HHHHHHHHHHHHHHCCCCcEEEE--CCCccHHHHHHHHHhCCCC
Confidence 77777543 4 5554332 1111 1 1223334555555444 45544 3444444678888888864
No 150
>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=97.78 E-value=0.0018 Score=65.79 Aligned_cols=200 Identities=14% Similarity=0.115 Sum_probs=127.2
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||+++|.- .+.......+++.+.++. |+++. +.++..++..-.+..++++ .+++.++|...... ......
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~~~-~~~~~~ 72 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-----GYQML--LMNTNFSIEKEIEALELLA-RQKVDGIILLATTI-TDEHRE 72 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-----CCEEE--EEeCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCC-CHHHHH
Confidence 78888754 445566777777777653 45554 4455667877778888887 78898887643322 234445
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEe-CC--CCCCcchHHHHHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-NV--YGGDSGKLALLAEA 192 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~-~~--~g~~~~~~~~l~~~ 192 (771)
.+...++|+|..... .+ . +..+..+....+..+++++.+.+-++++++... .. .+ ....+.|++.
T Consensus 73 ~~~~~~ipvv~~~~~--~~-----~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~--~~r~~gf~~~ 140 (259)
T cd01542 73 AIKKLNVPVVVVGQD--YP-----G---ISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVG--ILRKQGYLDA 140 (259)
T ss_pred HHhcCCCCEEEEecc--CC-----C---CCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhH--HHHHHHHHHH
Confidence 566679999988754 22 2 223677888889999999988888999999643 22 22 4556889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC-ceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+++.| .... .. .....+. ..-.+.+.++.+.. +++|+. ++...+..+++.+++.|+..++-+.+.
T Consensus 141 ~~~~~-~~~~-~~-~~~~~~~----~~~~~~~~~~l~~~~~~~i~~--~~d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 141 LKEHG-ICPP-NI-VETDFSY----ESAYEAAQELLEPQPPDAIVC--ATDTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HHHcC-CChH-He-eeccCch----hhHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 99888 5111 11 1111100 22334454554444 677666 556677889999999998754323333
No 151
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.76 E-value=0.0095 Score=63.00 Aligned_cols=202 Identities=9% Similarity=-0.013 Sum_probs=122.8
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~ 110 (771)
+..+||++.|.. .++......+++-+.++. |+.+. +.++..++..-.+....++ ++++.++|= +......
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~-----g~~l~--i~~~~~~~~~~~~~i~~l~-~~~vDGiIi~~~~~~~~ 95 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESL-----GAKVF--VQSANGNEETQMSQIENMI-NRGVDVLVIIPYNGQVL 95 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHc-----CCEEE--EECCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhhH
Confidence 568999999865 555666666776666654 44544 4566677777777777777 678887654 3222222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLA 187 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~ 187 (771)
......+...++|+|..... .+ .. +....+.+++...++.++++|...+.++++++..... .. ....+
T Consensus 96 ~~~l~~~~~~~iPvV~id~~--~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~--~~R~~ 166 (330)
T PRK10355 96 SNVIKEAKQEGIKVLAYDRM--IN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNA--KLFRA 166 (330)
T ss_pred HHHHHHHHHCCCeEEEECCC--CC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccH--HHHHH
Confidence 34445667789999987643 11 11 1223588899999999999997777788776553221 22 34467
Q ss_pred HHHHHHhcc---CCeEEEEeeecCCCCCCCCchHHHHHHHHHhh-h--CCceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 188 LLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-D--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 188 ~l~~~~~~~---g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~-~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
.+++.+++. |.+.+.... ..... + ..+-...++++. + ..+++|+. .+...+..++++++++|+.
T Consensus 167 gf~~~l~~~~~~~~i~~~~~~-~~~~~---~-~~~~~~~~~~lL~~~~~~~~aI~~--~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 167 GQMKVLKPYIDSGKIKVVGDQ-WVDGW---L-PENALKIMENALTANNNKIDAVVA--SNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHhhhccCCCeEEeccc-CCCCC---C-HHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 777777653 202322111 11011 1 122334444443 2 24676554 6667777899999999986
No 152
>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=97.76 E-value=0.0039 Score=64.59 Aligned_cols=216 Identities=13% Similarity=0.078 Sum_probs=125.8
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
+||+++|.. .+.......+++.+.++. |+++ .+.++. ++....+...+++ ..++.++|= +..+......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~-~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 71 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-----GFTV--VKIDVP-DGEKVLSAIDNLG-AQGAKGFVICVPDVKLGPAI 71 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-----CCEE--EEccCC-CHHHHHHHHHHHH-HcCCCEEEEccCchhhhHHH
Confidence 589999854 345556667777777763 4554 455665 6666666777777 678886664 3333334455
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHH----HcCC--eEEEEEEE-eC--CCCCCcc
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR----KYNW--RRVAAIYE-DN--VYGGDSG 184 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~----~~~w--~~v~ii~~-~~--~~g~~~~ 184 (771)
...+...++|+|..... .+.......+.+-.+..+....+..+++++. ..|+ ++++++.. .. ... ..
T Consensus 72 ~~~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~--~~ 147 (289)
T cd01540 72 VAKAKAYNMKVVAVDDR--LVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTA--KP 147 (289)
T ss_pred HHHHHhCCCeEEEecCC--CcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcch--hh
Confidence 56677899999987644 2211100112233466677777776666553 3566 68888753 22 234 55
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceE-EEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRV-FIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~v-Iv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
..+.+++.+++.| +............ .+. ..-...++++.++. ++. .++ +.+...+..+++++++.|..+++
T Consensus 148 R~~G~~~~l~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~~~~i~-~~~d~~a~g~~~al~~~g~~~~d 222 (289)
T cd01540 148 RTDGALEALKAPG-FPEANIFQAPQKT--TDT-EGAFDAAASTLTKNPNVKNWIIY-GLNDETVLGAVRATEQSGIAAAD 222 (289)
T ss_pred HHHHHHHHHhcCC-CCcceEecccccC--cch-hhHHHHHHHHHHhCCCcCeeEEE-eCCcHHHHHHHHHHHHcCCCCcc
Confidence 6888999998887 5432211111111 010 12233445554333 443 344 66667788889999999987545
Q ss_pred eEEEeeCc
Q 004136 262 SVWIVTNT 269 (771)
Q Consensus 262 ~~~i~~~~ 269 (771)
...++.+.
T Consensus 223 i~vig~d~ 230 (289)
T cd01540 223 VIGVGING 230 (289)
T ss_pred eEEEecCC
Confidence 55555444
No 153
>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=97.76 E-value=0.0039 Score=63.86 Aligned_cols=202 Identities=9% Similarity=-0.021 Sum_probs=122.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCC--CCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~--~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~ 111 (771)
+||+++|.. .+.......+++.+.++. |+.+.+ .+.. .+...-.+....++ +.++.+||- |.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~~~~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL-----GVSLKL--LEAGGYPNLAKQIAQLEDCA-AWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc-----CCEEEE--ecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChhhHH
Confidence 589999864 444556666777666654 445444 4433 34555666677777 678886663 33322222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCC-----eEEEEEEEeCC--CCCCcc
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-----RRVAAIYEDNV--YGGDSG 184 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w-----~~v~ii~~~~~--~g~~~~ 184 (771)
....+...++|+|..... .. .. .....+..++...++.+++++-+.+- ++++++..... .. ..
T Consensus 73 -~~~~~~~~giPvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~--~~ 142 (268)
T cd06306 73 -EILQQVAASIPVIALVND--IN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWV--KA 142 (268)
T ss_pred -HHHHHHHCCCCEEEeccC--CC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchH--HH
Confidence 234466789999987543 11 11 12335677888888999998866654 89999976433 23 44
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCe
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~ 262 (771)
..+.+++.+++.+ +++.... .... + ...-...++++.+. ++++|+. + ...+..+++.+++.|+. +..
T Consensus 143 R~~g~~~~~~~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~-d~~a~~~~~~l~~~g~p-~di 211 (268)
T cd06306 143 VEKGFRDALAGSA-IEISAIK--YGDT---G-KEVQRKLVEEALEAHPDIDYIVG--S-AVAAEAAVGILRQRGLT-DQI 211 (268)
T ss_pred HHHHHHHHHhhcC-cEEeeec--cCCc---c-HHHHHHHHHHHHHhCCCcCEEee--c-chhhhHHHHHHHhcCCC-CCe
Confidence 5688899998888 7765421 1111 1 12334455554433 4676654 3 56677889999999973 444
Q ss_pred EEEe
Q 004136 263 VWIV 266 (771)
Q Consensus 263 ~~i~ 266 (771)
..++
T Consensus 212 ~vig 215 (268)
T cd06306 212 KIVS 215 (268)
T ss_pred EEEe
Confidence 4444
No 154
>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=97.73 E-value=0.006 Score=63.42 Aligned_cols=214 Identities=11% Similarity=0.023 Sum_probs=121.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
|||++.|.. .+.......+++-+.++ . |+++.++ .++..++..-.+....++ ..++.+|| .+.........
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~---~--g~~~~~~-~~~~~~~~~~~~~l~~~~-~~~~dgiii~~~~~~~~~~~ 73 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK---L--GIEVVAT-TDAQFDPAKQVADIETTI-SQKPDIIISIPVDPVSTAAA 73 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH---c--CCEEEEe-cCCCCCHHHHHHHHHHHH-HhCCCEEEEcCCCchhhhHH
Confidence 689998753 22223334444433333 2 5565433 356667877777777877 66787554 34333223344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+.... ..+++..+..+....++.+++++... +-++++++..+.+........+.+.+
T Consensus 74 i~~~~~~~iPvV~~~~~--~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 74 YKKVAEAGIKLVFMDNV--PSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHcCCcEEEecCC--Cccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 45566789999987754 222211 11234446777788888899988665 77899999764432200445677888
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
.+++.+ ..+......... +. ......++++.+. .+++|+. ++...+..+++.++++|+ ++...++.+.
T Consensus 151 ~l~~~~-~~~~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~--~di~vvg~d~ 220 (294)
T cd06316 151 TIKKNY-PDITIVAEKGID----GP-SKAEDIANAMLTQNPDLKGIYA--VWDVPAEGVIAALRAAGR--DDIKVTTVDL 220 (294)
T ss_pred HHHHhC-CCcEEEeecCCc----ch-hHHHHHHHHHHHhCCCeeEEEe--CCCchhHHHHHHHHHcCC--CCceEEEeCC
Confidence 887655 322211111111 00 1223344444333 4565555 556668899999999997 3345555554
No 155
>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=97.73 E-value=0.0052 Score=62.68 Aligned_cols=207 Identities=13% Similarity=0.145 Sum_probs=123.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++.+.++. |+.+.+...+ ..++....+....++ ++++.++|--..........
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~ 73 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-----GYAVTLSMLA-EADEEALRAAVRRLL-AQRVDGVIVNAPLDDADAAL 73 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-----CCeEEEEeCC-CCchHHHHHHHHHHH-hcCCCEEEEeCCCCChHHHH
Confidence 389999865 344456666666666663 4566554332 223455556666666 67888776322222222333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
. +...++|+|..... .+ .. +-.+..++...++.+++++...|-++++++..+..........+.|.+.++
T Consensus 74 ~-~~~~~ipvv~~~~~--~~----~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 74 A-AAPADVPVVFVDGS--PS----PR---VSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred H-HHhcCCCEEEEecc--CC----CC---CCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 3 34679999988754 21 22 234777888889999999988899999999765432211345678888888
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC-CceEEEEEecChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vIv~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~~~ 268 (771)
+.| +.+.... .... + .....+.+.++.+. .+++|+. ++...+..+++++++.|... +....++.+
T Consensus 144 ~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~g~~~~~~~~g~~ip~~i~ii~~d 210 (264)
T cd01574 144 AAG-IAPPPVL--EGDW---S-AESGYRAGRELLREGDPTAVFA--ANDQMALGVLRALHELGLRVPDDVSVVGFD 210 (264)
T ss_pred HCC-CCcceee--ecCC---C-HHHHHHHHHHHHhCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCccceEEeccc
Confidence 877 6553221 1111 1 12233444444433 3676555 56667788999999999743 334444443
No 156
>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=97.70 E-value=0.003 Score=64.42 Aligned_cols=191 Identities=17% Similarity=0.134 Sum_probs=116.7
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. .+.......+++-+.++. |+++.+...+. +. ...+...+++ ++++.++|--.+.... ....
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~-~~~~~i~~~~-~~~vdgiii~~~~~~~-~~~~ 71 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQAR-----GYQPLLINTDD--DE-DLDAALRQLL-QYRVDGVIVTSGTLSS-ELAE 71 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHC-----CCeEEEEcCCC--CH-HHHHHHHHHH-HcCCCEEEEecCCCCH-HHHH
Confidence 78998864 444455556655444442 56666554443 33 3345566666 6788877643332222 3355
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~~ 193 (771)
.+...++|+|..... .+. +.+..+.++....+..+++++...|-++++++..+.. .. ....+.|.+.+
T Consensus 72 ~~~~~~ipvV~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~gf~~~~ 141 (266)
T cd06278 72 ECRRNGIPVVLINRY--VDG------PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTS--RERERGFRDAL 141 (266)
T ss_pred HHhhcCCCEEEECCc--cCC------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccch--HHHHHHHHHHH
Confidence 567789999988654 221 2234578888999999999998889899999986543 33 45678899999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcC
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMG 256 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g 256 (771)
++.| ..+.... ..... .......+.++.+. .+++|+. .+...+..+++.+++.+
T Consensus 142 ~~~~-~~~~~~~-~~~~~-----~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 142 AAAG-VPVVVEE-AGDYS-----YEGGYEAARRLLASRPRPDAIFC--ANDLLAIGVMDAARQEG 197 (266)
T ss_pred HHcC-CChhhhc-cCCCC-----HHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhc
Confidence 8888 6532211 11111 12233444554433 4676665 45555677788887753
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=97.69 E-value=0.0033 Score=64.34 Aligned_cols=206 Identities=13% Similarity=0.104 Sum_probs=124.4
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. .+.......+++.+.++. |+++. +.++..++..-.+....+. .+++.+||=............
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~~ 73 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQ-----GYNLI--LCNTEGDPERQRSYLRMLA-QKRVDGLLVMCSEYDQPLLAM 73 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCChHHHHH
Confidence 88999865 455566777777776653 45554 4566667777777777777 677775553222222222223
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~~ 193 (771)
+....++|+|..... .+ ...+++ +..+....+..+++++...|-++++++..... .. ....+.|.+.+
T Consensus 74 l~~~~~ipvV~i~~~--~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~--~~r~~gf~~~~ 143 (269)
T cd06275 74 LERYRHIPMVVMDWG--PE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPA--QQRLAGFRRAM 143 (269)
T ss_pred HHhcCCCCEEEEecc--cC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccH--HHHHHHHHHHH
Confidence 334569999987654 22 122233 56677778888889998889999999975433 22 44568889999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
++.| +++.......... + .......++++.+. .+++|+. ++...+..+++.+++.|...+ +...++-
T Consensus 144 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~vvg~ 213 (269)
T cd06275 144 AEAG-LPVNPGWIVEGDF---E-CEGGYEAMQRLLAQPKRPTAVFC--GNDLMAMGALCAAQEAGLRVPQDLSIIGY 213 (269)
T ss_pred HHcC-CCCCHHHhccCCC---C-hHHHHHHHHHHHcCCCCCcEEEE--CChHHHHHHHHHHHHcCCCCCcceEEEEe
Confidence 8888 6543211111111 1 02233445555443 4566555 666677788999999997533 3444443
No 158
>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=97.69 E-value=0.0026 Score=65.11 Aligned_cols=208 Identities=15% Similarity=0.100 Sum_probs=125.9
Q ss_pred EEEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
.||+++|.. .+.......+++.+.++. |+.+ .+.++..++..-.+....+. ..++.++|........ +
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~~~~--~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-----GYLL--LVVNTGGDDELEAEAVEALL-DHRVDGIIYATMYHRE--V 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCCh--h
Confidence 489999874 455566777777776663 4554 44455556655556666676 6788877754322111 1
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~ 193 (771)
.......++|+|..... .+. .. +..+.+++...+..+++++...|-++++++..+..........+.|.+.+
T Consensus 71 ~~~~~~~~ipvv~~~~~--~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 TLPPELLSVPTVLLNCY--DAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred HHHHHhcCCCEEEEecc--cCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 12234578999887644 221 22 23477888888999999998779999999986543210145678889999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
++.| +++.......... + ..+....++++.+. ++++|+. ++...+..+++++++.|+..+ +...++-+
T Consensus 143 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~di~v~g~d 213 (269)
T cd06288 143 AEAG-IPFDPDLVVHGDW---S-ADDGYEAAAALLDLDDRPTAIFC--GNDRMAMGAYQALLERGLRIPQDVSVVGFD 213 (269)
T ss_pred HHcC-CCCCHHHeEeCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--eCcHHHHHHHHHHHHcCCCCcccceEEeeC
Confidence 8888 5432211111111 0 02233445555433 4677655 666667788999999998543 34444433
No 159
>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=97.69 E-value=0.0022 Score=65.76 Aligned_cols=208 Identities=12% Similarity=0.098 Sum_probs=127.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.-.....+++.+.++. |+. +.+.++..++....+....++ +.++.++|--.+........
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~ 72 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-----GYS--LLIANSLNDPERELEILRSFE-QRRMDGIIIAPGDERDPELV 72 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCE--EEEEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCCcHHHH
Confidence 389999864 455566777777766663 444 445567777777777777776 67888777432322233445
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
..+...++|+|..... .+ ...+ .+..+....+..+++.+...|-++++++.............+.|++.++
T Consensus 73 ~~~~~~~ipvV~i~~~--~~----~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 73 DALASLDLPIVLLDRD--MG----GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHhCCCCEEEEecc--cC----CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 5666789999988755 22 1223 3566777777878888877799999999764332211345688899999
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
+.| +.+.....+.... ...-.+.+.++.+ ..+++|+. .+...+..+++++++.|+..+ ....++.+
T Consensus 144 ~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 144 AAG-LPPDPALVRLSTP-----AASGFDATRALLALPDRPTAIIA--GGTQVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred HcC-CCCCHHHeecCcH-----HHHHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 888 6542111111110 0222334444432 24687765 455566688999999998643 34445443
No 160
>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=97.68 E-value=0.0028 Score=64.72 Aligned_cols=206 Identities=12% Similarity=0.123 Sum_probs=124.1
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. .+.-.....+++.+.++. |+.+.+ .++..++..-.+...+++ .+++.++|--..... .....
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~-~~~~~ 72 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA-----GYQLLL--GNTGYSPEREEELLRTLL-SRRPAGLILTGLEHT-ERTRQ 72 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc-----CCEEEE--ecCCCCchhHHHHHHHHH-HcCCCEEEEeCCCCC-HHHHH
Confidence 78999864 334445556666666553 455544 555556666666677777 678887764322222 23334
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~~ 193 (771)
.+...++|+|..... .+ . +....+..+....+..+++++...+-++++++..+.. .. ....+.|++.+
T Consensus 73 ~~~~~~ipvv~~~~~--~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~gf~~~l 142 (268)
T cd01575 73 LLRAAGIPVVEIMDL--PP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRA--QQRLEGFRAAL 142 (268)
T ss_pred HHHhcCCCEEEEecC--CC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccH--HHHHHHHHHHH
Confidence 455679999977533 11 1 1222466778888899999998889999999987643 33 45567889999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
++.| ............. + .....+.+.++.+. .+++|+. ++...+..+++.+++.|...+ +...++.+
T Consensus 143 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~di~vig~d 213 (268)
T cd01575 143 RAAG-LDPPLVVTTPEPS---S-FALGRELLAELLARWPDLDAVFC--SNDDLALGALFECQRRGISVPEDIAIAGFG 213 (268)
T ss_pred HHcC-CCCCceeEeccCC---C-HHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCcceEEEecC
Confidence 8887 5322211111111 1 12234455555433 4677665 555667788999999997533 34444443
No 161
>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=97.67 E-value=0.0038 Score=64.16 Aligned_cols=207 Identities=14% Similarity=0.122 Sum_probs=119.9
Q ss_pred cEEEEEEEeCC--------CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-C
Q 004136 34 VTKIGAIVDAN--------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-M 104 (771)
Q Consensus 34 ~I~IG~i~p~s--------~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p 104 (771)
.-.||+++|.. .+.......+++.+.++. |+++.+...+. + . ...+.+.+.++++.+||- +
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~v~~~~~--~--~-~~~~~~~l~~~~~dgiii~~ 72 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER-----GYDLLLSFVSS--P--D-RDWLARYLASGRADGVILIG 72 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHc-----CCEEEEEeCCc--h--h-HHHHHHHHHhCCCCEEEEeC
Confidence 34689999963 223344444554444332 56666554332 2 1 233445554677887653 2
Q ss_pred CchHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCC
Q 004136 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGD 182 (771)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~ 182 (771)
.... . .....+...++|+|..... .+. .. +..+.+++...+..+++++...|.++++++..+.. .+
T Consensus 73 ~~~~-~-~~~~~~~~~~ipvV~~~~~--~~~---~~---~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~-- 140 (275)
T cd06295 73 QHDQ-D-PLPERLAETGLPFVVWGRP--LPG---QP---YCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEG-- 140 (275)
T ss_pred CCCC-h-HHHHHHHhCCCCEEEECCc--cCC---CC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchh--
Confidence 2211 2 2234567789999987654 222 22 33477788888999999998889999999986433 23
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCC-
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG- 259 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~- 259 (771)
....+.|++.+++.| ..+.......... + .......+.++.++ ++++|+. ++...+..+++.+++.|...
T Consensus 141 ~~r~~gf~~~~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~~l~~~g~~ip 213 (275)
T cd06295 141 EERLEGYREALAEAG-LPLDPRLVAPGDF---T-EESGRAAMRALLERGPDFDAVFA--ASDLMALGALRALREAGRRVP 213 (275)
T ss_pred HHHHHHHHHHHHHcC-CCCChhhEEeccC---C-HHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCc
Confidence 456788999998877 5432211111111 1 02233344444333 4677666 45556678889999999853
Q ss_pred CCeEEEeeCc
Q 004136 260 KDSVWIVTNT 269 (771)
Q Consensus 260 ~~~~~i~~~~ 269 (771)
+....++.+.
T Consensus 214 ~~i~ii~~d~ 223 (275)
T cd06295 214 EDVAVVGFDD 223 (275)
T ss_pred cceEEEeeCC
Confidence 3444454443
No 162
>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=97.66 E-value=0.0053 Score=62.66 Aligned_cols=208 Identities=13% Similarity=0.151 Sum_probs=127.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. ...-.....+++.+.++. |+.+ .+.++..++..-.+...+++ ..++.+||-.........+ .
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~~~~~~l-~ 72 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAH-----GYQV--LVCNSDNDPEKEKEYLESLL-AYQVDGLIVNPTGNNKELY-Q 72 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHc-----CCEE--EEEcCCCCHHHHHHHHHHHH-HcCcCEEEEeCCCCChHHH-H
Confidence 78999865 445566777777777764 3444 44556667776667777777 6778866632222222223 4
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHHHHHh
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEALQ 194 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~~~ 194 (771)
.+...++|+|..... .+ ... +..+..++...+..+++++...|-++++++..... ........+.+++.++
T Consensus 73 ~~~~~~ipvV~~~~~--~~---~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~ 144 (267)
T cd06283 73 RLAKNGKPVVLVDRK--IP---ELG---VDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEALA 144 (267)
T ss_pred HHhcCCCCEEEEcCC--CC---CCC---CCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 456779999988754 22 122 23456677888999999998889999999975433 2111345688889998
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
+.| ............. + ..+....+.++.+. .+++|+. ++...+..+++.+++.|+..+ +...++.+
T Consensus 145 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 214 (267)
T cd06283 145 EHG-IGVNEELIEIDDE---D-ADELDERLRQLLNKPKKKTAIFA--ANGLILLEVLKALKELGIRIPEDVGLIGFD 214 (267)
T ss_pred HcC-CCCCcceeEeccc---c-hHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEEEEeC
Confidence 877 4322211111111 0 13345566666544 3676666 556666788999999998543 33444433
No 163
>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=97.66 E-value=0.0061 Score=62.19 Aligned_cols=207 Identities=12% Similarity=0.124 Sum_probs=122.1
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++-+.++ . |+.+.+ .++..++....+....++ .+++.++|-......... .
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~~---~--g~~~~~--~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~-~ 71 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALARE---R--GYQLLI--ACSDDDPETERETVETLI-ARQVDALIVAGSLPPDDP-Y 71 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHHH---C--CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCCchHH-H
Confidence 389999874 33333444444443333 2 455544 455557766667777777 678886664332222222 3
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .+ ....++ +..++...+..+++++.+.|.++++++..... .. ....+.+++.
T Consensus 72 ~~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~gf~~~ 141 (264)
T cd06274 72 YLCQKAGLPVVALDRP--GD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPS--RERLAGFRQA 141 (264)
T ss_pred HHHHhcCCCEEEecCc--cC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccch--HHHHHHHHHH
Confidence 3456689999988654 22 122233 56677777888899888888899999976533 23 4567889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
+++.| ..+.......... +. ..-...+.++.+. .+++|+. ++...+..+++++++.|+..+ +...++.+
T Consensus 142 ~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~ip~dv~v~g~d 214 (264)
T cd06274 142 LADAG-LPVQPDWIYAEGY---SP-ESGYQLMAELLARLGRLPRALFT--TSYTLLEGVLRFLRERPGLAPSDLRIATFD 214 (264)
T ss_pred HHHcC-CCCCcceeecCCC---Ch-HHHHHHHHHHHccCCCCCcEEEE--cChHHHHHHHHHHHHcCCCCCcceEEEEeC
Confidence 99887 5432211111111 10 2233444554332 3677666 566667789999999998643 33444433
No 164
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.65 E-value=0.008 Score=63.62 Aligned_cols=206 Identities=11% Similarity=0.075 Sum_probs=123.1
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc-hHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~-s~~~ 110 (771)
..-.||+++|.. .+.......+++.+.++. |+.+.+ .++..++....+....++ +.++.++|-... ....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~ 131 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQR-----GYQLLI--ACSDDQPDNEMRCAEHLL-QRQVDALIVSTSLPPEH 131 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCCCCh
Confidence 456899999853 334445555665555542 566554 344445655556666666 678887664222 2122
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.....+...++|+|..... .+ ...++ .+..++...+..++++|...|-++|+++..... .+ ....+.
T Consensus 132 -~~~~~l~~~~iPvV~v~~~--~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~--~~R~~G 200 (328)
T PRK11303 132 -PFYQRLQNDGLPIIALDRA--LD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVS--FEREQG 200 (328)
T ss_pred -HHHHHHHhcCCCEEEECCC--CC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccH--HHHHHH
Confidence 2223345679999987643 11 12233 356788888888899888889999999976433 23 456788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEE
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWI 265 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i 265 (771)
|++.+++.| +.+.... .... +. .+-...+.++.+. .+++|+. ++...+..+++++++.|+..+ +...+
T Consensus 201 f~~al~~~g-~~~~~~~--~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 201 FRQALKDDP-REVHYLY--ANSF---ER-EAGAQLFEKWLETHPMPDALFT--TSYTLLQGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHHHHcC-CCceEEE--eCCC---Ch-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999988 6532211 1111 10 1223344444433 4777666 555667788999999998543 34444
Q ss_pred e
Q 004136 266 V 266 (771)
Q Consensus 266 ~ 266 (771)
+
T Consensus 272 g 272 (328)
T PRK11303 272 T 272 (328)
T ss_pred E
Confidence 3
No 165
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.63 E-value=0.0097 Score=62.81 Aligned_cols=207 Identities=13% Similarity=0.112 Sum_probs=136.7
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||++.|.- .+.-.+...|++.+.++- |+. +.+.++..++..-.+....+. +++|.++|--. .....
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~-----gy~--~~l~~~~~~~~~e~~~~~~l~-~~~vdGiIi~~-~~~~~ 127 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREA-----GYS--LLLANTDDDPEKEREYLETLL-QKRVDGLILLG-ERPND 127 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEec-CCCCH
Confidence 456799999943 334445555665555553 444 455555557777777777776 78899777433 23344
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCCCCcchHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--VYGGDSGKLALL 189 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~--~~g~~~~~~~~l 189 (771)
.....+...++|+|..... .+ +.. +-.+..++...++.++++|...|.+++++|.... ..+ ....+.+
T Consensus 128 ~~~~~l~~~~~P~V~i~~~--~~---~~~---~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~Gf 197 (333)
T COG1609 128 SLLELLAAAGIPVVVIDRS--PP---GLG---VPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSAS--RERLEGY 197 (333)
T ss_pred HHHHHHHhcCCCEEEEeCC--Cc---cCC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccH--hHHHHHH
Confidence 4555666779999988765 23 222 3357889999999999999999999999999873 344 5668899
Q ss_pred HHHHhccCCeEE-E-EeeecCCCCCCCCchHHHHHHHHHhhhC--C-ceEEEEEecChhHHHHHHHHHHHcCCCCCC-eE
Q 004136 190 AEALQNVSSSEI-Q-SRLVLPPISSISDPKEAVRGELKKVQDK--Q-SRVFIVLQASLDMTIHLFTEANRMGLVGKD-SV 263 (771)
Q Consensus 190 ~~~~~~~g~~~i-~-~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~-~~vIv~~~~~~~~~~~il~~a~~~g~~~~~-~~ 263 (771)
.+.+++.| +.. . ....-.... .+-...+.++... . +++||. ++..-+..++++++++|...++ ..
T Consensus 198 ~~al~~~~-~~~~~~~i~~~~~~~------~~g~~~~~~ll~~~~~~ptAif~--~nD~~Alg~l~~~~~~g~~vP~dis 268 (333)
T COG1609 198 RAALREAG-LPINPEWIVEGDFSE------ESGYEAAERLLARGEPRPTAIFC--ANDLMALGALRALRELGLRVPEDLS 268 (333)
T ss_pred HHHHHHCC-CCCCcceEEecCCCh------HHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCeeE
Confidence 99999999 664 1 111111111 2334444444432 2 777766 8888899999999999987653 44
Q ss_pred EEee
Q 004136 264 WIVT 267 (771)
Q Consensus 264 ~i~~ 267 (771)
.++-
T Consensus 269 viGf 272 (333)
T COG1609 269 VIGF 272 (333)
T ss_pred EEEe
Confidence 4443
No 166
>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=97.62 E-value=0.011 Score=60.90 Aligned_cols=210 Identities=12% Similarity=0.066 Sum_probs=123.7
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
+||++.|.. .+.......+++.+.++. |+.+ .+.++..++..-.+....++ .+++.+|| .+..+......
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-----g~~v--~~~~~~~~~~~~~~~i~~~~-~~~~Dgiii~~~~~~~~~~~ 72 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-----GYEL--ISTDAQGDLTKQIADVEDLL-TRGVNVLIINPVDPEGLVPA 72 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-----CCEE--EEEcCCCCHHHHHHHHHHHH-HcCCCEEEEecCCccchHHH
Confidence 589999865 334445555666555543 4444 45566667777777777777 77887655 34333322334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH-cCCe--EEEEEEEeC--CCCCCcchHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWR--RVAAIYEDN--VYGGDSGKLAL 188 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~--~v~ii~~~~--~~g~~~~~~~~ 188 (771)
...+...++|+|..... .+ ...+.+..+..+....+..+++++-. .|-+ +++++..+. ..+ ....+.
T Consensus 73 i~~~~~~~iPvV~~~~~--~~----~~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~--~~R~~g 144 (282)
T cd06318 73 VAAAKAAGVPVVVVDSS--IN----LEAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVG--QARRDG 144 (282)
T ss_pred HHHHHHCCCCEEEecCC--CC----CCcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchH--hHHHHh
Confidence 45566789999988754 21 10123445778888889999998855 6754 888887542 234 556788
Q ss_pred HHHHHhccCCeEE----EE-eeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004136 189 LAEALQNVSSSEI----QS-RLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (771)
Q Consensus 189 l~~~~~~~g~~~i----~~-~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~ 261 (771)
|++.+++.| ... .. ........ .+. .+-...+.++... ++++|+. .+...+..+++++++.|+. .+
T Consensus 145 f~~~l~~~~-~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~-~d 217 (282)
T cd06318 145 FLLGVSEAQ-LRKYGKTNFTIVAQGYGD--WTR-EGGLKAMEDLLVAHPDINVVYS--ENDDMALGAMRVLAEAGKT-DD 217 (282)
T ss_pred HHHHHhhCc-ccccccCCeEEEecCCCC--CCH-HHHHHHHHHHHHhCCCcCEEEE--CCcchHHHHHHHHHHcCCC-CC
Confidence 899988876 321 00 01001111 011 2223344444322 4666655 6666677889999999985 34
Q ss_pred eEEEeeC
Q 004136 262 SVWIVTN 268 (771)
Q Consensus 262 ~~~i~~~ 268 (771)
...++.+
T Consensus 218 v~vvg~d 224 (282)
T cd06318 218 VKVAAAD 224 (282)
T ss_pred eEEEecC
Confidence 4444433
No 167
>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=97.61 E-value=0.011 Score=60.79 Aligned_cols=198 Identities=11% Similarity=0.024 Sum_probs=119.7
Q ss_pred hHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHHHHhhccCCccEEee
Q 004136 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVAEIASRVQVPILSF 127 (771)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v~~~~~~~~iP~Is~ 127 (771)
.....+++.+.++. |+.+ .+.++..++..-.+...+++ .+++.+||= |..+.........+...++|+|..
T Consensus 15 ~~~~~gi~~~~~~~-----G~~~--~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~ 86 (272)
T cd06313 15 AQGKQAADEAGKLL-----GVDV--TWYGGALDAVKQVAAIENMA-SQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDM 86 (272)
T ss_pred HHHHHHHHHHHHHc-----CCEE--EEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEe
Confidence 34444555444442 4444 44566678888888888888 788886554 443333344445556679999988
Q ss_pred cCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEee
Q 004136 128 AAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL 205 (771)
Q Consensus 128 ~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~ 205 (771)
... .+ ....+....+.+++...+..+++++... +.++++++..+..........+.|++.+++.+..++...
T Consensus 87 ~~~--~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~- 160 (272)
T cd06313 87 GTL--IA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE- 160 (272)
T ss_pred CCC--CC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec-
Confidence 754 22 1111334457788888899999998666 888999997653322114467888888887641444321
Q ss_pred ecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 206 VLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 206 ~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
..... + .......++++.+. .+++|+. .+...+..+++.+++.|+ ++...++-+.
T Consensus 161 -~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~--~di~vvgfd~ 217 (272)
T cd06313 161 -QPANW---D-VSKAARIWETWLTKYPQLDGAFC--HNDSMALAAYQIMKAAGR--TKIVIGGVDG 217 (272)
T ss_pred -cCCCC---C-HHHHHHHHHHHHHhCCCCCEEEE--CCCcHHHHHHHHHHHcCC--CceEEEeecC
Confidence 11111 1 12334455555433 3566544 666677788999999998 4455554444
No 168
>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=97.61 E-value=0.0087 Score=62.59 Aligned_cols=213 Identities=14% Similarity=0.092 Sum_probs=125.7
Q ss_pred EEEEEeCC--CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcC--CeEEEEcCCchHhHHH
Q 004136 37 IGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAGMETWEETAV 112 (771)
Q Consensus 37 IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~--~v~aviGp~~s~~~~~ 112 (771)
||+++|.. .++......+++.+.++. |+.+.+ .++..+..........++ ++ ++.+||=-..+.....
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-----g~~v~~--~~~~~~~~~~~~~i~~~~-~~~~~vdgiIi~~~~~~~~~ 73 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-----GIELEV--LYAERDRFLMLQQARTIL-QRPDKPDALIFTNEKSVAPE 73 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-----CCeEEE--EeCCCCHHHHHHHHHHHH-HhccCCCEEEEcCCccchHH
Confidence 78888764 334455666666666553 555544 455667777777778887 66 8886653222222334
Q ss_pred HHHhhccCCccEEeecCCCCCCCcc-------CC-CCceEEEeecCcHHHHHHHHHHHHHcCCeE--------EEEEEEe
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSM-------SR-RWPYLIRMASNDSEQMKCIADLARKYNWRR--------VAAIYED 176 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~-------~~-~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~--------v~ii~~~ 176 (771)
....+...++|+|..... .+... .. ..+++-.+.+++...++.+++.+...+.++ ++++...
T Consensus 74 ~~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 74 LLRLAEGAGVKLFLVNSG--LTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHhCCCeEEEEecC--CCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 445677789999988754 22211 01 112345677888889999999886666553 6766643
Q ss_pred CC--CCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHH
Q 004136 177 NV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEA 252 (771)
Q Consensus 177 ~~--~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a 252 (771)
.. .. ....+.|++.+++.|...+... ..... + ...-...+.++.+. ++++|+. .+...+..+++++
T Consensus 152 ~~~~~~--~~R~~Gf~~~~~~~g~~~~~~~--~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al 221 (305)
T cd06324 152 PTTPAA--ILREAGLRRALAEHPDVRLRQV--VYAGW---S-EDEAYEQAENLLKRYPDVRLIWA--ANDQMAFGALRAA 221 (305)
T ss_pred CCChHH--HHHHHHHHHHHHHCCCceEeee--ecCCC---C-HHHHHHHHHHHHHHCCCccEEEE--CCchHHHHHHHHH
Confidence 22 22 4456778888888751233221 11111 1 12334455555433 4565544 5666778899999
Q ss_pred HHcCCCC-CCeEEEeeCc
Q 004136 253 NRMGLVG-KDSVWIVTNT 269 (771)
Q Consensus 253 ~~~g~~~-~~~~~i~~~~ 269 (771)
++.|+.. ++...++.+.
T Consensus 222 ~~~g~~vp~di~vig~D~ 239 (305)
T cd06324 222 KEAGRKPGRDVLFGGVNW 239 (305)
T ss_pred HHcCCCcCCCEEEEecCC
Confidence 9999864 3455555444
No 169
>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=97.61 E-value=0.0053 Score=65.02 Aligned_cols=210 Identities=17% Similarity=0.155 Sum_probs=127.0
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||+++|.. .++......+++.+.++. |+.+.+ .++..++..-.+....+. ++++.++|--... ...
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~-----g~~~~i--~~~~~~~~~~~~~~~~l~-~~~vdGiIi~~~~-~~~ 128 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMY-----KYNIIL--SNSDEDPEKEVQVLNTLL-SKQVDGIIFMGGT-ITE 128 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCC-CCh
Confidence 456899999853 344445555665554442 555544 444455655556666666 6788866631111 112
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~ 188 (771)
.....+...++|+|..... .+ ...++ .+..++...+..+++++...|.++++++..... .+ ....+.
T Consensus 129 ~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~--~~R~~G 198 (329)
T TIGR01481 129 KLREEFSRSPVPVVLAGTV--DK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSING--EDRLEG 198 (329)
T ss_pred HHHHHHHhcCCCEEEEecC--CC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccch--HHHHHH
Confidence 3334556679999977644 21 12223 367787888888899888889999999975322 23 456788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
|++.+++.| +.+.......... + ..+....+.++.+..+++|+. .+...+..+++++++.|+..+ +...++-
T Consensus 199 f~~~l~~~g-~~~~~~~~~~~~~---~-~~~~~~~~~~ll~~~p~ai~~--~~d~~A~g~~~al~~~g~~vP~dvsvvgf 271 (329)
T TIGR01481 199 YKEALNKAG-IQFGEDLVCEGKY---S-YDAGYKAFAELKGSLPTAVFV--ASDEMAAGILNAAMDAGIKVPEDLEVITS 271 (329)
T ss_pred HHHHHHHcC-CCCCcceEEecCC---C-hHHHHHHHHHHhCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEee
Confidence 999999988 6543222111111 1 022334555655556887666 555677889999999998543 3444444
Q ss_pred C
Q 004136 268 N 268 (771)
Q Consensus 268 ~ 268 (771)
+
T Consensus 272 d 272 (329)
T TIGR01481 272 N 272 (329)
T ss_pred C
Confidence 3
No 170
>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=97.59 E-value=0.0066 Score=62.07 Aligned_cols=208 Identities=11% Similarity=0.102 Sum_probs=120.8
Q ss_pred EEEEEeC----CCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 37 IGAIVDA----NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 37 IG~i~p~----s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
||+++|. +.+.......+++-+.++. |+++.+...|. +...-......++ +.++.+||-...... .
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~~~~~~~~~~l~-~~~vdgiii~~~~~~--~ 71 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY-----GYNLILKFVSD--EDEEEFELPSFLE-DGKVDGIILLGGIST--E 71 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc-----CCEEEEEeCCC--ChHHHHHHHHHHH-HCCCCEEEEeCCCCh--H
Confidence 8999987 2444455666666555553 56776665553 3333333334454 678887775322221 2
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
....+...++|+|..... .+ ....++ +..+....++.+++++...|.++++++.............+.|.+.
T Consensus 72 ~~~~l~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 72 YIKEIKELGIPFVLVDHY--IP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred HHHHHhhcCCCEEEEccC--CC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 245567789999987644 22 122233 5567777778888888888999999997654422114456788999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC-CCeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~~~~ 269 (771)
+++.| +++.....+.... +....+...+.+.. ..+++|+. ++...+..+++++++.|+.. ++...++.+.
T Consensus 144 ~~~~~-~~~~~~~~~~~~~---~~~~~~~~~l~~~~-~~~~ai~~--~~d~~a~g~~~a~~~~g~~~p~di~vig~d~ 214 (268)
T cd06277 144 LLDHG-IPFNEDYDITEKE---EDEEDIGKFIDELK-PLPTAFFC--SNDGVAFLLIKVLKEMGIRVPEDVSVIGFDD 214 (268)
T ss_pred HHHcC-CCCCcceEEEcch---hHHHHHHHHHhcCC-CCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCcceEEeecC
Confidence 98888 6543222111111 11123444444332 23676665 56666678889999999853 3344444443
No 171
>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=97.59 E-value=0.0057 Score=62.42 Aligned_cols=198 Identities=18% Similarity=0.175 Sum_probs=120.4
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+++|.. .+...+...+++.+.++. |+.+. ..++..++..-.+....++ +.++.+||-....... ...
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~-~~~ 71 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA-----GYSTI--IGNSDENPETENRYLDNLL-SQRVDGIIVVPHEQSA-EQL 71 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc-----CCEEE--EEeCCCCHHHHHHHHHHHH-hcCCCEEEEcCCCCCh-HHH
Confidence 489999864 445566777777777664 34444 4455556666666666766 7788866643222222 234
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .+ ....+++ ..+....+..+++.+...|-++++++..... .. ....+.|++.
T Consensus 72 ~~l~~~~ipvV~~~~~--~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~--~~R~~gf~~~ 141 (265)
T cd06299 72 EDLLKRGIPVVFVDRE--IT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTG--RERLEAFRQA 141 (265)
T ss_pred HHHHhCCCCEEEEecc--cC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccH--HHHHHHHHHH
Confidence 5556679999988754 22 2233443 4455555666777777778899999975433 22 4456788999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
+++.| .++.......... + ..+....+.++.+.++++|+. ++...+..+++.+++.|+..
T Consensus 142 ~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~av~~--~~d~~a~gv~~al~~~g~~v 201 (265)
T cd06299 142 CASLG-LEVNEDLVVLGGY---S-QESGYAGATKLLDQGATAIIA--GDSMMTIGAIRAIHDAGLVI 201 (265)
T ss_pred HHHCC-CCCChHhEEecCc---c-hHHHHHHHHHHHcCCCCEEEE--cCcHHHHHHHHHHHHhCCCC
Confidence 98887 5432211111111 1 122334455554445787665 56666788899999999864
No 172
>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=97.58 E-value=0.0062 Score=62.30 Aligned_cols=207 Identities=11% Similarity=0.087 Sum_probs=127.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v~ 114 (771)
||++.|.. .++..+...+++.+.++. |+++ .+.++..++..-.+....++ ++++.++| .+.... . ...
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~-~-~~~ 71 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAA-----GYDV--VLSESGRRTSPERQWVERLS-ARRTDGVILVTPELT-S-AQR 71 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCchHHHHHHHHHHH-HcCCCEEEEecCCCC-h-HHH
Confidence 78999864 555667777777766653 4555 44455555655556666776 67888665 333222 2 234
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
..+...++|+|..... .. .....+ .+.+++...+..+++.+...|.++++++..... .. ....+.|.+.
T Consensus 72 ~~~~~~~ipvV~i~~~--~~--~~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~gf~~~ 142 (270)
T cd06296 72 AALRRTGIPFVVVDPA--GD--PDADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCS--RARLDGYRAA 142 (270)
T ss_pred HHHhcCCCCEEEEecc--cC--CCCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhH--HHHHHHHHHH
Confidence 5567789999988754 11 112233 377888888899999988889999999976432 22 4567889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCC-CCeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~~~~ 269 (771)
+++.| ..+.......... + .+.....+.++.+. .+++|+. .+...+..+++.+++.|... ++...++.+.
T Consensus 143 ~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d~ 215 (270)
T cd06296 143 LAEAG-IPVDPALVREGDF---S-TESGFRAAAELLALPERPTAIFA--GNDLMALGVYEAARERGLRIPEDLSVVGFDD 215 (270)
T ss_pred HHHcC-CCCChHHheeCCC---C-HHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHhCCCCCCceEEEEECC
Confidence 98877 5443211111111 0 12233444444332 4566555 56666778999999999853 3455555443
No 173
>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=97.58 E-value=0.014 Score=60.44 Aligned_cols=202 Identities=13% Similarity=0.127 Sum_probs=121.3
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
+||+++|.. .++......+++-+.++. |+. +.+.++..++....+...+++ .+++.+|| .+..+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 72 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL-----GAE--VIVQNANGDPAKQISQIENMI-AKGVDVLVIAPVDGEALASA 72 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhHHHH
Confidence 489999854 444556666666666653 344 445666678887778788888 67888666 34333333444
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc------CCeEEEEEEEeCCCCCCcchHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~~~~~g~~~~~~~ 187 (771)
...+...++|+|..... .+. ...++ .+..+....++.+++.+... +-++++++..+..........+
T Consensus 73 l~~l~~~~ipvV~~~~~--~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 73 VEKAADAGIPVIAYDRL--ILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHCCCCEEEECCC--CCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 45566789999988755 221 11222 35567777788888877555 7889999976433221134567
Q ss_pred HHHHHHhccCC---eEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 188 LLAEALQNVSS---SEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 188 ~l~~~~~~~g~---~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
.|++.+++.+. +++.... ..... + ...-...+.++.+. .+++|+. .+...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~---~-~~~~~~~~~~~l~~~~~~~~~I~~--~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDW---D-PETAQKRMENALTANYNKVDGVLA--ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCC---C-HHHHHHHHHHHHHhCCCCccEEEe--CCcHHHHHHHHHHHHcCCCC
Confidence 78888887650 2222111 11111 1 12233444454333 3566555 66777888999999999875
No 174
>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=97.57 E-value=0.0094 Score=60.95 Aligned_cols=210 Identities=10% Similarity=0.051 Sum_probs=127.8
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++.+.++. |+.+.+ .++..++..-.+....++ ++++.+||--.+.... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~-----g~~~~~--~~~~~~~~~~~~~i~~~~-~~~vdgii~~~~~~~~-~~~ 71 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA-----GKHLII--TAGHHSAEKEREAIEFLL-ERRCDALILHSKALSD-DEL 71 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC-----CCEEEE--EeCCCchHHHHHHHHHHH-HcCCCEEEEecCCCCH-HHH
Confidence 389999875 445566667777666664 455554 344456666666677777 6788877753322111 223
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
..+...++|+|..... .+. ...+ .+..+....++.+++++...|-++++++..+..........+.|++.++
T Consensus 72 ~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 72 IELAAQVPPLVLINRH--IPG---LADR---CIWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHhhCCCCEEEEecc--CCC---CCCC---eEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 4456779999988654 221 1223 2678888899999999988899999999864332111345677889998
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
+.| .++.......... + ..+....+.++.++ .+++|+. ++...+..+++++++.|+..+ +...++-+.
T Consensus 144 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~di~v~g~d~ 214 (268)
T cd06270 144 EAG-IALDESLIIEGDF---T-EEGGYAAMQELLARGAPFTAVFC--ANDEMAAGAISALREHGISVPQDVSIIGFDD 214 (268)
T ss_pred HcC-CCCCcceEEECCC---C-HHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceeEEEecC
Confidence 888 5542211111111 0 12344455555443 4576655 666677889999999998543 344444433
No 175
>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=97.54 E-value=0.023 Score=58.17 Aligned_cols=207 Identities=12% Similarity=0.083 Sum_probs=118.8
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v~ 114 (771)
+||++...+.++......+++.+.++. |+.+.+. .++..++..-.+....++ ..++.++| .|..........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~-~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~l 73 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-----GVDVEFV-VPQQGTVNAQLRMLEDLI-AEGVDGIAISPIDPKAVIPAL 73 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-----CCeEEEe-CCCCCCHHHHHHHHHHHH-hcCCCEEEEecCChhHhHHHH
Confidence 478887655444455556666555553 4555443 234456666667677776 77888666 444333233333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC--CCCCcchHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALLA 190 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l~ 190 (771)
..+.. ++|+|..... .+. ... +..+..+....++.+++++.+. +..+++++..... .. ....+.++
T Consensus 74 ~~~~~-~ipvV~~~~~--~~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~--~~R~~gf~ 143 (271)
T cd06314 74 NKAAA-GIKLITTDSD--APD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNA--KERIQGIK 143 (271)
T ss_pred HHHhc-CCCEEEecCC--CCc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCH--HHHHHHHH
Confidence 33455 9999988654 221 111 2235677778888888888654 3456666664322 23 45678899
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+.+++.| +++.... .. .. + ..+-...+.++.+. .+++|+. .+...+..+++++++.|.. +....++.+
T Consensus 144 ~~~~~~~-~~~~~~~-~~-~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 144 DAIKDSK-IEIVDTR-GD-EE---D-FAKAKSNAEDALNAHPDLKCMFG--LYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHHhcCC-cEEEEEe-cC-cc---C-HHHHHHHHHHHHHhCCCccEEEe--cCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 9999989 7765421 11 11 1 12234455555433 3566655 3444455678889999887 444445444
Q ss_pred c
Q 004136 269 T 269 (771)
Q Consensus 269 ~ 269 (771)
.
T Consensus 214 ~ 214 (271)
T cd06314 214 E 214 (271)
T ss_pred C
Confidence 4
No 176
>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=97.53 E-value=0.0076 Score=61.65 Aligned_cols=211 Identities=12% Similarity=0.149 Sum_probs=123.0
Q ss_pred EEEEEEeC------CCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh
Q 004136 36 KIGAIVDA------NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (771)
Q Consensus 36 ~IG~i~p~------s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~ 109 (771)
.||+++|. +.+....+..+++.+.++. |+++.+. +.. ++..-.+.+.+++.+.++.++|-.....
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~-~~~~~~~~~~~~~~~~~~dgiii~~~~~- 71 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-----GYDISLA--TGK-NEEELLEEVKKMIQQKRVDGFILLYSRE- 71 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-----CCEEEEe--cCC-CcHHHHHHHHHHHHHcCcCEEEEecCcC-
Confidence 37999985 2344456666666666653 4666543 333 2344455666766556677655422211
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.......+...++|+|..... .+. ... +..+..++...++.+++.+...|-++++++.....+.......+.|
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~--~~~--~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 72 DDPIIDYLKEEKFPFVVIGKP--EDD--KEN---ITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred CcHHHHHHHhcCCCEEEECCC--CCC--CCC---CCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 123344557789999988754 221 012 2235667788888889988777999999997544321013457888
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEe
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIV 266 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~ 266 (771)
++.+++.| +.+.......... +. .+..+.+.++.+. .+++|+. .+...+..+++++++.|+..+ +..+++
T Consensus 145 ~~~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 145 KQALEDHG-IPDRNEVIISLDF---SE-EGGYKALKKLLEQHPRPTAIVA--TDDLLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred HHHHHHcC-CCCCcceEEecCC---ch-HHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 99999887 5322111111111 10 2234455555433 4666555 567778889999999998533 344554
Q ss_pred eCc
Q 004136 267 TNT 269 (771)
Q Consensus 267 ~~~ 269 (771)
.+.
T Consensus 218 ~d~ 220 (270)
T cd06294 218 FNN 220 (270)
T ss_pred eCC
Confidence 433
No 177
>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=97.53 E-value=0.0097 Score=62.93 Aligned_cols=211 Identities=9% Similarity=0.065 Sum_probs=123.8
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~ 110 (771)
..-.||+++|.. .+.......+++-+.++ . |+.+.+ .++..++..-.+....+. .+++.++|- |......
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~---~--gy~~~i--~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~ 130 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE---A--GYQLLI--ACSDDNPDQEKVVIENLL-ARQVDALIVASCMPPED 130 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH---C--CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCCCCh
Confidence 456899999853 33444555555555443 2 566644 444456665556666666 678887653 3322122
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
.....+...++|+|..... .+ ....+ .+..++...+..+++++...|.++++++.............+.|+
T Consensus 131 -~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 131 -AYYQKLQNEGLPVVALDRS--LD---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred -HHHHHHHhcCCCEEEEccc--cC---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 2233455679999987654 22 12223 366777777888888888889999999975443210044578889
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
+.+++.| +..... +.... + ..+-...+.++.+. .+++|+. ++...+..+++++++.|-.+++...++-
T Consensus 202 ~al~~~~-~~~~~~--~~~~~---~-~~~~~~~~~~ll~~~~~~~~Ai~~--~~D~~A~g~~~al~~~g~vP~dvsvigf 272 (327)
T TIGR02417 202 QALKQAT-LEVEWV--YGGNY---S-RESGYQMFAKLCARLGRLPQALFT--TSYTLLEGVLDYMLERPLLDSQLHLATF 272 (327)
T ss_pred HHHHHcC-CChHhE--EeCCC---C-hHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 9999888 643211 11111 0 01223445555432 3677666 5556677899999999932335555554
Q ss_pred Cc
Q 004136 268 NT 269 (771)
Q Consensus 268 ~~ 269 (771)
+.
T Consensus 273 d~ 274 (327)
T TIGR02417 273 GD 274 (327)
T ss_pred CC
Confidence 43
No 178
>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=97.51 E-value=0.011 Score=60.53 Aligned_cols=201 Identities=15% Similarity=0.095 Sum_probs=120.4
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||++.|.. .+.......+++-+.++. |+.+.+. ++..++..-.+..+.+. ..++.++|--.+......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----gy~v~~~--~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 72 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-----GLSLVLC--ATRNRPERELTYLRWLD-TNHVDGLIFVTNRPDDGALA 72 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-----CCEEEEE--eCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCCHHHHH
Confidence 489999864 444455666666555543 5666444 44446665556566666 77888777532221122233
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
... ..++|+|..... .+. ...+ .+.+++...+..+++.+...|-++++++..+..........+.|++.++
T Consensus 73 ~~~-~~~~pvV~i~~~--~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 73 KLI-NSYGNIVLVDED--VPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHH-hcCCCEEEECCC--CCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 333 357999987754 221 1122 4678889999999999988899999999754332100345788999999
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
+.| ..+.......... + .....+.+.++.+ ..+++|+. ++...+..+++++++.|...+
T Consensus 144 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp 204 (269)
T cd06293 144 EAH-IPEVPEYVCFGDY---T-REFGRAAAAQLLARGDPPTAIFA--ASDEIAIGLLEVLRERGLSIP 204 (269)
T ss_pred HcC-CCCChheEEecCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCc
Confidence 888 5432111111111 0 1223344555543 24677665 566667788999999997543
No 179
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.50 E-value=0.0095 Score=63.46 Aligned_cols=205 Identities=11% Similarity=0.088 Sum_probs=123.4
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||+++|.. .++......+++.+.++. |+.+-+ .++..++....+....++ ++++.+||--.......
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~ 134 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEAQ-----GRMVFL--LQGGKDGEQLAQRFSTLL-NQGVDGVVIAGAAGSSD 134 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCCCCcH
Confidence 456899999864 344455556666555542 455433 445556666666666676 67788666322222233
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
.....+...++|+|..... .+ ....++ +..++...+..++++|...|.++++++..+..........+.|++
T Consensus 135 ~~~~~l~~~~iPvV~~~~~--~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 135 DLREMAEEKGIPVVFASRA--SY---LDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred HHHHHHhhcCCCEEEEecC--CC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 4455667789999987643 11 122233 677888888899999988899999999754332100345678999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
.+++.| +.+.....+.... + .......+.++.+. .+++|+. .+...+..+++.+.+.|+..+
T Consensus 207 al~~~g-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFG-LPFHSEWVLECTS---S-QKQAAEAITALLRHNPTISAVVC--YNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcC-CCCCcceEecCCC---C-hHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCC
Confidence 999888 6543222111111 1 02223344444433 4566554 666777788999999997543
No 180
>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=97.49 E-value=0.021 Score=59.35 Aligned_cols=198 Identities=13% Similarity=0.013 Sum_probs=111.9
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHh-HHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE-TAV 112 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~-~~~ 112 (771)
|||+++|.. .+.......+++-+.++ . |+.+.+...+...+.....+....++ ++++.+||- |..... ...
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~---~--g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~ 74 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH---L--GVELKVLEAGGYPNLDKQLAQIEQCK-SWGADAILLGTVSPEALNHD 74 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH---h--CCEEEEEcCCCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhhhHH
Confidence 589999854 23333444455444443 2 56665543333346666666777777 788987763 322222 122
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-C----CeEEEEEEEeCCCCCCcchHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N----WRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-~----w~~v~ii~~~~~~g~~~~~~~ 187 (771)
+.. +. .++|+|..... .. .. ..+-.+..+....+..+++++..- . -.+++++.............+
T Consensus 75 l~~-~~-~~iPvV~~~~~--~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 75 LAQ-LT-KSIPVFALVNQ--ID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHH-Hh-cCCCEEEEecC--CC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 333 33 49999876432 11 11 123456778788888888888552 1 346999976543220155678
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
.+++.+++.| +++.... .... + ...-...++++.+. ++++| +++...+..+++++++.|..
T Consensus 146 Gf~~al~~~g-~~~~~~~--~~~~---~-~~~~~~~~~~~L~~~~~~d~i---~~~d~~a~g~l~al~~~g~~ 208 (295)
T TIGR02955 146 GFRAALEGSD-VEISAIL--WADN---D-KELQRNLLQDLLKKHPDIDYL---VGSAVAAEAAISELRSLHMT 208 (295)
T ss_pred HHHHHHhcCC-cEEEEEe--cCCC---c-HHHHHHHHHHHHHhCCCcCEE---EeccHHHHHHHHHHHhhCcc
Confidence 8999999888 7765321 1111 1 12233444554433 35653 34555577888999888864
No 181
>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=97.49 E-value=0.011 Score=60.60 Aligned_cols=201 Identities=15% Similarity=0.144 Sum_probs=123.4
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCc-hH--hHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-MET-WE--ETA 111 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~-s~--~~~ 111 (771)
||+++|.. .+.......+++.+.++. |+.+. +.++..++..-.+....++ ++++.++|= +.. .. ...
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~~ 73 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQY-----GYTVL--LCNTYRGGVSEADYVEDLL-ARGVRGVVFISSLHADTHADH 73 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHC-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCCcccchh
Confidence 79999865 444555666666666662 55653 4566667776677777887 678886663 221 11 112
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
.....+...++|+|..... .+. ....+ .+..++...+..+++.+...|-++++++.............+.|++
T Consensus 74 ~~i~~~~~~~ipvV~i~~~--~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 74 SHYERLAERGLPVVLVNGR--APP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred HHHHHHHhCCCCEEEEcCC--CCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 2234456779999988754 221 11223 3777888999999999988899999999754332101455788899
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
.+++.| +............ + .......+.++.+.++++|+. ++...+..+++.+++.|+.-
T Consensus 147 ~~~~~~-~~~~~~~i~~~~~---~-~~~~~~~~~~~l~~~~~ai~~--~~d~~a~g~~~~l~~~g~~i 207 (273)
T cd06292 147 ALEEAG-LEPPEALVARGMF---S-VEGGQAAAVELLGSGPTAIVA--ASDLMALGAIRAARRRGLRV 207 (273)
T ss_pred HHHHcC-CCCChhheEeCCC---C-HHHHHHHHHHHhcCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 998887 5322111111111 0 122334445554444787665 56666778899999999753
No 182
>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=97.45 E-value=0.012 Score=59.99 Aligned_cols=201 Identities=17% Similarity=0.137 Sum_probs=120.4
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||++.|.. .+...+...+++-+.++. |+++. +.++..++..-.+....++ ..++.++|--......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~---- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-----GYKLI--LCNSDNDPEKEREYLEMLR-QNQVDGIIAGTHNLGI---- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-----CCeEE--EecCCccHHHHHHHHHHHH-HcCCCEEEEecCCcCH----
Confidence 378898853 444455666665555553 45544 4555556666666666666 6778866632222221
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~l~~ 191 (771)
..+...++|+|..... .+ ...+ .+.++....++.+++++...|.++++++..... .. ....+.|++
T Consensus 69 ~~~~~~gipvv~~~~~--~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 137 (265)
T cd06291 69 EEYENIDLPIVSFDRY--LS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPT--NLRYEGFLD 137 (265)
T ss_pred HHHhcCCCCEEEEeCC--CC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccch--HHHHHHHHH
Confidence 2445679999988765 22 2223 367777888889999998889999999975433 23 455688999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
.+++.| ..+.... ..... .+ .+..+.+.++.+. .+++|+. ++...+..+++++++.|...+ +...++.
T Consensus 138 ~l~~~~-~~~~~~~-~~~~~--~~--~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~vp~di~v~g~ 208 (265)
T cd06291 138 VLKENG-LEVRIIE-IQENF--DD--AEKKEEIKELLEEYPDIDGIFA--SNDLTAILVLKEAQQRGIRVPEDLQIIGY 208 (265)
T ss_pred HHHHcC-CCCChhe-eeccc--cc--hHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEecc
Confidence 998888 6542211 11111 01 1123344444333 3566555 555567789999999998633 3444433
No 183
>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=97.42 E-value=0.0091 Score=60.72 Aligned_cols=204 Identities=12% Similarity=0.090 Sum_probs=125.3
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+||+++|.. .++......+++.+.++. |+.+. +.++..++....+....+. +.++.++|=..+......+.
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 72 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH-----GYKVV--LLQTNYDKEKELEYLELLK-TKQVDGLILCSRENDWEVIE 72 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCCHHHHH
Confidence 378999864 455667777888777763 45554 4455667777767777776 67888665322221223333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (771)
.+. ..+ |+|..... .+ ...+ .+.++....+..+++.+...|-++++++..+.. .. ....+.|++.
T Consensus 73 ~~~-~~~-pvv~~~~~--~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~~ 139 (260)
T cd06286 73 PYT-KYG-PIVLCEEY--DS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNS--QSRKKAYKDA 139 (260)
T ss_pred HHh-cCC-CEEEEecc--cC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchh--HHHHHHHHHH
Confidence 333 344 88876533 11 2223 477788888999999998889999999976532 33 4567889999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
+++.| ..+.....+....+ ..+-...+.++.+ ..+++|+. ++...+..+++.++++|+..+ +...++-
T Consensus 140 l~~~~-~~~~~~~i~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~ip~di~v~g~ 210 (260)
T cd06286 140 LEEYG-LTPDEEWIFEGCFT----IEDGERIGHQLLKMKDRPDAIFT--GSDEVAAGIITEAKKQGIRVPEDLAIIGF 210 (260)
T ss_pred HHHcC-CCCChHheEeCCCC----HHHHHHHHHHHHcCCCCCCEEEE--cchHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 99888 65432111111111 0223344455443 25676554 777778889999999998533 3333433
No 184
>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=97.39 E-value=0.0087 Score=62.10 Aligned_cols=185 Identities=14% Similarity=0.260 Sum_probs=111.7
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
|||++-..+.+.-.+..+|++-++++..-.. ..+++.+.+..+|+....+.++++. ..++++|+-- .+..+..+..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~--~~~~~~~~~a~~d~~~~~~~~~~l~-~~~~DlIi~~-gt~aa~~~~~ 76 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDE--KNVEIEYKNAEGDPEKLRQIARKLK-AQKPDLIIAI-GTPAAQALAK 76 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--C--CCEEEEEEE-TT-HHHHHHHHHHHC-CTS-SEEEEE-SHHHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCcc--ccEEEEEecCCCCHHHHHHHHHHHh-cCCCCEEEEe-CcHHHHHHHH
Confidence 6888888875555667778887777653331 4678899999999999999998887 6788887753 3444556655
Q ss_pred hhccCCccEEeecCCCCCCCccC----CCCc--eEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC-CCCcchH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMS----RRWP--YLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVY-GGDSGKL 186 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~----~~~p--~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~-g~~~~~~ 186 (771)
..... +|+|-.+.+ +|...+ ...| ++.-+. +.......+++++++ +.++++++|+++.- + ....
T Consensus 77 ~~~~~-iPVVf~~V~--dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~--~~~~ 149 (294)
T PF04392_consen 77 HLKDD-IPVVFCGVS--DPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNS--VAQI 149 (294)
T ss_dssp H-SS--S-EEEECES---TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHH--HHHH
T ss_pred hcCCC-cEEEEEecc--ChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccH--HHHH
Confidence 55544 999877765 443322 2222 444333 445566667777665 56899999987653 3 4567
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~ 242 (771)
+.+++.+++.| +++.... ++. . +++...+..+.+ +.+++++ ..+.
T Consensus 150 ~~~~~~a~~~g-~~l~~~~-v~~-~------~~~~~~~~~l~~-~~da~~~-~~~~ 194 (294)
T PF04392_consen 150 EQLRKAAKKLG-IELVEIP-VPS-S------EDLEQALEALAE-KVDALYL-LPDN 194 (294)
T ss_dssp HHHHHHHHHTT--EEEEEE-ESS-G------GGHHHHHHHHCT-T-SEEEE--S-H
T ss_pred HHHHHHHHHcC-CEEEEEe-cCc-H------hHHHHHHHHhhc-cCCEEEE-ECCc
Confidence 88888888999 8876433 222 2 468888887765 5788888 6554
No 185
>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=97.38 E-value=0.012 Score=59.95 Aligned_cols=205 Identities=15% Similarity=0.135 Sum_probs=126.6
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
.||+++|.. .+.......+++.+.++. |+.+ .+.++..++..-.+....+. ..++.++| .+... ... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-----~~~~--~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~-~~~-~ 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-----GYST--FVANTGDNPDAQRRAIEMLL-DRRVDGLILGDARS-DDH-F 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCC-ChH-H
Confidence 389999864 444455666666666653 4555 34555567766666666666 77888655 44332 222 2
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+ ..++ +..+....+..+++++...|-++++++..+.. .. ....+.|++
T Consensus 71 ~~~~~~~~iPvv~~~~~--~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~ 138 (265)
T cd06285 71 LDELTRRGVPFVLVLRH--AG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTA--RDRLAGFRA 138 (265)
T ss_pred HHHHHHcCCCEEEEccC--CC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccH--HHHHHHHHH
Confidence 34456689999987654 21 2233 56778888889999998889999999986433 33 456788899
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~~~ 268 (771)
.+++.| ..+.......... + .......+.++.+. .+++|+. .+...+..+++.+++.|+.. ++...++-+
T Consensus 139 ~~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 139 ALAEAG-IEVPPERIVYSGF---D-IEGGEAAAEKLLRSDSPPTAIFA--VNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HHHHcC-CCCChhhEEeCCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 999888 6543211111111 1 02223445554333 4576555 66667778999999999853 445555544
Q ss_pred c
Q 004136 269 T 269 (771)
Q Consensus 269 ~ 269 (771)
.
T Consensus 212 ~ 212 (265)
T cd06285 212 D 212 (265)
T ss_pred C
Confidence 3
No 186
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.35 E-value=0.019 Score=61.11 Aligned_cols=203 Identities=12% Similarity=0.114 Sum_probs=121.1
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-+||+++|.. .........+++.+.++. |+.+ .+.++..++..-.+....++ .+++.+||--.......
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~ 129 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK-----GYTL--ILCNAWNNLEKQRAYLSMLA-QKRVDGLLVMCSEYPEP 129 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCCHH
Confidence 345899999875 344555666666666553 4444 44455567776667677776 67788766321111222
Q ss_pred HHHHhhcc-CCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 112 VVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~-~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.+ ..+.. .++|+|..... .+. ..... .+.++....+..+++.+...|-+++++|..... .. ....+.
T Consensus 130 ~~-~~l~~~~~iPvV~~d~~--~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~G 199 (341)
T PRK10703 130 LL-AMLEEYRHIPMVVMDWG--EAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTG--AGRLAG 199 (341)
T ss_pred HH-HHHHhcCCCCEEEEecc--cCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccch--HHHHHH
Confidence 23 34444 69999987644 221 11111 245555667788888887778899999975322 33 455788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
|++.+++.| +++.......... + ..+....+.++.++ .+++|+. ++...+..+++++++.|...+
T Consensus 200 f~~~l~~~g-i~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~~ip 266 (341)
T PRK10703 200 FMKAMEEAN-IKVPEEWIVQGDF---E-PESGYEAMQQILSQKHRPTAVFC--GGDIMAMGAICAADEMGLRVP 266 (341)
T ss_pred HHHHHHHcC-CCCChHHeEeCCC---C-HHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCC
Confidence 999999988 6653321111111 1 12233445554433 4676665 566667789999999997533
No 187
>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=97.33 E-value=0.012 Score=60.33 Aligned_cols=199 Identities=10% Similarity=0.152 Sum_probs=122.4
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHh---HH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEE---TA 111 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~---~~ 111 (771)
||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++....+..++++ +++|.++| .|..+.. ..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~~ 73 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEK-----GYSL--LLASTNNDPERERKCLENML-SQGIDGLIIEPTKSALPNPNI 73 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEeccccccccccH
Confidence 78888764 334445555555444442 4555 45666778887888888888 67898776 3332211 11
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (771)
.....+...++|+|..... .+. .. +..+..++...++.+++++...|.++++++...+. .+ ....+.++
T Consensus 74 ~~~~~~~~~~ipvV~~~~~--~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~--~~r~~g~~ 143 (273)
T cd01541 74 DLYLKLEKLGIPYVFINAS--YEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQG--VKRMKGFI 143 (273)
T ss_pred HHHHHHHHCCCCEEEEecC--CCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccH--HHHHHHHH
Confidence 2333456679999988754 221 12 23577888888999999998889999998875432 22 44567788
Q ss_pred HHHhccCCeEEEEe--eecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 191 EALQNVSSSEIQSR--LVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 191 ~~~~~~g~~~i~~~--~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
+.+++.| ..+... ..+.... ......+.++++.+. .+++|+. ++...+..+++++++.|+..+
T Consensus 144 ~~l~~~~-~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~av~~--~~d~~a~g~~~al~~~g~~~p 210 (273)
T cd01541 144 KAYREHG-IPFNPSNVITYTTEE----KEEKLFEKIKEILKRPERPTAIVC--YNDEIALRVIDLLKELGLKIP 210 (273)
T ss_pred HHHHHcC-CCCChHHEEeccccc----hhhHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 8888888 543211 1111111 002234455555433 4676544 666777789999999998644
No 188
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.32 E-value=0.02 Score=60.58 Aligned_cols=210 Identities=10% Similarity=0.068 Sum_probs=122.0
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~ 110 (771)
..-.||+++|.. .+.......+++-+.++. |+.+.+ .++..++..-.+....+. ++++.++|- |.....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdGiI~~~~~~~~- 125 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFER-----GYSLVL--CNTEGDEQRMNRNLETLM-QKRVDGLLLLCTETHQ- 125 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCcch-
Confidence 456899999864 344455666666666552 556544 455556666666666766 677886653 322111
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.....+....++|+|..... .. ....+ .+..+....+..+++++...|-+++++|..... .. ....+.
T Consensus 126 ~~~~~l~~~~~iPvV~i~~~--~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 195 (327)
T PRK10423 126 PSREIMQRYPSVPTVMMDWA--PF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPA--RLRLEG 195 (327)
T ss_pred hhHHHHHhcCCCCEEEECCc--cC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccch--HHHHHH
Confidence 11111222248999987643 11 11112 255565667888889998889999999975432 23 456788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEE
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWI 265 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i 265 (771)
|++.+++.| +.+.....+.... + ...-...+.++.+. .+++|+. ++...+..+++.+++.|+..+ +...+
T Consensus 196 f~~al~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 196 YRAAMKRAG-LNIPDGYEVTGDF---E-FNGGFDAMQQLLALPLRPQAVFT--GNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHcC-CCCCcceEEeCCC---C-hHHHHHHHHHHhcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999988 6543221111111 0 01222344444332 4676655 666667789999999998643 34444
Q ss_pred eeC
Q 004136 266 VTN 268 (771)
Q Consensus 266 ~~~ 268 (771)
+-+
T Consensus 269 gfd 271 (327)
T PRK10423 269 GYD 271 (327)
T ss_pred EeC
Confidence 443
No 189
>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=97.30 E-value=0.021 Score=58.20 Aligned_cols=203 Identities=13% Similarity=0.167 Sum_probs=122.2
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
.||+++|.. .+.-.....+++.+.++. |+++. +.++..++..-......+. ..++.++|= |...... .
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~--~ 70 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYRA-----GLRVI--LCNTDEDPEKEAMYLELME-EERVTGVIFAPTRATLR--R 70 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCCCCch--H
Confidence 389999876 344456667777666663 56664 4455556665555556666 667775553 3222211 2
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (771)
. .+...++|+|..... .+ ...+++ +..++...+..+++.+.+.|-++++++..... .. ....+.|++.
T Consensus 71 ~-~~~~~~iPvV~~~~~--~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~--~~R~~gf~~~ 139 (263)
T cd06280 71 L-AELRLSFPVVLIDRA--GP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTG--AERRAGYEDA 139 (263)
T ss_pred H-HHHhcCCCEEEECCC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCH--HHHHHHHHHH
Confidence 2 234568999988754 22 233344 45677888888899998889999999876422 22 4557888899
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
+++.| ....... ..... .+-.+.+.++.+. .+++|+. ++...+..+++.+++.|+..+ +...++-+.
T Consensus 140 ~~~~~-~~~~~~~-~~~~~------~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig~d~ 209 (263)
T cd06280 140 MRRHG-LAPDARF-VAPTA------EAAEAALAAWLAAPERPEALVA--SNGLLLLGALRAVRAAGLRIPQDLALAGFDN 209 (263)
T ss_pred HHHcC-CCCChhh-cccCH------HHHHHHHHHHhcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCcEEEEEeCC
Confidence 98888 5432211 11111 2223344444432 4666554 666678889999999998543 444444433
No 190
>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=97.30 E-value=0.049 Score=56.70 Aligned_cols=211 Identities=8% Similarity=-0.052 Sum_probs=121.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v 113 (771)
+||++.|.. .++......+++.+.++. |+++.+. .++..++....+....++ .+++.+||- +..+......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-----g~~v~~~-~~~~~d~~~~~~~i~~~~-~~~~DgiIi~~~~~~~~~~~ 73 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-----GVDAIYV-GPTTADAAGQVQIIEDLI-AQGVDAIAVVPNDPDALEPV 73 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-----CCeEEEE-CCCCCCHHHHHHHHHHHH-hcCCCEEEEecCCHHHHHHH
Confidence 588888753 344455666666666652 4554432 244467777777777777 677886664 3333323344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-CC-eEEEEEEEeCCCCCCcchHHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-~w-~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
...+...++|+|..... .+. .. ..+.....++...+..+++++.+. +- ++++++.............+.|++
T Consensus 74 ~~~~~~~~iPvV~v~~~--~~~---~~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 74 LKKAREAGIKVVTHDSD--VQP---DN-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHCCCeEEEEcCC--CCC---Cc-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 45567789999987654 211 01 123445678888888888988665 43 599999754332100345678889
Q ss_pred HHhccCCeE-EEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEee
Q 004136 192 ALQNVSSSE-IQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (771)
Q Consensus 192 ~~~~~g~~~-i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (771)
.+++.| .. +.......... +. ..-...+.++.++ .+++|+. .+...+..++++++++|+. .....++.
T Consensus 148 ~l~~~g-~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~-~dv~vvG~ 218 (298)
T cd06302 148 YQKEKY-YPMLELVDRQYGDD---DA-DKSYQTAQELLKAYPDLKGIIG--PTSVGIPGAARAVEEAGLK-GKVAVTGL 218 (298)
T ss_pred HHhhcC-CCCeEEeCcccCCC---CH-HHHHHHHHHHHHhCCCceEEEE--CCCcchhHHHHHHHhcCCC-CCEEEEEe
Confidence 998875 22 22111111111 11 2223344444333 3555554 5567788899999999986 33444443
No 191
>PRK09492 treR trehalose repressor; Provisional
Probab=97.25 E-value=0.036 Score=58.20 Aligned_cols=192 Identities=15% Similarity=0.090 Sum_probs=116.8
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-+||+++|.. .+.......++.-+ +++. |+.+ .+.++..++....+....+. ++++.++|-...+...
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~---~~~~--gy~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~- 131 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTMLPA---FYEQ--GYDP--IIMESQFSPEKVNEHLGVLK-RRNVDGVILFGFTGIT- 131 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHHHH---HHHc--CCeE--EEEecCCChHHHHHHHHHHH-hcCCCEEEEeCCCccc-
Confidence 446799999853 33334444555444 3444 4554 44566667766666666666 7788877753222111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEe-C--CCCCCcchHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~~ 188 (771)
.......++|++..... .+ . +-.+..++...+..+++++...|.++++++... . ..+ ....+.
T Consensus 132 --~~~l~~~~~pvv~i~~~--~~-----~---~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~--~~R~~G 197 (315)
T PRK09492 132 --EEMLAPWQDKLVLLARD--AK-----G---FSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTG--KRRHQA 197 (315)
T ss_pred --HHHHHhcCCCEEEEecc--CC-----C---CcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhH--HHHHHH
Confidence 12233456787765532 11 1 224667777888888899988899999999632 2 233 456788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
|++.+++.| +.+... ..... . ..-...+.++.+.++++|+. ++...+..+++++++.|+
T Consensus 198 f~~al~~~g-~~~~~~--~~~~~--~---~~~~~~~~~~l~~~~~ai~~--~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 198 YLAFCKQHK-LTPVAA--LGGLS--M---QSGYELVAKVLTPETTALVC--ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHcC-CCceee--cCCCC--c---hHHHHHHHHHhhcCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 999999999 754321 11111 0 12233444544457888766 556777789999999997
No 192
>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=97.24 E-value=0.023 Score=57.88 Aligned_cols=208 Identities=14% Similarity=0.117 Sum_probs=119.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .+.......+++.+.++ . |+.+. +.++..++..-.+....+. ++++.++|--.+......+.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~---~--gy~~~--~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~~~~ 72 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG---S--GYSPI--IATGHWNQSRELEALELLK-SRRVDALILLGGDLPEEEIL 72 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH---C--CCEEE--EEeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCChHHHH
Confidence 388999864 33334444555444433 2 45554 3455566666556666666 77888666322221112222
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
.+ . .++|+|..... .+ ....+ .+..++...+..+++.+...|-++++++..+..........+.|++.++
T Consensus 73 ~~-~-~~iPvV~i~~~--~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 73 AL-A-EEIPVLAVGRR--VP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HH-h-cCCCEEEECCC--cC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 22 3 48999988754 22 12223 3567888888889998877799999999765332211455688888888
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
+.| ..+.....+.... + .......++++.+. .+++|+. ++...+..+++.+++.|+..+ +...++.+
T Consensus 143 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~aii~--~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 143 EAG-LEVQPDLIVQGDF---E-EESGLEAVEELLQRGPDFTAIFA--ANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HcC-CCCCHHHEEecCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 877 5543211111111 0 01233445555433 4676665 677778888999999998543 34444443
No 193
>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=97.23 E-value=0.028 Score=57.20 Aligned_cols=207 Identities=12% Similarity=0.057 Sum_probs=112.0
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
|||+++|... ....+...+..++++.-++ .|+.+.+ .++. ++....+....+. ..++.+||-.... ....+..
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~-~gy~~~~--~~~~-~~~~~~~~~~~l~-~~~vdgiii~~~~-~~~~~~~ 73 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKE-LGVEVKY--VESV-EDADYEPNLRQLA-AQGYDLIFGVGFG-FMDAVEK 73 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHh-cCceEEE--EecC-CHHHHHHHHHHHH-HcCCCEEEECCcc-hhHHHHH
Confidence 6899998511 1123333343344443222 2455444 4444 5665556666666 6778866542222 2233434
Q ss_pred hhcc-CCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-CCeEEEEEEEeCC-CCCCcchHHHHHHH
Q 004136 116 IASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (771)
Q Consensus 116 ~~~~-~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (771)
.++. .++|++..... .+. ... +-.+..++..-++.++.++... +-++++++..... .. ....+.|++.
T Consensus 74 ~~~~~~~ipvv~~~~~--~~~--~~~---~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~--~~R~~Gf~~~ 144 (260)
T cd06304 74 VAKEYPDVKFAIIDGV--VDA--PPN---VASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEV--NRFINGFAAG 144 (260)
T ss_pred HHHHCCCCEEEEecCc--cCC--CCC---eeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHH--HHHHHHHHHH
Confidence 4443 37898877654 211 011 2234445555555556666554 8899999976422 22 4457788999
Q ss_pred HhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 193 ~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
+++.| ............. ++. ..-.+.++++.+.++++| + +.+...+..++++++++| ...++.+.
T Consensus 145 ~~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~ai-~-~~~d~~A~gv~~al~~~g-----v~vigfD~ 210 (260)
T cd06304 145 AKSVN-PDITVLVIYTGSF--FDP-AKGKEAALALIDQGADVI-F-AAAGGTGPGVIQAAKEAG-----VYAIGVDS 210 (260)
T ss_pred HHHhC-CCcEEEEEEecCc--cCc-HHHHHHHHHHHhCCCCEE-E-EcCCCCchHHHHHHHHcC-----CEEEeecC
Confidence 99887 5433221111111 010 123344556555567876 4 577777778999999998 24555444
No 194
>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=97.20 E-value=0.082 Score=54.20 Aligned_cols=213 Identities=12% Similarity=0.131 Sum_probs=118.7
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
|||++.|.. .+.......+++.+.++.+-. ...+.... ....++..-.+....+. . ++.++| .+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~--~~~~~~~~-~~~~~~~~~~~~i~~~~-~-~vdgiii~~~~~~~~~~~ 75 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA--RIRVRIHF-VESFDPAALAAALLRLG-A-RSDGVALVAPDHPQVRAA 75 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc--CceEEEEE-ccCCCHHHHHHHHHHHH-h-cCCEEEEeCCCcHHHHHH
Confidence 589998864 344455666666666664322 12222222 23345665556666665 5 788665 34333332333
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHc-C--CeEEEEEEEeCCCCCCcchHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N--WRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~-~--w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
...+...++|+|..... .+. ... +..+..++...+..+++++.+. + -++++++.............+.|+
T Consensus 76 i~~~~~~~ipvV~~~~~--~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 76 VARLAAAGVPVVTLVSD--LPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHCCCcEEEEeCC--CCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 45556689999987644 221 111 2335667777777777877554 4 469999976433210044568889
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh--CCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+.+++.+ ..+.......... + ..+....++++.+ .++++|+. ..+. +..+++.+++.|+. .+...++.+
T Consensus 149 ~a~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~-~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEF-PGLRVLETLEGLD---D-PARAYEATRKLLARHPDLVGIYN-AGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhC-CCcEEEeeccCCC---C-hHHHHHHHHHHHHhCCCceEEEE-CCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 9998876 5443222221111 1 1223344555433 25677777 5443 36899999999986 345555554
Q ss_pred c
Q 004136 269 T 269 (771)
Q Consensus 269 ~ 269 (771)
.
T Consensus 220 ~ 220 (275)
T cd06307 220 L 220 (275)
T ss_pred C
Confidence 4
No 195
>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=97.18 E-value=0.027 Score=58.07 Aligned_cols=202 Identities=12% Similarity=0.132 Sum_probs=118.5
Q ss_pred EEEEEeCC------CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 37 IGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 37 IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
||+++|.. .+.......+++-+.++. |+.+.+...+. . .+....++ ..++.++|--.....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~-----g~~~~~~~~~~---~---~~~~~~~~-~~~~dgiii~~~~~~- 68 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDAA-----GVNLLLLPASS---E---DSDSALVV-SALVDGFIVYGVPRD- 68 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHHC-----CCEEEEecCcc---H---HHHHHHHH-hcCCCEEEEeCCCCC-
Confidence 89999862 334445555665555542 56665553322 1 12334444 778887775332222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC-------------
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN------------- 177 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~------------- 177 (771)
......+...++|+|..... .+ . .+-.+..++...+..+++++...|-++++++..+.
T Consensus 69 ~~~~~~~~~~~ipvV~~~~~--~~----~---~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 69 DPLVAALLRRGLPVVVVDQP--LP----P---GVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred hHHHHHHHHcCCCEEEEecC--CC----C---CCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 23344567789999987654 21 1 22347788888999999999888999999997542
Q ss_pred ------CCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHH
Q 004136 178 ------VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLF 249 (771)
Q Consensus 178 ------~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il 249 (771)
... ....+.+.+.+++.| ++......+..... + .......+.++.++ .+++|+. ++...+..++
T Consensus 140 ~~~~~~~~~--~~R~~gf~~~~~~~~-~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~ 211 (283)
T cd06279 140 LASATFSVA--RERLEGYLEALEEAG-IDISDVPIWEIPEN--D-RASGEEAARELLDASPRPTAILC--MSDVLALGAL 211 (283)
T ss_pred ccccccccH--HHHHHHHHHHHHHcC-CCCChheEEecCCC--c-hHHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHH
Confidence 112 345677888888887 54322111111110 1 12344455555433 3566554 6667777899
Q ss_pred HHHHHcCCCCC-CeEEEeeC
Q 004136 250 TEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 250 ~~a~~~g~~~~-~~~~i~~~ 268 (771)
+++++.|+..+ +...++-+
T Consensus 212 ~al~~~g~~ip~di~vig~d 231 (283)
T cd06279 212 QVARELGLRVPEDLSVVGFD 231 (283)
T ss_pred HHHHHcCCCCCCceEEeeeC
Confidence 99999998533 34444443
No 196
>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=97.18 E-value=0.026 Score=57.60 Aligned_cols=205 Identities=10% Similarity=0.092 Sum_probs=121.3
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
+||+++|.+.+...+...+++-+.++. .|+.+-+. ++. + .+....|. ..+|.++|-...+. ....
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~----~g~~~~~~--~~~-~----~~~~~~l~-~~~vdGiI~~~~~~---~~~~ 65 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH----GPWSIYLE--PRG-L----QEPLRWLK-DWQGDGIIARIDDP---EMAE 65 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc----CCeEEEEe--ccc-c----hhhhhhcc-ccccceEEEECCCH---HHHH
Confidence 589999966555566666666666653 24555442 221 1 33344444 77888777433222 2223
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~ 195 (771)
.+...++|+|..... .+. +.+-.+..++...+..+++++...|.++++++....... .....+.|++++++
T Consensus 66 ~l~~~~~PvV~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~-~~~R~~gf~~~~~~ 136 (265)
T cd01543 66 ALQKLGIPVVDVSGS--REK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARW-SDEREEAFRQLVAE 136 (265)
T ss_pred HHhhCCCCEEEEeCc--cCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHH-HHHHHHHHHHHHHH
Confidence 456679999988754 221 123357888888999999999888999999987543311 13446789999999
Q ss_pred cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCC-CCCeEEEeeCc
Q 004136 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTNT 269 (771)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~-~~~~~~i~~~~ 269 (771)
.| ..+.......... .++...-.+.+.++.+. .+++|+. ++...+..+++.+++.|+. +++...++.+.
T Consensus 137 ~~-~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~vigfd~ 208 (265)
T cd01543 137 AG-YECSFFYRGLSTD--AQSWEEEQEELAQWLQSLPKPVGIFA--CTDARARQLLEACRRAGIAVPEEVAVLGVDN 208 (265)
T ss_pred cC-CccccccCccccc--cccHHHHHHHHHHHHhcCCCCcEEEe--cChHHHHHHHHHHHHhCCCCCCceEEEeeCC
Confidence 88 6542111100000 00001223344444332 4666555 6777788889999999984 34455555554
No 197
>PRK09526 lacI lac repressor; Reviewed
Probab=97.16 E-value=0.074 Score=56.59 Aligned_cols=209 Identities=12% Similarity=0.066 Sum_probs=120.4
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc--CCchHh
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--METWEE 109 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG--p~~s~~ 109 (771)
..-.||+++|.. .+.-.....+++.+.++ . |+.+.+...+. .++....+....+. ++++.++|- +..+..
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~---~--g~~~~i~~~~~-~~~~~~~~~l~~l~-~~~vdGiii~~~~~~~~ 134 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ---L--GYSVVISMVER-SGVEACQAAVNELL-AQRVSGVIINVPLEDAD 134 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH---C--CCEEEEEeCCC-ChHHHHHHHHHHHH-hcCCCEEEEecCCCcch
Confidence 345799999864 22334455556555554 2 56766543332 23344445566666 778887663 433322
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
...+. ....++|+|..... + ... +-.+..++...+..++++|...|.++++++.............+.|
T Consensus 135 ~~~~~--~~~~~iPvV~~d~~---~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 135 AEKIV--ADCADVPCLFLDVS---P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred HHHHH--hhcCCCCEEEEecc---C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 22221 22358999876532 1 112 2246778888888899999888999999997643221004456789
Q ss_pred HHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEe
Q 004136 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIV 266 (771)
Q Consensus 190 ~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~ 266 (771)
++.+++.| +.+.... .... +. .+-...+.++.+. .+++|+. ++...+..+++++++.|+..+ +...++
T Consensus 204 ~~al~~~g-i~~~~~~--~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disvig 274 (342)
T PRK09526 204 LEYLTDYQ-LQPIAVR--EGDW---SA-MSGYQQTLQMLREGPVPSAILV--ANDQMALGVLRALHESGLRVPGQISVIG 274 (342)
T ss_pred HHHHHHcC-CCcceEE--eCCC---ch-HHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 99999988 6543221 1111 10 1122334444332 4676655 666777889999999998654 344444
Q ss_pred eC
Q 004136 267 TN 268 (771)
Q Consensus 267 ~~ 268 (771)
-+
T Consensus 275 ~d 276 (342)
T PRK09526 275 YD 276 (342)
T ss_pred eC
Confidence 33
No 198
>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=97.16 E-value=0.029 Score=57.35 Aligned_cols=204 Identities=13% Similarity=0.066 Sum_probs=120.0
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
||++.|.. .++......+++.+.++. |+.+.+...+ .+ ....+...+++...+|.++|--..... .....
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~-----gy~~~~~~~~--~~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~ 72 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQ-----RYDLALFPLL--SL-ARLKRYLESTTLAYLTDGLLLASYDLT-ERLAE 72 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHC-----CCEEEEEeCC--Cc-HHHHHHHHHHHHhcCCCEEEEecCccC-hHHHH
Confidence 78999864 444455666666666663 5666654333 22 222344444343677886553222212 23445
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC--C------CCCCcchHH
Q 004136 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--V------YGGDSGKLA 187 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~--~------~g~~~~~~~ 187 (771)
.+...++|+|..... .+ ..++ +.+++...+..+++.+... .++++++.... . .. ....+
T Consensus 73 ~l~~~~iPvv~~~~~--~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~--~~R~~ 139 (269)
T cd06297 73 RRLPTERPVVLVDAE--NP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVF--AERRA 139 (269)
T ss_pred HHhhcCCCEEEEccC--CC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccH--HHHHH
Confidence 566789999988654 21 2233 4578888888888888666 78999886432 2 23 45588
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEE
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVW 264 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~ 264 (771)
.|++.+++.| +++.....+....+ ..+....+.++.+. .+++|+. ++...+..+++.+++.|...+ +...
T Consensus 140 gf~~~~~~~g-~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vP~di~v 212 (269)
T cd06297 140 GFQQALKDAG-RPFSPDLLAITDHS----EEGGRLAMRHLLEKASPPLAVFA--SADQQALGALQEAVELGLTVGEDVRV 212 (269)
T ss_pred HHHHHHHHcC-CCCChhhEEeCCCC----hhhHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 8999999988 65432211111111 12334455555433 4576665 666678889999999997544 3444
Q ss_pred EeeCc
Q 004136 265 IVTNT 269 (771)
Q Consensus 265 i~~~~ 269 (771)
++-+.
T Consensus 213 vg~d~ 217 (269)
T cd06297 213 VGFDD 217 (269)
T ss_pred EEECC
Confidence 44433
No 199
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.14 E-value=0.0029 Score=66.45 Aligned_cols=69 Identities=20% Similarity=0.276 Sum_probs=48.2
Q ss_pred CCChhHhhhCCceEEEecChHHHHHHHHh---cCCCCCCcc-cCCCCHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEV---LGFRSGNIV-PFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~l~~~---~~~~~~~~~-~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
|++++||. |.++++..++..+.++... .+.....+. .+.+ ..+.+.++.+|++|+++...++......+
T Consensus 121 i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~-~~~~~~al~~G~vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 121 IKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLT-PADARAAFQQGNVDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecC-hHHHHHHHHcCCCCEEEEcCcHHHHHHhc
Confidence 88999998 8889998777666655442 222222222 2334 77889999999999999988877655544
No 200
>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=97.10 E-value=0.077 Score=55.33 Aligned_cols=197 Identities=9% Similarity=-0.006 Sum_probs=115.4
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhHHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~~~v~ 114 (771)
||++.|.. .+.......+++.+.++. |+.+ .+.++..++..-.+....++ .+++.+||= +..........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~-----g~~v--~~~~~~~~~~~q~~~i~~l~-~~~vDgIIi~~~~~~~~~~~l 72 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL-----GAKV--FVQSANGNEAKQISQIENLI-ARGVDVLVIIPQNGQVLSNAV 72 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhHHHHHH
Confidence 56666543 334444445555444443 4544 45677778887777788887 678885553 33333334555
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCe-EEEEEEEeCC--CCCCcchHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNV--YGGDSGKLALLAE 191 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~-~v~ii~~~~~--~g~~~~~~~~l~~ 191 (771)
..+...++|+|..... .+. .+....+..+....++.+++++...+.+ +++++..+.. .. ....+.+++
T Consensus 73 ~~~~~~~iPvV~~d~~--~~~-----~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~--~~R~~g~~~ 143 (302)
T TIGR02634 73 QEAKDEGIKVVAYDRL--IND-----ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNA--KLLRGGQMK 143 (302)
T ss_pred HHHHHCCCeEEEecCc--CCC-----CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcch--HHHHHHHHH
Confidence 5667789999987654 211 1223356678888899999999666655 6888765322 22 334567777
Q ss_pred HHhcc----CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh---CCceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 192 ALQNV----SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 192 ~~~~~----g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~---~~~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
.+++. + +.+.... +.... + ..+....+.++.+ ..+++|+. ++...+..+++++++.|+.
T Consensus 144 ~~~~~~~~~~-~~~~~~~-~~~~~---~-~~~~~~~~~~ll~~~~~~~~aI~~--~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 144 VLQPAIDSGD-IKIVGDQ-WVDGW---L-PENALRIMENALTANDNKVDAVVA--SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhhhccCCC-eEEecCc-CCCCC---C-HHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 77753 3 4432111 11111 1 1233455555543 24676655 5556667889999999985
No 201
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=97.06 E-value=0.0024 Score=66.64 Aligned_cols=69 Identities=13% Similarity=0.128 Sum_probs=47.5
Q ss_pred CCChhHhhhCCceEEEecChHHHHH----HHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKY----LEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~----l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
|++++||+ |.+||+..++..+.+ |+. .+.....+....-...+...++.+|++||++...+......+.
T Consensus 92 I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~-~Gl~~~dv~~v~~~~~~~~~al~~G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 92 IEKPEDLK--GKNVAVPFVSTTHYSLLAALKH-WKTDPREVNILNLKPPQIVAAWQRGDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCChhHcC--CCEEEeCCCCcHHHHHHHHHHH-cCCChhheEEEecCcHHHHHHHHcCCcCEEEEecHHHHHHHhc
Confidence 89999998 999999776654433 332 3333333332222267899999999999999998887655543
No 202
>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=97.04 E-value=0.036 Score=56.36 Aligned_cols=205 Identities=12% Similarity=0.137 Sum_probs=117.9
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
.||+++|.. .++......+++.+.++. |+.+.+...+ +... ....+. ..++.++|-........ ..
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~---~~~~---~~~~l~-~~~vdgii~~~~~~~~~-~~ 67 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN-----GYNMNVSITP---SLAE---AEDLFK-ENRFDGVIIFGESASDV-EY 67 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc-----CCEEEEEecc---cHHH---HHHHHH-HcCcCEEEEeCCCCChH-HH
Confidence 389999865 334445555665555542 4666665443 2322 233444 66788665322222222 22
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
..+...++|+|..... .+ ...+ .+..++...+..+++++...|-++++++.............+.|++.++
T Consensus 68 ~~~~~~~ipvV~~~~~--~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 68 LYKIKLAIPVVSYGVD--YD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHcCCCEEEEccc--CC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 4455789999987654 22 2223 3677888888999999988899999999765432111445678899998
Q ss_pred ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeCc
Q 004136 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTNT 269 (771)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~~ 269 (771)
+.| +.+.......... + .......+.++.+. .+++|+. ++...+..+++.+++.|+..+ +...++.+.
T Consensus 139 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d~ 209 (261)
T cd06272 139 ENG-ISISDSHIDVDGL---S-AEGGDNAAKKLLKESDLPTAIIC--GSYDIALGVLSALNKQGISIPEDIEIISYDN 209 (261)
T ss_pred HcC-CCCCHHHeeeCCC---C-HHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCCceEEEeeCC
Confidence 888 5332211111111 1 02233445555433 3566555 666667788999999998543 344444433
No 203
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.03 E-value=0.046 Score=58.20 Aligned_cols=208 Identities=13% Similarity=0.099 Sum_probs=119.8
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||+++|.- .++......+++.+.++. |+.+ .+.++..++..-.+....++ .+++.++|--.......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~ 129 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT-----GNFL--LIGNGYHNEQKERQAIEQLI-RHRCAALVVHAKMIPDA 129 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHH-hcCCCEEEEecCCCChH
Confidence 457899999853 334444555555554442 4444 44555566666666666776 67888666321111122
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~~~iP-~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.+..+.+ ++| +|..... .+ ....++ +..++...+..+++.+...|.+++++|..... .. ....+.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 197 (343)
T PRK10727 130 ELASLMK--QIPGMVLINRI--LP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDA--EDRLQG 197 (343)
T ss_pred HHHHHHh--cCCCEEEEecC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccch--HHHHHH
Confidence 2333333 677 6665533 11 112222 56777778888888888889999999975433 23 455788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEE
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWI 265 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i 265 (771)
|++.+++.| +.+.......... +. ..-...+.++.+. .+++|+. .+...+..++++++++|+..+ +...+
T Consensus 198 f~~al~~~g-i~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 198 YYDALAESG-IPANDRLVTFGEP---DE-SGGEQAMTELLGRGRNFTAVAC--YNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHHCC-CCCChhhEEeCCC---Ch-hHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 999999988 6543211111111 10 1123344454433 3566655 666777889999999998543 34444
Q ss_pred ee
Q 004136 266 VT 267 (771)
Q Consensus 266 ~~ 267 (771)
+-
T Consensus 271 gf 272 (343)
T PRK10727 271 GF 272 (343)
T ss_pred ee
Confidence 43
No 204
>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=97.01 E-value=0.14 Score=53.27 Aligned_cols=201 Identities=11% Similarity=0.093 Sum_probs=107.3
Q ss_pred EEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEE-ecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchHhHHHH
Q 004136 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (771)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~-~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~~~~~v 113 (771)
||++.|.. .++......+++.+.++. |+ ..+++ .++..++....+....++ .+++.+|| .|..+......
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~-~~~i~~~~~~~d~~~q~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 73 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL-----GS-VYIIYTGPTGTTAEGQIEVVNSLI-AQKVDAIAISANDPDALVPA 73 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh-----CC-eeEEEECCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChHHHHHH
Confidence 57777653 334445556666666554 22 22233 345567777777788887 67788554 34444443444
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeec-CcHHHHHHHHHHH-HHc-CCeEEEEEEEeCCCCCCcchHHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLA-RKY-NWRRVAAIYEDNVYGGDSGKLALLA 190 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p-~~~~~~~a~~~~l-~~~-~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (771)
...+...+||+|..... .+. . +....+.. +....++..++.+ ++. +-.+|+++..+..........+.++
T Consensus 74 l~~~~~~giPvV~~~~~--~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 74 LKKAMKRGIKVVTWDSG--VAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHCCCEEEEeCCC--CCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 45567789999987654 221 1 12333444 3444455555555 332 2368999876533210023457777
Q ss_pred HHHhccC--CeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCC--ceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 191 EALQNVS--SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 191 ~~~~~~g--~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
+.+++.| ..++.... .... + .+.-.+.++++.+.+ +++|+. .....+..+++++++.|..+
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~---~-~~~~~~~~~~~L~~~~~~~ai~~--~~d~~a~ga~~al~~~g~~~ 211 (302)
T TIGR02637 147 KELKDPKYPKVKLVATV--YGDD---D-AQKSYQEAQGLLKSYPNLKGIIA--PTTVGIKAAAQAVSDAKLIG 211 (302)
T ss_pred HHHhhccCCCCEEEeee--cCCc---h-HHHHHHHHHHHHHhCCCccEEEe--CCCchHHHHHHHHHhcCCCC
Confidence 7776643 03332211 1111 1 123344555554444 445444 45666777888888888754
No 205
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.99 E-value=0.084 Score=55.87 Aligned_cols=209 Identities=10% Similarity=0.054 Sum_probs=122.8
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||+++|.- .++..+...+++.+.++. |+++.+ .++..++..-.+....++ .+++.++|-...... .
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~~~-~~~vdgiI~~~~~~~-~ 132 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDAH-----GYQTML--AHYGYKPEMEQERLESML-SWNIDGLILTERTHT-P 132 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHHC-----CCEEEE--ecCCCCHHHHHHHHHHHH-hcCCCEEEEcCCCCC-H
Confidence 345799999853 344455556666655542 455544 455556655555566666 678887764222111 2
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (771)
.....+...++|+|..... .. ... .. .+..++...+..++++|...|.++++++..... .. ....+.|+
T Consensus 133 ~~~~~l~~~~iPvV~~~~~--~~---~~~-~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~--~~R~~Gf~ 202 (331)
T PRK14987 133 RTLKMIEVAGIPVVELMDS--QS---PCL-DI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERT--IIKQKGYE 202 (331)
T ss_pred HHHHHHHhCCCCEEEEecC--CC---CCC-Cc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccH--HHHHHHHH
Confidence 2334456679999975322 11 111 11 377788888888999998889999999965432 22 34568889
Q ss_pred HHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 004136 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (771)
Q Consensus 191 ~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 267 (771)
+.+++.| +... ...+.... +. ..-...++++.+. .+++||. ++...+..+++++++.|+..| +...++.
T Consensus 203 ~al~~~g-~~~~-~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~g~~vP~disvigf 274 (331)
T PRK14987 203 QAMLDAG-LVPY-SVMVEQSS---SY-SSGIELIRQARREYPQLDGVFC--TNDDLAVGAAFECQRLGLKVPDDMAIAGF 274 (331)
T ss_pred HHHHHcC-CCcc-ceeecCCC---Ch-hhHHHHHHHHHhcCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCccEEEee
Confidence 9999888 5311 11111111 00 1122344444432 4677665 677778888999999998654 3444443
Q ss_pred C
Q 004136 268 N 268 (771)
Q Consensus 268 ~ 268 (771)
+
T Consensus 275 D 275 (331)
T PRK14987 275 H 275 (331)
T ss_pred C
Confidence 3
No 206
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.97 E-value=0.0064 Score=61.20 Aligned_cols=92 Identities=15% Similarity=0.140 Sum_probs=54.1
Q ss_pred CCChhHhhhCCceEEEecChHHH-----H-HHHHhcCCCCC---CcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHH
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVK-----K-YLEEVLGFRSG---NIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLD 743 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~-----~-~l~~~~~~~~~---~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~ 743 (771)
|++++||. |.++++...+... . +|.+..+.... +.+...+ .+..+.+|.+|++||.+......+.+..
T Consensus 97 i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~-~~~~~~~l~~G~~Da~~~~~~~~~~~~~ 173 (243)
T PF12974_consen 97 ITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGS-HDAVLEALLNGKADAAAIPSDAFERLEA 173 (243)
T ss_dssp --SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE--HHHHHHHHHTTSSSEEEEEHHHHHHHHH
T ss_pred CCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCC-HHHHHHHHHcCCccEEEEechhHHHHHH
Confidence 89999998 8999885443222 1 22011222211 1222334 8889999999999999999888877665
Q ss_pred hc---CCceeEee-eeeeceEEEEEecC
Q 004136 744 KY---CKKYTAIN-TYRFGGLGFVSNII 767 (771)
Q Consensus 744 ~~---c~~l~~~~-~~~~~~~g~~~~k~ 767 (771)
.. .+.++++. .-...++.++..++
T Consensus 174 ~~~~~~~~~rvl~~s~~~p~~~~~~~~~ 201 (243)
T PF12974_consen 174 EGPDIPSQLRVLWTSPPYPNWPLVASPD 201 (243)
T ss_dssp H-HHHHTTEEEEEEEEEEE--EEEEETT
T ss_pred ccCcccccEEEEEEeCCCCCcEEEEeCC
Confidence 42 45588888 43345566766665
No 207
>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=96.93 E-value=0.11 Score=52.99 Aligned_cols=196 Identities=13% Similarity=0.104 Sum_probs=107.8
Q ss_pred EEEEEEeC----CCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 36 KIGAIVDA----NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 36 ~IG~i~p~----s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
|||++.|. +.+.......|++.+.++. |+.+.+. ++. ++..-.+....++ +.+|.+||--... ...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~-----gy~~~i~--~~~-~~~~~~~~i~~l~-~~~vdgiI~~~~~-~~~ 70 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKEL-----GIEYKYV--ESK-SDADYEPNLEQLA-DAGYDLIVGVGFL-LAD 70 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHc-----CCeEEEE--ecC-CHHHHHHHHHHHH-hCCCCEEEEcCcc-hHH
Confidence 58999986 2334445555555555552 5555554 333 4444455566666 7889988753222 122
Q ss_pred HHHHhhccC-CccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHH
Q 004136 112 VVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (771)
Q Consensus 112 ~v~~~~~~~-~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l 189 (771)
.....+... ++|++..... .+ . .+.+-++..+....+..++.++.. .|-++++++..+.... .....+.+
T Consensus 71 ~~~~~~~~~~~~PiV~i~~~--~~---~--~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~-~~~r~~gf 142 (265)
T cd06354 71 ALKEVAKQYPDQKFAIIDAV--VD---D--PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPL-IRRFEAGF 142 (265)
T ss_pred HHHHHHHHCCCCEEEEEecc--cC---C--CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChH-HHHHHHHH
Confidence 344455554 8999987643 11 1 012223455555555555566654 3889999997543211 02223678
Q ss_pred HHHHhccC---C-eEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcC
Q 004136 190 AEALQNVS---S-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (771)
Q Consensus 190 ~~~~~~~g---~-~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g 256 (771)
++.+++.| . .+.... .....+ + ..+-.+.++++.+.++++|+. .+...+..++++++++|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~--~~~~~~--~-~~~~~~~~~~ll~~~pdaI~~--~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQ--YAGSFN--D-PAKGKEIAQAMYDQGADVIFA--AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEE--EcCccc--C-HHHHHHHHHHHHHCCCcEEEE--CCCCCchHHHHHHHhcC
Confidence 88887655 1 222111 111110 0 012334556655556887665 56667778899999998
No 208
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.88 E-value=0.12 Score=55.01 Aligned_cols=209 Identities=11% Similarity=0.088 Sum_probs=120.7
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
..-.||+++|.. .+.......+++-+.++. |+.+ .+.++..++..-.+....+. ++++.++|--.......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~-----gy~~--~~~~~~~~~~~~~~~i~~l~-~~~vdGiIi~~~~~~~~ 129 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH-----QKYV--LIGNSYHEAEKERHAIEVLI-RQRCNALIVHSKALSDD 129 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEcCCCChHHHHHHHHHHH-hcCCCEEEEeCCCCChH
Confidence 456799999854 344455566666655543 4444 34555556665556666666 67788666321111122
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHH
Q 004136 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (771)
Q Consensus 112 ~v~~~~~~~~iP-~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (771)
.+..+.. ++| +|..... .+. ...++ +..++...+..+++++...|-+++++|..... .. ....+.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~~---~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 197 (346)
T PRK10401 130 ELAQFMD--QIPGMVLINRV--VPG---YAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDD--AMRRAG 197 (346)
T ss_pred HHHHHHh--cCCCEEEEecc--cCC---CCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcch--HHHHHH
Confidence 2333333 355 6655533 121 12232 56677777788888888889999999975433 23 456788
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEE
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWI 265 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i 265 (771)
|++.+++.| +.+.......... +. ..-...+.++.+. .+++|+. ++...+..+++++++.|+..| +...+
T Consensus 198 f~~al~~~g-i~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 198 WMSALKEQG-IIPPESWIGTGTP---DM-QGGEAAMVELLGRNLQLTAVFA--YNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHHHHcC-CCCChhheecCCC---Ch-HHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999988 6533211111111 11 1222344444332 4677665 667777889999999998654 34444
Q ss_pred eeC
Q 004136 266 VTN 268 (771)
Q Consensus 266 ~~~ 268 (771)
+.+
T Consensus 271 gfD 273 (346)
T PRK10401 271 GFD 273 (346)
T ss_pred EeC
Confidence 433
No 209
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.80 E-value=0.13 Score=53.84 Aligned_cols=203 Identities=16% Similarity=0.110 Sum_probs=119.0
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~ 111 (771)
.+-+||++.|.. ..+...+..+++.+.++. |+.+. +.+...+...-.+....+. ..++++||=-.......
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~ 105 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH-----GYLVL--IGDCAHQNQQEKTFVNLII-TKQIDGMLLLGSRLPFD 105 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCChH
Confidence 457899999864 445566677777777664 44544 3455556666666666766 67888666321211111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 112 ~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
... .......|++..... .+. ...+ .+..++...+..+++.+.+.|-++++++.............+.|++
T Consensus 106 ~~~-~~~~~~~pvv~~~~~--~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~ 176 (309)
T PRK11041 106 ASK-EEQRNLPPMVMANEF--APE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQ 176 (309)
T ss_pred HHH-HHHhcCCCEEEEccc--cCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHH
Confidence 111 122223467665543 221 1223 3667888888888898888899999999754332100445788999
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
.+++.| +++.......... + .......+.++.+. .+++|+. ++...+..+++++++.|+..
T Consensus 177 ~~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~~al~~~g~~i 239 (309)
T PRK11041 177 ALRRCG-ITVDPQYIARGDF---T-FEAGAKALKQLLDLPQPPTAVFC--HSDVMALGALSQAKRMGLRV 239 (309)
T ss_pred HHHHcC-CCCCHHHeEeCCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 999888 6543221111111 1 12233455555433 3677666 56666668899999999753
No 210
>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=96.73 E-value=0.18 Score=52.78 Aligned_cols=191 Identities=12% Similarity=0.016 Sum_probs=113.1
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~s~~~ 110 (771)
..-.||+++|.- .+.......++.-+.++ . |+.+ .+.++..++....+....+. ..++.++|- |......
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~---~--gy~~--~i~~~~~~~~~~~~~~~~l~-~~~vdGvIi~~~~~~~~ 129 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFYT---A--GYDP--IIMESQFSPQLTNEHLSVLQ-KRNVDGVILFGFTGCDE 129 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHHH---C--CCeE--EEecCCCChHHHHHHHHHHH-hcCCCEEEEeCCCCCCH
Confidence 345799999853 22223333444433333 3 4554 44455556665555555555 677886663 2211111
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEe-C--CCCCCcchHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLA 187 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~ 187 (771)
. .....++|+|..... .+ ..+ .+.+++...+..++++|...|-+++++|... . ..+ ....+
T Consensus 130 ~----~l~~~~~p~V~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~--~~R~~ 193 (311)
T TIGR02405 130 E----ILESWNHKAVVIARD--TG-----GFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTG--LMRHN 193 (311)
T ss_pred H----HHHhcCCCEEEEecC--CC-----Ccc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhH--HHHHH
Confidence 1 223457888766533 11 122 4677888888889999988899999999732 2 234 45678
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
.|++.+++.| +.... ..... + .......++++.+.++++||. ++..-+..+++.+++.|.
T Consensus 194 gf~~a~~~~g-i~~~~---~~~~~---~-~~~~~~~~~~~l~~~~tAi~~--~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 194 AYLAYCESAN-LEPIY---QTGQL---S-HESGYVLTDKVLKPETTALVC--ATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHHHcC-CCcee---eeCCC---C-HHHHHHHHHHHHhcCCCEEEE--CCcHHHHHHHHHHHHcCC
Confidence 8999999999 75211 11111 0 022233444443346787665 777778888999999996
No 211
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=96.68 E-value=0.0082 Score=60.79 Aligned_cols=74 Identities=14% Similarity=0.167 Sum_probs=47.9
Q ss_pred CCChhHhhh-----CCceEEE-ecChHHHHHHHH---hcCCCC-CCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHH
Q 004136 673 VTDIQSLKS-----GNLKVGC-VDDSFVKKYLEE---VLGFRS-GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (771)
Q Consensus 673 i~~~~dL~~-----~~~~~g~-~~~s~~~~~l~~---~~~~~~-~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~ 742 (771)
+++++||.+ .|.++++ ..++..+..++. ..+... ..+....-...+..+++++|++|+++...++.....
T Consensus 106 ~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~~~~~~al~~g~iDa~~~~eP~~~~~~ 185 (252)
T PF13379_consen 106 IKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPPPEMVAALRAGEIDAAVLWEPFASQAE 185 (252)
T ss_dssp TCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--GHHHHHHHHTTS-SEEEEETTHHHHHH
T ss_pred ccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCHHHHHHHHhCCCcCEEEecCCHHHHHH
Confidence 899999932 4899999 555555433332 234444 333322212689999999999999999999988776
Q ss_pred HhcC
Q 004136 743 DKYC 746 (771)
Q Consensus 743 ~~~c 746 (771)
++.-
T Consensus 186 ~~g~ 189 (252)
T PF13379_consen 186 AKGI 189 (252)
T ss_dssp HTTS
T ss_pred hccC
Confidence 5543
No 212
>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=96.61 E-value=0.25 Score=50.75 Aligned_cols=205 Identities=12% Similarity=0.022 Sum_probs=110.5
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCc-hHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~-s~~~~~v 113 (771)
+||++.|.. .+.-.....+++.+.++. |+. +.+.++..++..-.+....++ .+++.+||=... .......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~-----gy~--~~~~~~~~~~~~~~~~i~~l~-~~~vdgiil~~~~~~~~~~~ 73 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI-----GWN--LRILDGRGSEAGQAAALNQAI-ALKPDGIVLGGVDAAELQAE 73 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc-----CcE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCHHHHHHH
Confidence 588888754 333344555555555543 444 444566667776667677776 788886664322 1212222
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCc-eEEEeecCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcchHHHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWP-YLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALL 189 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p-~~fr~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l 189 (771)
...+...++|+|..... ... .....+ .+-.+..++...+..++++|... |-++++++..... .. ....+.+
T Consensus 74 ~~~~~~~~iPvV~~d~~--~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~--~~r~~~~ 148 (280)
T cd06315 74 LELAQKAGIPVVGWHAG--PEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIA--KAKANAM 148 (280)
T ss_pred HHHHHHCCCCEEEecCC--CCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccH--HHHHHHH
Confidence 33455679999987653 111 111011 13446777788888889988665 8889998864322 11 1012344
Q ss_pred HHHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC---CceEEEEEecChhHHHHHHHHHHHcCCCCC
Q 004136 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (771)
Q Consensus 190 ~~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vIv~~~~~~~~~~~il~~a~~~g~~~~ 260 (771)
+..++.. + ..+.......... + .......++++.+. .+++|+. ++...+..+++.++++|+..+
T Consensus 149 ~~~~~a~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~ai~~--~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 149 KEIIEACKG-CTVLSIEDVPISR---T-ATRMPALTARLLQRYGDKWTHSLA--INDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHHhCCC-CEEEEecccCcch---h-hhhhHHHHHHHHHhcCcccceecc--cchhhhHHhHHHHHHhcccCC
Confidence 4444432 2 2332111111111 0 01112334444332 3676555 777777888999999998643
No 213
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=96.54 E-value=0.037 Score=54.49 Aligned_cols=69 Identities=16% Similarity=0.221 Sum_probs=43.2
Q ss_pred CCChhHhhhCCceEEEecChHHHHHHHH---hcCCCCCCcccCCCCHHHHHHHHHcCCceEEE-ecchhHHHHHH
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEE---VLGFRSGNIVPFGNTEANYIQKFENNTIDSLF-LERPYEKVFLD 743 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~l~~---~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i-~~~~~~~~~~~ 743 (771)
|+++.||+ |.+||+..++....++.. ..+...+.+........+...+|.+|++||.+ .......+.++
T Consensus 85 i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~~~~~~~~~~~~~ 157 (216)
T PF09084_consen 85 IKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAILWYPPWEPYEIA 157 (216)
T ss_dssp -SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEEEEEECTCHHHHH
T ss_pred CCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEEEccCChHHHHHH
Confidence 99999999 999999887655544333 24444444443222366777799999999999 44443333443
No 214
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=96.53 E-value=0.012 Score=61.54 Aligned_cols=70 Identities=16% Similarity=0.234 Sum_probs=50.1
Q ss_pred CCChhHhhhCCceEEEecChHHHHHHHHh---cCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEV---LGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~l~~~---~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
|+|++||+ |.+||+..++..+.++... .+.....+....-...+...++.+|++||...-.++......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 89999999 9999998887776555442 3333333332222367889999999999999988886654443
No 215
>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=96.45 E-value=0.18 Score=51.47 Aligned_cols=197 Identities=13% Similarity=0.056 Sum_probs=111.6
Q ss_pred EEEEEEeCC------CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-cCCchH
Q 004136 36 KIGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWE 108 (771)
Q Consensus 36 ~IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~s~ 108 (771)
|||++.+.+ .+....+..+++.+.++. |+.+.+... ..+. .+. .+++.++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~--~~~~--------~~~-~~~vdgii~~~~~~~ 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL-----GIELTKFFR--DDDL--------LEI-LEDVDGIIAIGKFSQ 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc-----CCEEEEEec--cchh--------HHh-ccCcCEEEEecCCCH
Confidence 589999854 233344444555444442 556655433 2211 112 46677555 222222
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-------CCC
Q 004136 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-------YGG 181 (771)
Q Consensus 109 ~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~-------~g~ 181 (771)
.....+...++|+|..... . .+...+ .+..++...+..+++.+.+.|-++++++..... ..
T Consensus 65 ---~~~~~~~~~~~pvV~~~~~--~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~- 132 (270)
T cd01544 65 ---EQLAKLAKLNPNLVFVDSN--P---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIE- 132 (270)
T ss_pred ---HHHHHHHhhCCCEEEECCC--C---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhh-
Confidence 3334456678999987644 1 122233 367788888899999998889999999986532 22
Q ss_pred CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC----CceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 182 ~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~----~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
....+.|++.+.+.| .. .....+.... + .......++++.+. .+++|+. ++...+..+++.+++.|+
T Consensus 133 -~~R~~gf~~~~~~~~-~~-~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~ 203 (270)
T cd01544 133 -DPRETAFREYMKEKG-LY-DPELIYIGDF---T-VESGYQLMKEALKSLGDNLPTAFFI--ASDPMAIGALRALQEAGI 203 (270)
T ss_pred -hHHHHHHHHHHHHcC-CC-ChheEeeCCC---C-HHHHHHHHHHHHhccCCCCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 445778888998887 41 1111111111 1 01223344443322 3565554 677778889999999998
Q ss_pred CCC-CeEEEeeCc
Q 004136 258 VGK-DSVWIVTNT 269 (771)
Q Consensus 258 ~~~-~~~~i~~~~ 269 (771)
..+ +...++.+.
T Consensus 204 ~vp~di~v~g~d~ 216 (270)
T cd01544 204 KVPEDVSVISFND 216 (270)
T ss_pred CCCCceEEEEECC
Confidence 643 444444443
No 216
>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=96.17 E-value=0.28 Score=49.68 Aligned_cols=197 Identities=11% Similarity=0.039 Sum_probs=102.4
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
|||+++|-. .....+-.+...+++++.++ .|.+ +.+.+...++....+.+++++ ++++.+||+... ....++..
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~-~gv~--~~~~e~~~~~~~~~~~i~~~~-~~g~dlIi~~g~-~~~~~~~~ 74 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKA-LGVE--VTYVENVPEGADAERVLRELA-AQGYDLIFGTSF-GFMDAALK 74 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHh-cCCe--EEEEecCCchHhHHHHHHHHH-HcCCCEEEECch-hhhHHHHH
Confidence 588888744 11122233333344444433 2344 444555547788888888898 688999998433 33444444
Q ss_pred hhccC-CccEEeecCCCCCCCccCCCCceEEEeecCc---HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 004136 116 IASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASND---SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (771)
Q Consensus 116 ~~~~~-~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~---~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (771)
++..+ ++.++..... . . .|++....... ..++-.++..+.. -.+|++|...+.... ......|.+
T Consensus 75 vA~~~p~~~F~~~d~~--~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~-~~~~~gF~~ 143 (258)
T cd06353 75 VAKEYPDVKFEHCSGY--K---T---APNVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIPEV-VRGINAFAL 143 (258)
T ss_pred HHHHCCCCEEEECCCC--C---C---CCCeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccHHH-HHHHHHHHH
Confidence 44443 3334433222 1 1 13333332221 2333344444443 358999987543210 344566766
Q ss_pred HHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 192 ~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
-++..+ -.+.....+... ..|+ ..-......+.+.++|+|+- .+. ...+++++++.|.
T Consensus 144 G~~~~~-p~~~v~~~~~g~--~~D~-~~a~~~a~~l~~~G~DvI~~-~~~---~~g~~~aa~~~g~ 201 (258)
T cd06353 144 GARSVN-PDATVKVIWTGS--WFDP-AKEKEAALALIDQGADVIYQ-HTD---SPGVIQAAEEKGV 201 (258)
T ss_pred HHHHHC-CCcEEEEEEecC--CCCc-HHHHHHHHHHHHCCCcEEEe-cCC---ChHHHHHHHHhCC
Confidence 666444 233322222221 1121 22355556677789998888 662 2467888888873
No 217
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.93 E-value=0.98 Score=45.28 Aligned_cols=203 Identities=11% Similarity=0.102 Sum_probs=120.1
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeE-EEEcCCchHhH
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEET 110 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~-aviGp~~s~~~ 110 (771)
+...||+..|-- ...+..-..++.-+.+.+ |.+..+.. ...+...-......++ .+++. .||++..+...
T Consensus 24 ~d~~IGis~~d~~~eRW~~D~~~~~~~~e~~-----g~k~~~q~--A~~~~~~Q~~qien~i-~qg~~vlvi~a~d~~~l 95 (341)
T COG4213 24 KDGVIGISMPDLRSERWIKDRDAFVKKAEAL-----GAKVDVQS--ADGDEEKQLAQIENMI-NQGVKVLVIGAIDGGVL 95 (341)
T ss_pred cCCeEEEEcCChhHhhhhhhhHHHHHHHHhc-----cchhhhhh--hccChhHHHHHHHHHH-hcCCCEEEEEeccchhH
Confidence 567899988775 333444445555555544 45554444 4445667777889999 56666 66789999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCc----HHHHHHHHHHHHHcC---CeEEEEEEE-e-CC---
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASND----SEQMKCIADLARKYN---WRRVAAIYE-D-NV--- 178 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~----~~~~~a~~~~l~~~~---w~~v~ii~~-~-~~--- 178 (771)
..+...+...+||+|++.- .+.+....|. +.-+. ..|+.++.+-++... -..+.++.. . |+
T Consensus 96 ~~~i~~A~~~gikViaYDR-----lI~n~dvd~Y--vsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~ 168 (341)
T COG4213 96 SNAVEKAKSEGIKVIAYDR-----LINNADVDFY--VSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNAK 168 (341)
T ss_pred HHHHHHHHHcCCeEEEeec-----ccccCCccEE--EEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcchH
Confidence 9999999999999998763 3333444443 23333 344555555554333 223444442 2 22
Q ss_pred -CCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh---CCceEEEEEecChhHHHHHHHHHHH
Q 004136 179 -YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANR 254 (771)
Q Consensus 179 -~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~---~~~~vIv~~~~~~~~~~~il~~a~~ 254 (771)
+- .+..+.|+.++..-. +.++.....+... + +.-.+.+..+.. .+.+.|+- . +...+..++.++..
T Consensus 169 lf~--~G~m~VLkp~idsGk-ik~~Ge~~~d~W~----p-s~Aq~~men~lta~~~~vdaVvA-~-nDgtagGaI~aL~a 238 (341)
T COG4213 169 LFF--AGAMKVLKPLIDSGK-IKVVGEQWTDGWL----P-SNAQQIMENLLTANYNDIDAVVA-P-NDGTAGGAIAALKA 238 (341)
T ss_pred HHH--hcHHHHHHHHhhCCc-eEEeeeccccccC----H-HHHHHHHHHHHhcccCceeEEEc-C-CCchhHHHHHHHHh
Confidence 21 334555666555544 6665544444332 1 223333443332 25677666 4 44778888999999
Q ss_pred cCCCCC
Q 004136 255 MGLVGK 260 (771)
Q Consensus 255 ~g~~~~ 260 (771)
+|+-++
T Consensus 239 ~Gl~g~ 244 (341)
T COG4213 239 QGLAGK 244 (341)
T ss_pred cccCCC
Confidence 999866
No 218
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=95.91 E-value=0.083 Score=55.61 Aligned_cols=58 Identities=19% Similarity=0.296 Sum_probs=38.5
Q ss_pred CCChhHhhhCCceEEEec-ChHHH----HHHHHhcCCCCCCc--ccCCCCHHHHHHHHHcCCceEEEec
Q 004136 673 VTDIQSLKSGNLKVGCVD-DSFVK----KYLEEVLGFRSGNI--VPFGNTEANYIQKFENNTIDSLFLE 734 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~-~s~~~----~~l~~~~~~~~~~~--~~~~~~~~~~~~~v~~~~~~a~i~~ 734 (771)
+++++||. +.++++.. ++... .+++. .+.....+ ..+.+ ..+.+++|.+|++|+++.+
T Consensus 133 i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~-~G~~~~~~~~v~~~~-~~~~~~al~~G~vDa~~~~ 197 (320)
T TIGR02122 133 IKTVADLK--GKRVAVGAPGSGTELNARAVLKA-AGLTYDDVKKVEYLG-YAEAADALKDGKIDAAFYT 197 (320)
T ss_pred CCcHHHcC--CCEEecCCCCcchHHHHHHHHHH-cCCCHHHccchhcCC-HHHHHHHHHCCCccEEEEe
Confidence 78999998 67777643 33332 23333 23322222 45666 8899999999999999988
No 219
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=95.79 E-value=0.032 Score=54.07 Aligned_cols=135 Identities=19% Similarity=0.259 Sum_probs=81.0
Q ss_pred ccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEe-------eeccceeeeecccceeeccEE
Q 004136 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLT-------ILGNRTEYVEFTQPYAESGFS 558 (771)
Q Consensus 486 ~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~-------~t~~r~~~~~fs~p~~~~~~~ 558 (771)
+++|+.--|.+.+.+ .++.+.+-+.. .-..-++.|.+|++||++.+.. -.....-.++|..--+.+...
T Consensus 25 ~YEGLATGl~~~f~~-~~ip~~~aymR---Ga~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~sYvs~Hv 100 (232)
T PF14503_consen 25 RYEGLATGLYEQFEE-SGIPLNFAYMR---GAENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPGSYVSEHV 100 (232)
T ss_dssp HHHHHHHHHHCTTT---TS-EEEEE-S----HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TTSSS--EE
T ss_pred hhHHHHHHHHHHhcc-CCCceEEEeec---cchHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCCCcccceE
Confidence 899999999888877 77776666666 2566799999999999987621 123344457777666667777
Q ss_pred EEEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccCcccccchhh
Q 004136 559 MIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLT 638 (771)
Q Consensus 559 ~~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 638 (771)
++++.+...
T Consensus 101 li~~~~~~~----------------------------------------------------------------------- 109 (232)
T PF14503_consen 101 LIFRDGEKK----------------------------------------------------------------------- 109 (232)
T ss_dssp EEEETT-GG-----------------------------------------------------------------------
T ss_pred EEEecCCcc-----------------------------------------------------------------------
Confidence 777766532
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHH
Q 004136 639 RVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEAN 718 (771)
Q Consensus 639 Rl~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~ 718 (771)
.++| |++||+...|..+..+.+. .+...++....-.-.+
T Consensus 110 ------------------------------------~i~d----GmRVGiD~~S~Dq~~LT~~-~~~gk~Ve~Vei~Y~q 148 (232)
T PF14503_consen 110 ------------------------------------EIED----GMRVGIDPSSIDQKILTEA-EFEGKNVEFVEIPYNQ 148 (232)
T ss_dssp ------------------------------------G---------EEEE-TT-HHHHHHHHH-HHTTS--EEEE--HHH
T ss_pred ------------------------------------ceee----eeEeecCCCCccHHHHHHH-HhCCCceEEEEecHHH
Confidence 2222 8899999999999888874 3344444433334778
Q ss_pred HHHHHHcCCceEEEecch
Q 004136 719 YIQKFENNTIDSLFLERP 736 (771)
Q Consensus 719 ~~~~v~~~~~~a~i~~~~ 736 (771)
+++++.+|++||.|....
T Consensus 149 ~~~~l~~g~IDA~IWN~d 166 (232)
T PF14503_consen 149 LLELLRSGEIDAAIWNYD 166 (232)
T ss_dssp HHHHHHHTS--EEEEE--
T ss_pred HHHHHHCCCccEEEECCc
Confidence 999999999999999876
No 220
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=95.64 E-value=0.081 Score=54.59 Aligned_cols=69 Identities=10% Similarity=0.262 Sum_probs=47.0
Q ss_pred CCChhHhhhCCceEEEecChHHHHHHHHh---cCCCCCCccc-CCCCHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEV---LGFRSGNIVP-FGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~l~~~---~~~~~~~~~~-~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
|++++||. |.++|+..++.....+... .+.....+.. +.+ ..+.++++.+|++|+++...+.......+
T Consensus 93 i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~-~~~~~~al~~g~vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 93 IRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLG-PSDARAAFAAGQVDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecC-cHHHHHHHHCCCCCEEEeccchHhHHhhc
Confidence 89999999 8899987665544433321 2333322322 234 67889999999999999988887655543
No 221
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.51 E-value=0.2 Score=51.37 Aligned_cols=96 Identities=13% Similarity=0.086 Sum_probs=60.2
Q ss_pred CCCChhHhhhCCceEEEecChHHH------HHHHHhcCCCC-CCc--ccCCCCHHHHHHHHHcCCceEEEecchhHHHHH
Q 004136 672 NVTDIQSLKSGNLKVGCVDDSFVK------KYLEEVLGFRS-GNI--VPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (771)
Q Consensus 672 ~i~~~~dL~~~~~~~g~~~~s~~~------~~l~~~~~~~~-~~~--~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~ 742 (771)
+|++++||+ |.+++...-++.- .+|......+. .-+ +.|..+-+.++.+|.+|++|+............
T Consensus 135 ~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~~ 212 (299)
T COG3221 135 PIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGLLK 212 (299)
T ss_pred CcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHHHhhhh
Confidence 499999999 8898884332222 23433221111 111 122323778999999999999998887777655
Q ss_pred HhcC----CceeEee-eeeeceEEEEEecCCC
Q 004136 743 DKYC----KKYTAIN-TYRFGGLGFVSNIIYS 769 (771)
Q Consensus 743 ~~~c----~~l~~~~-~~~~~~~g~~~~k~s~ 769 (771)
.... ++++++. .-...+..++++++-|
T Consensus 213 ~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~ 244 (299)
T COG3221 213 KAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLP 244 (299)
T ss_pred hcccccchhhceEEEecCCCCCCCEEEeCCCC
Confidence 5443 3577877 5455667777776643
No 222
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=95.37 E-value=3 Score=44.01 Aligned_cols=206 Identities=14% Similarity=0.122 Sum_probs=105.9
Q ss_pred CcEEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEec--CCCCHHHHHHHHHHHHhcCCeEEEEcCCch
Q 004136 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAGMETW 107 (771)
Q Consensus 33 ~~I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D--~~~~~~~a~~~~~~li~~~~v~aviGp~~s 107 (771)
+..+++++.+-. ....+....|.+.+-++. |.+++..... ...+.....+..+++. +++..+|+|....
T Consensus 34 ~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~g~~lI~~~gf~ 107 (345)
T COG1744 34 KKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL-----GLKVETYYWEYVQSDSEADYERALRALA-EDGYDLIFGTGFA 107 (345)
T ss_pred cceEEEEEecCCCCccchhHHHHHHHHHHHHHh-----CCceEeeeeeecCCcchhHHHHHHHHHH-hcCCCEEEEeccc
Confidence 456666665543 223455556666555544 3344443222 2334566667777777 6677777775443
Q ss_pred HhHHHHHHhhccC-CccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeC-CCCCCcch
Q 004136 108 EETAVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGK 185 (771)
Q Consensus 108 ~~~~~v~~~~~~~-~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~-~~g~~~~~ 185 (771)
...++..++.++ ++.++-..+. ..-.++...+.||..-.....+.+.+.+.+ -.+++.+..-+ +-- ..+
T Consensus 108 -~~d~~~~va~~~Pd~~F~iid~~---~~~~~Nv~s~~f~~~egayL~G~~AA~~sk---~~~vG~vgg~~~p~v--~~f 178 (345)
T COG1744 108 -FSDALEKVAAEYPDVKFVIIDGV---VKKEDNVASYVFREYEGAYLAGVAAAKMSK---SGKVGFVGGMDIPEV--NRF 178 (345)
T ss_pred -hhhHHHHHHHHCCCCEEEEecCc---cCCCCceEEEEeccccHHHHHHHHHHHhhc---CCceeEEecccchhh--HHH
Confidence 344444444444 3333332222 111113345666766554333333333334 34556555433 222 455
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCC
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~ 259 (771)
...|..-++..+ -.+.....+.. +..|+.. -......+.+.++|||+- .+.+.... .+.+|++.+...
T Consensus 179 ~~gF~~Gak~~n-p~i~v~v~~~g--sf~D~~k-~k~~a~~li~~GaDVI~~-~ag~~~~g-v~~~A~~~~~~~ 246 (345)
T COG1744 179 INGFLAGAKSVN-PDIKVKVVYVG--SFSDPAK-GKEAANALIDQGADVIYP-AAGGTGVG-VFQAAKELGAYA 246 (345)
T ss_pred HHHHHHHHHhhC-CCccEEEEEec--CccChHH-HHHHHHHHHhcCCCEEEe-cCCCCcch-HHHHHHHhCCCe
Confidence 667777777766 33333333322 2223222 344777888899999998 65554333 333777777644
No 223
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=94.81 E-value=0.18 Score=52.97 Aligned_cols=66 Identities=14% Similarity=0.208 Sum_probs=45.6
Q ss_pred CCChhHhhhCCceEEEecChHHHH----HHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHH
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKK----YLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF 741 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~ 741 (771)
|++++||+ |++||+..++.... +++. .+.....+........+...++.+|++||.+.-.+.....
T Consensus 114 I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~-~Gl~~~dv~~v~~~~~~~~~Al~~G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 114 ISKPEDLI--GKRIAVPFISTTHYSLLAALKH-WGIKPGQVEIVNLQPPAIIAAWQRGDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCChHHcC--CCEEecCCCCchHHHHHHHHHH-cCCCHhheEEEECCcHHHHHHHHcCCcCEEEEcchHHHHH
Confidence 89999998 99999976654433 3433 4444444443332367889999999999988877765433
No 224
>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=94.67 E-value=3.6 Score=41.88 Aligned_cols=148 Identities=12% Similarity=0.076 Sum_probs=89.3
Q ss_pred cCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEE
Q 004136 95 KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (771)
Q Consensus 95 ~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~ 174 (771)
..++.++|-.........+ ..+...++|+|..... ... ....++ +..++...+..+++.+...|-+++++|.
T Consensus 54 ~~~vdgiIi~~~~~~~~~~-~~l~~~~iPvV~i~~~--~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 54 ALDIDGAILVEPMADDPQV-ARLRQRGIPVVSIGRP--PGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred ccCcCeEEEecCCCCCHHH-HHHHHcCCCEEEeCCC--CCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 6678865532111111222 3345569999988654 210 122333 4567777788888999888999999997
Q ss_pred EeCC--CCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHH
Q 004136 175 EDNV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFT 250 (771)
Q Consensus 175 ~~~~--~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~ 250 (771)
.... .. ....+.|++++++.| ..... ....... + ..+-.+.++++.+. .+++|+. ++...+..+++
T Consensus 126 ~~~~~~~~--~~R~~gf~~a~~~~g-~~~~~-~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~gvl~ 195 (269)
T cd06287 126 GSARRNSY--LEAEAAYRAFAAEHG-MPPVV-LRVDEAG---G-EEAGYAACAQLLAQHPDLDALCV--PVDAFAVGAVR 195 (269)
T ss_pred CCcccccH--HHHHHHHHHHHHHcC-CCcce-eEecCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHH
Confidence 5322 23 445778999999888 65321 1111111 1 02223444554433 4677665 67778889999
Q ss_pred HHHHcCCCCC
Q 004136 251 EANRMGLVGK 260 (771)
Q Consensus 251 ~a~~~g~~~~ 260 (771)
++++.|+..+
T Consensus 196 al~~~gl~vP 205 (269)
T cd06287 196 AATELGRAVP 205 (269)
T ss_pred HHHHcCCCCC
Confidence 9999998654
No 225
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=94.47 E-value=0.7 Score=44.32 Aligned_cols=91 Identities=11% Similarity=0.102 Sum_probs=60.0
Q ss_pred CCCChhHhhhCCceEEE-ecChHHHHHHHHh---cCCCCCCcccCCC---CHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 672 NVTDIQSLKSGNLKVGC-VDDSFVKKYLEEV---LGFRSGNIVPFGN---TEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 672 ~i~~~~dL~~~~~~~g~-~~~s~~~~~l~~~---~~~~~~~~~~~~~---~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
.|++++||.+.++++.- ..+|....+|.+. .+.....+..|.. +-.+...+|..|+.|+-+.-...++ +
T Consensus 82 ~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~AD~G~g~~~~A~----~ 157 (193)
T PF12727_consen 82 GITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGKADAGIGIRAAAE----E 157 (193)
T ss_pred cCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCCCCEEeehHHHHH----h
Confidence 39999999888999876 6778887777664 2233344444432 4788899999999999997655543 1
Q ss_pred cCCceeEeeeeeeceEEEEEecCC
Q 004136 745 YCKKYTAINTYRFGGLGFVSNIIY 768 (771)
Q Consensus 745 ~c~~l~~~~~~~~~~~g~~~~k~s 768 (771)
.-+ |.-+ ++..+.|-++++|..
T Consensus 158 ~~g-L~Fv-pl~~E~~dlv~~~~~ 179 (193)
T PF12727_consen 158 FYG-LDFV-PLAEERYDLVIRRED 179 (193)
T ss_pred hcC-CCcE-EccccceEEEEEhhH
Confidence 111 2122 334466777777654
No 226
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=94.27 E-value=0.88 Score=46.07 Aligned_cols=88 Identities=16% Similarity=0.075 Sum_probs=56.7
Q ss_pred CCCCChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHH-HHHhcCCce
Q 004136 671 PNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKYCKKY 749 (771)
Q Consensus 671 ~~i~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~-~~~~~c~~l 749 (771)
.+|++++||+ |+++.+..++....+++. .+ .... ... ..|.+.+|++|.+|+.+.....+.. -..+..+++
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~~-~G---a~~v-~~~-~~e~~~aL~~G~vDg~~~~~~~~~~~~~~ev~~y~ 197 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFKA-LG---ANPE-PMA-FSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYL 197 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHHH-cC---Cccc-ccC-HHHHHHHHHcCCcccccCCHHHHhhcchhhhcchh
Confidence 5699999999 999998887777778776 22 2222 344 8899999999999999877554331 122333333
Q ss_pred eEeeeeeeceEEEEEecC
Q 004136 750 TAINTYRFGGLGFVSNII 767 (771)
Q Consensus 750 ~~~~~~~~~~~g~~~~k~ 767 (771)
...+ .....+.+.+.++
T Consensus 198 ~~~~-~~~~~~~~~~n~~ 214 (257)
T TIGR00787 198 SMTN-HGYLGYLVVVNKA 214 (257)
T ss_pred eecC-CcccceEEEEeHH
Confidence 3333 1123445566553
No 227
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=94.12 E-value=0.25 Score=39.57 Aligned_cols=55 Identities=24% Similarity=0.367 Sum_probs=47.1
Q ss_pred cchHHHHHHHHHHHhhccC-cc-cccchhhHHHHHHHHHHHHHHHHHhhccccccee
Q 004136 611 KDQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLT 665 (771)
Q Consensus 611 ~~~~~~~~~~~~~~~~~~~-~~-~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt 665 (771)
..++.+++|+++.++...| ++ .|.+..+|++...+.+.++.+.....+.+++.++
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 3478999999999999998 65 6788889999999999999999999999988765
No 228
>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=93.61 E-value=0.65 Score=46.02 Aligned_cols=98 Identities=9% Similarity=0.006 Sum_probs=75.0
Q ss_pred cHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCC---CCchHHHHHHHHHh
Q 004136 151 DSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSI---SDPKEAVRGELKKV 227 (771)
Q Consensus 151 ~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~---~d~~~~~~~~l~~l 227 (771)
...-..|+.+-++++|.+|++++.. |- ....+.+++.+++.| ++|.....+...... .-+...+.+.+.++
T Consensus 104 ~tt~~~A~~~AL~alg~~RIalvTP---Y~--~~v~~~~~~~l~~~G-~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~ 177 (239)
T TIGR02990 104 VVTPSSAAVDGLAALGVRRISLLTP---YT--PETSRPMAQYFAVRG-FEIVNFTCLGLTDDREMARISPDCIVEAALAA 177 (239)
T ss_pred eeCHHHHHHHHHHHcCCCEEEEECC---Cc--HHHHHHHHHHHHhCC-cEEeeeeccCCCCCceeeecCHHHHHHHHHHh
Confidence 3445778999999999999999975 65 666899999999999 999877555443211 01123466666666
Q ss_pred hhCCceEEEEEecChhHHHHHHHHHHHc
Q 004136 228 QDKQSRVFIVLQASLDMTIHLFTEANRM 255 (771)
Q Consensus 228 ~~~~~~vIv~~~~~~~~~~~il~~a~~~ 255 (771)
...++|.|++ .|..-....++.++++.
T Consensus 178 ~~~~aDAifi-sCTnLrt~~vi~~lE~~ 204 (239)
T TIGR02990 178 FDPDADALFL-SCTALRAATCAQRIEQA 204 (239)
T ss_pred cCCCCCEEEE-eCCCchhHHHHHHHHHH
Confidence 6779999999 99999999999999764
No 229
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=93.42 E-value=1 Score=46.19 Aligned_cols=77 Identities=19% Similarity=0.175 Sum_probs=49.3
Q ss_pred CCChhHhhhCCceEEE-ecChHHHHHHHH---hcCCCCCCccc--CCCCHHHHHHHHHcCCceEEEecch---hHHHHHH
Q 004136 673 VTDIQSLKSGNLKVGC-VDDSFVKKYLEE---VLGFRSGNIVP--FGNTEANYIQKFENNTIDSLFLERP---YEKVFLD 743 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~-~~~s~~~~~l~~---~~~~~~~~~~~--~~~~~~~~~~~v~~~~~~a~i~~~~---~~~~~~~ 743 (771)
|++++||. |++|.+ ..+|..+...+. ..+.....+.. .-. ..|..+++++|++||++.-.. .+-..+.
T Consensus 129 Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~-~a~~~~~l~~g~iDA~~~~~G~p~~ai~el~ 205 (321)
T COG2358 129 IKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLG-DAESADALKNGTIDAAFYVAGVPNPAISELA 205 (321)
T ss_pred cceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcC-chhhHHHhhCCcccEEEEecCCCCccHHHHH
Confidence 99999999 899988 666666554444 23333333222 112 456689999999999887532 2334555
Q ss_pred hcCCceeEee
Q 004136 744 KYCKKYTAIN 753 (771)
Q Consensus 744 ~~c~~l~~~~ 753 (771)
.-|+ +++++
T Consensus 206 ~~~~-i~lv~ 214 (321)
T COG2358 206 TTCD-IVLVP 214 (321)
T ss_pred hhCC-eEEEe
Confidence 6686 66666
No 230
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=92.76 E-value=0.87 Score=44.65 Aligned_cols=74 Identities=12% Similarity=0.113 Sum_probs=42.8
Q ss_pred cccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcc-cccEEEeeEeeeccc---eeeeecccc--eeeccEEEE
Q 004136 487 YDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGNR---TEYVEFTQP--YAESGFSMI 560 (771)
Q Consensus 487 ~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~-~~D~~~~~~~~t~~r---~~~~~fs~p--~~~~~~~~~ 560 (771)
+.-..-++++.+.++.|+++++. . +.-..++..+.+| ++|+.++.-.....+ ...++...| +....+.++
T Consensus 4 l~~~~~~~~~~f~~~~gi~V~~~--~--~gs~~l~~~l~~~~~aDv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~l~ 79 (216)
T TIGR01256 4 LTDALKEIAKQFEKRTGNKVVFS--F--GSSGTLYTQIENGAPADLFISADNKWPKKLVDKGLVVAGSRFTYAGNKLVLI 79 (216)
T ss_pred hHHHHHHHHHHHHHhhCCeEEEE--e--CChHHHHHHHHcCCCCcEEEECCHHHHHHHHHCCCCCCCchheEEccEEEEE
Confidence 34455678888888889875544 2 2345577777766 499998743222222 112322223 555566666
Q ss_pred EecC
Q 004136 561 VPAK 564 (771)
Q Consensus 561 v~~~ 564 (771)
+++.
T Consensus 80 ~~~~ 83 (216)
T TIGR01256 80 SPKN 83 (216)
T ss_pred EECC
Confidence 6554
No 231
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.30 E-value=6.8 Score=41.16 Aligned_cols=199 Identities=13% Similarity=0.027 Sum_probs=109.2
Q ss_pred CcEEEEEEEeC-----CCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-CCc
Q 004136 33 EVTKIGAIVDA-----NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-MET 106 (771)
Q Consensus 33 ~~I~IG~i~p~-----s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~ 106 (771)
..-.||++.+. +.+...+...+++.+.++ . |+.+.+.. |...+ . ..+++.++|- |..
T Consensus 62 ~~~~i~v~~~~~~~~~~~~f~~~l~~~i~~~~~~---~--g~~~~~~~-~~~~~----------~-~~~~vDgiI~~~~~ 124 (327)
T PRK10339 62 QHHILAIYSYQQELEINDPYYLAIRHGIETQCEK---L--GIELTNCY-EHSGL----------P-DIKNVTGILIVGKP 124 (327)
T ss_pred cccEEEEEEccccccccCchHHHHHHHHHHHHHH---C--CCEEEEee-ccccc----------c-ccccCCEEEEeCCC
Confidence 34567777642 233334455555555443 2 56665432 22111 0 1356775553 222
Q ss_pred hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcc
Q 004136 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSG 184 (771)
Q Consensus 107 s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~--~g~~~~ 184 (771)
+. .....+...++|+|..... .+ ...++ .+..++...+..+++++...|.++++++..... .. ..
T Consensus 125 ~~---~~~~~l~~~~~pvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~~~~~~--~~ 191 (327)
T PRK10339 125 TP---ALRAAASALTDNICFIDFH--EP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGEDEPGKA--DI 191 (327)
T ss_pred CH---HHHHHHHhcCCCEEEEeCC--CC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCccccchh--hH
Confidence 22 2334455678999877643 11 12233 367777788888899998889999999965432 22 44
Q ss_pred hHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhHHHHHHHHHHHcCCCCC-C
Q 004136 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-D 261 (771)
Q Consensus 185 ~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~ 261 (771)
..+.+++.++..| + +.....+.... + ..+....++++.+. .+++|+. ++...+..++++++++|+..+ +
T Consensus 192 R~~gf~~~~~~~g-~-~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~vP~d 263 (327)
T PRK10339 192 REVAFAEYGRLKQ-V-VREEDIWRGGF---S-SSSGYELAKQMLAREDYPKALFV--ASDSIAIGVLRAIHERGLNIPQD 263 (327)
T ss_pred HHHHHHHHHHHcC-C-CChhheeecCc---C-hhHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCc
Confidence 4667888888777 5 11111111111 0 01223344444432 4666555 666778889999999998543 4
Q ss_pred eEEEeeCc
Q 004136 262 SVWIVTNT 269 (771)
Q Consensus 262 ~~~i~~~~ 269 (771)
...++.+.
T Consensus 264 i~vigfD~ 271 (327)
T PRK10339 264 ISLISVND 271 (327)
T ss_pred eEEEeeCC
Confidence 44454443
No 232
>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=92.13 E-value=8.3 Score=40.12 Aligned_cols=200 Identities=14% Similarity=0.147 Sum_probs=104.9
Q ss_pred EEEEEEEeCC---CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEcCCchHhH
Q 004136 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETWEET 110 (771)
Q Consensus 35 I~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~-~~~~a~~~~~~li~~~~v~aviGp~~s~~~ 110 (771)
.++++++|-. ..+.+....|++.+.++. . .+++...+... ++....+.+.++. +++...||+... ...
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~----~--~i~~~~~e~~~~~~~~~~~~~~~~~-~~g~dlIi~~g~-~~~ 73 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL----D--GIEIIYVENVPETDADYEEAIRQLA-DQGYDLIIGHGF-EYS 73 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC----T--TEEEEEEES-S-TCHHHHHHHHHHH-HTT-SEEEEESG-GGH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc----C--CceEEEEecCCccHHHHHHHHHHHH-HcCCCEEEEccH-HHH
Confidence 4677777766 223345555555555553 1 34555555443 4666677777777 688888887543 344
Q ss_pred HHHHHhhccC-CccEEeecCCCCCCCccCCCCceEEEeecCc---HHHHHHHHHHHHHcCCeEEEEEE---EeC-CCCCC
Q 004136 111 AVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASND---SEQMKCIADLARKYNWRRVAAIY---EDN-VYGGD 182 (771)
Q Consensus 111 ~~v~~~~~~~-~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~---~~~~~a~~~~l~~~~w~~v~ii~---~~~-~~g~~ 182 (771)
.++..++..+ ++-++...+. ... ..|++....... ..++-.++..+.+- .+++++. ..+ +.-
T Consensus 74 ~~~~~vA~~yPd~~F~~~d~~--~~~----~~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~-- 143 (306)
T PF02608_consen 74 DALQEVAKEYPDTKFIIIDGY--IDA----PEPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPV-- 143 (306)
T ss_dssp HHHHHHHTC-TTSEEEEESS-----S----T-TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTT--
T ss_pred HHHHHHHHHCCCCEEEEEecC--cCC----CCCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhH--
Confidence 5566666665 5555544433 111 113444444332 33444455555443 4888888 433 322
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~ 258 (771)
......|..-++..+ -.+.....+..+ ..|+ ..-...-..+.+.++|+|+- .+. .....+++++++.|..
T Consensus 144 ~~~~~gF~~Ga~~~n-p~i~v~~~~~gs--~~D~-~~~~~~a~~li~~GaDvI~~-~ag-~~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 144 NRFINGFIAGAKYVN-PDIKVNVSYTGS--FNDP-AKAKEAAEALIDQGADVIFP-VAG-GSGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHHHHHHTT-TT-EEEEEE-SS--SS-H-HHHHHHHHHHHHTT-SEEEE-E-C-CCHHHHHHHHHHHTHE
T ss_pred HHHHHHHHHHHHHhC-cCceEEEEEcCC--cCch-HHHHHHHHHHhhcCCeEEEE-CCC-CCchHHHHHHHHcCCc
Confidence 456677777777665 333333333222 2232 23444455666789999988 555 4456678889988864
No 233
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=91.78 E-value=0.38 Score=50.31 Aligned_cols=68 Identities=15% Similarity=0.164 Sum_probs=53.9
Q ss_pred CCCChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHH----HHHHhcCC
Q 004136 672 NVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK----VFLDKYCK 747 (771)
Q Consensus 672 ~i~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~----~~~~~~c~ 747 (771)
||.+++||+ |+++-|........+++. .+-....+ ...|.+.+|.+|-+|+.-.....+. |.+++|+.
T Consensus 158 PI~~peDlk--GlkiRv~~s~~~~~~~~a-~GA~P~pm-----~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky~t 229 (332)
T COG1638 158 PIKTPEDLK--GLKIRVPQSPLLLAMFKA-LGANPTPM-----PFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKYLT 229 (332)
T ss_pred CCCChHHhC--CCeeecCCCHHHHHHHHH-cCCCCCCC-----CHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHHhh
Confidence 799999999 999988888888888877 44444444 5889999999999999888776655 56777763
No 234
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=91.37 E-value=3.8 Score=42.21 Aligned_cols=88 Identities=17% Similarity=0.180 Sum_probs=58.8
Q ss_pred CCCCCChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHH-HHHhcCCc
Q 004136 670 EPNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKYCKK 748 (771)
Q Consensus 670 ~~~i~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~-~~~~~c~~ 748 (771)
..+|++++||+ |+++.+..+.....+++. .+.....+ +..|.+.+|.+|.+|+.......+.. -..+.++.
T Consensus 125 ~~pi~s~~Dlk--G~kiR~~~~~~~~~~~~~-lGa~pv~i-----p~~evy~aLq~G~vDg~~~~~~~~~~~~~~ev~~y 196 (286)
T PF03480_consen 125 KKPIRSPEDLK--GLKIRVPGSPVMSDFFEA-LGASPVPI-----PWSEVYQALQQGVVDGAENSASSIYSLGLYEVAKY 196 (286)
T ss_dssp SS--SSGGGGT--TEEEEETSSHHHHHHHHH-CTSEEEE------TGGGHHHHHHTTSSSEEEEEHHHHHHTTGGGTSSE
T ss_pred ccCCccHhhHh--hCeEEecCCHHHHHHHHH-cCCeeecC-----cHHHHHHHHhcCCcCeEecCHHHHHhcChhhhCCe
Confidence 45799999999 999988867777777776 33322222 37789999999999999988777642 22345764
Q ss_pred eeEeeeeeeceEEEEEec
Q 004136 749 YTAINTYRFGGLGFVSNI 766 (771)
Q Consensus 749 l~~~~~~~~~~~g~~~~k 766 (771)
+...+ .....+.+++.+
T Consensus 197 ~~~~~-~~~~~~~~~~n~ 213 (286)
T PF03480_consen 197 FTDTN-HGWSPYAVIMNK 213 (286)
T ss_dssp EEEEE-EEEEEEEEEEEH
T ss_pred eEeec-ccCcceEEEEcH
Confidence 44444 444556666665
No 235
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=91.18 E-value=1.5 Score=41.67 Aligned_cols=90 Identities=18% Similarity=0.159 Sum_probs=57.6
Q ss_pred CCCChhHhhhCCceEEE-ecChHHHHHHHHh---cCCCCCCcccCCC---CHHHHHHHHHcCCceEEEecchhHHHHHHh
Q 004136 672 NVTDIQSLKSGNLKVGC-VDDSFVKKYLEEV---LGFRSGNIVPFGN---TEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (771)
Q Consensus 672 ~i~~~~dL~~~~~~~g~-~~~s~~~~~l~~~---~~~~~~~~~~~~~---~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~ 744 (771)
.|++++||.+.++++-- .++|.+...+.+. .+.....|.-|.. +-...-++|..|+.|+=++-+..++ +
T Consensus 88 ~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr~~A~----~ 163 (223)
T COG1910 88 NISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRHAAE----K 163 (223)
T ss_pred ccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHHHHHH----H
Confidence 39999999987777754 6677777666553 3344455665543 3445667899999999998555443 3
Q ss_pred cCCceeEeeeeeeceEEEEEecCC
Q 004136 745 YCKKYTAINTYRFGGLGFVSNIIY 768 (771)
Q Consensus 745 ~c~~l~~~~~~~~~~~g~~~~k~s 768 (771)
+. |.-+ ++..+.|-++.+|+.
T Consensus 164 ~g--L~Fi-pl~~E~YD~virke~ 184 (223)
T COG1910 164 YG--LDFI-PLGDEEYDFVIRKER 184 (223)
T ss_pred cC--CceE-EcccceEEEEEehhH
Confidence 22 1111 345666777777753
No 236
>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=90.86 E-value=2.9 Score=42.27 Aligned_cols=88 Identities=18% Similarity=0.204 Sum_probs=69.8
Q ss_pred EEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHH
Q 004136 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (771)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~ 115 (771)
+||++.+...+.-.....|+...++..|. +.++...+..+-.|+..+.+.+..|+ ++++.+|++... ...+..
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~p---~~~v~~~~~g~~~D~~~a~~~a~~l~-~~G~DvI~~~~~---~~g~~~ 194 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVNP---DATVKVIWTGSWFDPAKEKEAALALI-DQGADVIYQHTD---SPGVIQ 194 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHCC---CcEEEEEEecCCCCcHHHHHHHHHHH-HCCCcEEEecCC---ChHHHH
Confidence 69999988765556778899999988885 46777777778889999999999999 789998887652 234556
Q ss_pred hhccCCccEEeecCC
Q 004136 116 IASRVQVPILSFAAP 130 (771)
Q Consensus 116 ~~~~~~iP~Is~~a~ 130 (771)
.+++.++..|.....
T Consensus 195 aa~~~g~~~IG~d~d 209 (258)
T cd06353 195 AAEEKGVYAIGYVSD 209 (258)
T ss_pred HHHHhCCEEEeeccc
Confidence 677789999987754
No 237
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A ....
Probab=90.76 E-value=0.67 Score=45.98 Aligned_cols=174 Identities=13% Similarity=0.072 Sum_probs=106.9
Q ss_pred ccccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcc-cccEEEeeEeeeccce---eeee--cccceeeccEEE
Q 004136 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGNRT---EYVE--FTQPYAESGFSM 559 (771)
Q Consensus 486 ~~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~-~~D~~~~~~~~t~~r~---~~~~--fs~p~~~~~~~~ 559 (771)
.+.+..-++++.+.+.-|+++++.... -..+...+.+| ++|+.+..-....++. ..+. -..|+..+.+++
T Consensus 8 ~~~~~~~~l~~~f~~~~g~~v~v~~~~----s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~vl 83 (230)
T PF13531_consen 8 GLAPALEELAEAFEKQPGIKVEVSFGG----SGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSPLVL 83 (230)
T ss_dssp GGHHHHHHHHHHHHHHHCEEEEEEEEC----HHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEEEEE
T ss_pred cHHHHHHHHHHHHHhccCCeEEEEECC----hHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCceEE
Confidence 456777789999988889886555443 45677777765 8998877532211111 1233 557889999999
Q ss_pred EEecCCCCCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccCcccccchhhH
Q 004136 560 IVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTR 639 (771)
Q Consensus 560 ~v~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~R 639 (771)
++++..+..
T Consensus 84 ~~~~~~~~~----------------------------------------------------------------------- 92 (230)
T PF13531_consen 84 AVPKGNPKG----------------------------------------------------------------------- 92 (230)
T ss_dssp EEETTSTTS-----------------------------------------------------------------------
T ss_pred EeccCcccc-----------------------------------------------------------------------
Confidence 998887421
Q ss_pred HHHHHHHHHHHHHHHHhhcccccceeecccCCCCCChhHhhhCCceEEEecC--h----HHHHHHHHhcC------CCCC
Q 004136 640 VVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDD--S----FVKKYLEEVLG------FRSG 707 (771)
Q Consensus 640 l~~~~~~~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~~~~~~g~~~~--s----~~~~~l~~~~~------~~~~ 707 (771)
+++++||.+.+.++++... + .....+.+. + .-..
T Consensus 93 ---------------------------------~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~~-g~~~~~~~l~~ 138 (230)
T PF13531_consen 93 ---------------------------------IRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAAA-GGQELLDALQK 138 (230)
T ss_dssp ---------------------------------TTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHHH-THCHHHHHHHH
T ss_pred ---------------------------------cCCHHHHhhccCEEEecCcccChhhHHHHHHHHHc-ccHHHHHHHHH
Confidence 7889999888888888441 1 112233331 1 0012
Q ss_pred CcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee---eee--eceEEEEEecCCCC
Q 004136 708 NIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN---TYR--FGGLGFVSNIIYSH 770 (771)
Q Consensus 708 ~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~---~~~--~~~~g~~~~k~s~~ 770 (771)
++..+.++..+.+..+.+|+.|+.+.....+.+. ...-. +..+. ... ...|++++.++++|
T Consensus 139 ~~~~~~~~~~~~~~~v~~g~~d~~~~~~s~~~~~-~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~~~~ 204 (230)
T PF13531_consen 139 NIVQYVPSTSQVLSAVASGEADAGIVYESQAIFA-RQGDP-LSYVYPPDGVNSPPIDYPIAILKNAPH 204 (230)
T ss_dssp TEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHC-TSHTT-EEEEE-STTTSSSEEEEEEEEBTTCTT
T ss_pred hCcccccchHHHHHHHHcCCCcceeeHHHHHHHh-hcCCC-eEEEECCchhcCCCEEEEEEEecCCCC
Confidence 3333333378899999999999999776665322 22222 44444 233 45789999888765
No 238
>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=90.64 E-value=19 Score=35.75 Aligned_cols=210 Identities=12% Similarity=0.073 Sum_probs=117.6
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCC--CCHHHHHHHHHHHHhcCCeEEEEcCCch-HhH
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETW-EET 110 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~--~~~~~a~~~~~~li~~~~v~aviGp~~s-~~~ 110 (771)
.++||++.+..+ .+....+|++..+++--+. .|.-+.+-+. ..-......+..|..+..+-|||-...- .++
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~----~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~ 76 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV----MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTA 76 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH----EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---H
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc----eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchH
Confidence 589999987653 3466677777777765332 5555555433 4567788888888888899988853332 333
Q ss_pred HHHHHhhc-cCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcc----h
Q 004136 111 AVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSG----K 185 (771)
Q Consensus 111 ~~v~~~~~-~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~----~ 185 (771)
.+...+=+ .-.|.+|+..... +|..-...-+. -+.++....+..++...+..|.+++.-+....+-+ .. .
T Consensus 77 ~af~kIkekRpDIl~ia~~~~E-Dp~~i~~~aDi--~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms--~~~l~~R 151 (275)
T PF12683_consen 77 EAFRKIKEKRPDILLIAGEPHE-DPEVISSAADI--VVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMS--YELLARR 151 (275)
T ss_dssp HHHHHHHHH-TTSEEEESS--S--HHHHHHHSSE--EEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGG--SHHHHHH
T ss_pred HHHHHHHhcCCCeEEEcCCCcC-CHHHHhhccCe--EeccchhhccHHHHHHHHHcCCceEEEEechhhcc--hHHHHHH
Confidence 44433322 3467777655431 12221122223 35588888999999999999999999998765433 22 2
Q ss_pred HHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHH-----HHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-----RGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 186 ~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~-----~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
.+.+++..++.| ++.+....-.+.. ..+ .... ...-+.+++.+.++-|. +++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lG-i~fv~~taPDP~s-d~g-v~gaqqfIlE~vp~~i~kYGkdtaff-~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLG-IKFVEVTAPDPTS-DVG-VAGAQQFILEDVPKWIKKYGKDTAFF-CTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT---EEEEEE---SS-TCH-HHHHHHHHHHHHHHHHHHH-S--EEE-ESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcC-CeEEEEeCCCCCC-CCC-cHHHHHHHHHHHHHHHHHhCCceeEE-ecCccccHHHHHHHHHcCC
Confidence 456788888999 7765544322222 111 1111 12224556669999999 9999999999999999874
No 239
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins []. This domain is found in members of the LysR family of prokaryotic transcriptional regulatory proteins IPR000847 from INTERPRO which share sequence similarities over approximately 280 residues including a putative helix-turn-helix DNA-binding motif at their N terminus.; PDB: 3ONM_B 3FZJ_J 3FXR_B 3N6T_A 3FXQ_A 3FXU_A 3N6U_A 2QSX_B 3HO7_B 1IZ1_B ....
Probab=90.46 E-value=6.7 Score=37.41 Aligned_cols=71 Identities=18% Similarity=0.193 Sum_probs=50.2
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.-+-.+++..+.++. +.+ +.+.. +....++..|.+|++|+++........ .+. ..|+....+++++++..+
T Consensus 18 ~~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~---~~~-~~~l~~~~~~~~~~~~~p 89 (209)
T PF03466_consen 18 SSLLPPLLAEFRERHPNIR--IEIRE--GDSDELIEALRSGELDLAITFGPPPPP---GLE-SEPLGEEPLVLVVSPDHP 89 (209)
T ss_dssp HHTHHHHHHHHHHHSTTEE--EEEEE--ESHHHHHHHHHTTSSSEEEESSSSSST---TEE-EEEEEEEEEEEEEETTSG
T ss_pred HHHHHHHHHHHHHHCCCcE--EEEEe--ccchhhhHHHhcccccEEEEEeecccc---ccc-cccccceeeeeeeecccc
Confidence 456678888888877 444 44443 246789999999999999875554222 232 368888999999988764
No 240
>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=89.77 E-value=23 Score=35.36 Aligned_cols=193 Identities=12% Similarity=0.088 Sum_probs=108.1
Q ss_pred EEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHh
Q 004136 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEI 116 (771)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~ 116 (771)
|.+++|.-.+.-.+...+++.++++- |+ ..+.+.++..+. .+.+.+.+ ..++.++|=-............
T Consensus 2 ~~~~~~~~~~~~~~~~~~i~~~l~~~-----g~-~~l~~~~~~~~~---~~~~~~~~-~~~vdGvIi~~~~~~~~~~~~~ 71 (247)
T cd06276 2 ILLLLNKLSSFKEIIYNSFVNTLGKN-----AQ-VDLYFHHYNEDL---FKNIISNT-KGKYSGYVVMPHFKNEIQYFLL 71 (247)
T ss_pred EEEEEecCchHHHHHHHHHHHHHHhc-----Cc-EEEEEEcCchHH---HHHHHHHH-hcCCCEEEEecCCCCcHHHHHH
Confidence 45566554333334444554444442 41 344444443322 22333444 5677755521111111223345
Q ss_pred hccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH--cCCeEEEEEEEeC-CCCCCcchHHHHHHHH
Q 004136 117 ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDN-VYGGDSGKLALLAEAL 193 (771)
Q Consensus 117 ~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~--~~w~~v~ii~~~~-~~g~~~~~~~~l~~~~ 193 (771)
++..++|+|...-. .+. ...++ .+..++...+..+++.+.. .|-+++++|.... ..+ ....+.+++.+
T Consensus 72 ~~~~~~PvV~i~~~--~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~--~~R~~gf~~~l 142 (247)
T cd06276 72 KKIPKEKLLILDHS--IPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIP--KEIKRGFERFC 142 (247)
T ss_pred hccCCCCEEEEcCc--CCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhH--HHHHHHHHHHH
Confidence 55578999887643 211 12233 3667888888889999888 8999999997643 234 56678899999
Q ss_pred hccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
++.| +.... .. .. ... . + .++++|+ +++...+..+++.+++.|+..+ +...++-+
T Consensus 143 ~~~g-~~~~~---~~-~~------~~~--~---~--~~~~ai~--~~~d~~A~g~~~~l~~~g~~iP~disvigfd 198 (247)
T cd06276 143 KDYN-IETEI---IN-DY------ENR--E---I--EKGDLYI--ILSDTDLVFLIKKARESGLLLGKDIGIISYN 198 (247)
T ss_pred HHcC-CCccc---cc-cc------chh--h---c--cCCcEEE--EeCHHHHHHHHHHHHHcCCcCCceeEEEEec
Confidence 9999 65321 10 00 000 0 0 1246544 4788888899999999998544 34444433
No 241
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA bin
Probab=89.72 E-value=12 Score=34.61 Aligned_cols=72 Identities=15% Similarity=0.231 Sum_probs=46.8
Q ss_pred ccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+..+++..+.++.. ++++++... ....++..+.+|++|+++...... .+.++ ..++....+.+++++..+
T Consensus 12 ~~~l~~~i~~~~~~~p-~i~i~~~~~--~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~~ 83 (197)
T cd05466 12 AYLLPPLLAAFRQRYP-GVELSLVEG--GSSELLEALLEGELDLAIVALPVD---DPGLE-SEPLFEEPLVLVVPPDHP 83 (197)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEEC--ChHHHHHHHHcCCceEEEEcCCCC---CCcce-EeeeeccceEEEecCCCC
Confidence 3456677777777652 233454442 356789999999999998754432 22233 356777788888876653
No 242
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=89.40 E-value=1.4 Score=46.52 Aligned_cols=71 Identities=14% Similarity=0.188 Sum_probs=48.6
Q ss_pred CCChhHhhhCCceEEEecChH-HHHHHHH---hcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhc
Q 004136 673 VTDIQSLKSGNLKVGCVDDSF-VKKYLEE---VLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY 745 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~-~~~~l~~---~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~ 745 (771)
|++++||+ |.++|+..++. ...+++. ..+.....+....-+..+...+++.|++||+..-.+.......+.
T Consensus 128 i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~~~ 202 (335)
T COG0715 128 IKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEGEG 202 (335)
T ss_pred cccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhhhccC
Confidence 88899997 99999977764 3333333 244444444322223668899999999999998888876555444
No 243
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=88.90 E-value=8.3 Score=36.45 Aligned_cols=95 Identities=16% Similarity=0.115 Sum_probs=66.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCC----CCCchHHHHHHHHHhhhC
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISS----ISDPKEAVRGELKKVQDK 230 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~----~~d~~~~~~~~l~~l~~~ 230 (771)
+.|+++-|+.++.+++.++.. |- ....+...+.++.+| ++|+....+.-.++ ..+| -..-..-+++...
T Consensus 106 s~Avv~aL~al~a~ri~vlTP---Y~--~evn~~e~ef~~~~G-feiv~~~~Lgi~dn~eigr~~P-~~~y~lAk~~~~~ 178 (238)
T COG3473 106 STAVVEALNALGAQRISVLTP---YI--DEVNQREIEFLEANG-FEIVDFKGLGITDNLEIGRQEP-WAVYRLAKEVFTP 178 (238)
T ss_pred hHHHHHHHHhhCcceEEEecc---ch--hhhhhHHHHHHHhCC-eEEEEeeccCCcccchhcccCh-HHHHHHHHHhcCC
Confidence 356788899999999999974 54 555788889999999 99987654432221 1122 1233444566667
Q ss_pred CceEEEEEecChhHHHHHHHHHHH-cCC
Q 004136 231 QSRVFIVLQASLDMTIHLFTEANR-MGL 257 (771)
Q Consensus 231 ~~~vIv~~~~~~~~~~~il~~a~~-~g~ 257 (771)
++|.||+ .|..-....++..+++ .|.
T Consensus 179 ~~DaiFi-SCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 179 DADAIFI-SCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred CCCeEEE-EeeccccHHHHHHHHHHhCC
Confidence 9999999 8888877888877765 443
No 244
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides
Probab=88.18 E-value=14 Score=34.46 Aligned_cols=71 Identities=15% Similarity=0.154 Sum_probs=46.3
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +++.. +....++..+.+|++|+++... ......+. ..++....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (193)
T cd08442 12 AVRLPPLLAAYHARYPKVD--LSLST--GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPKGHP 83 (193)
T ss_pred hhhhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecCCCc
Confidence 355678888888876 555 44443 3456789999999999998632 22222222 356777788888776553
No 245
>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold. This CD includes LysR-like bacterial transcriptional regulators, DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. DntR from Burkholderia species controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The active form of DntR is homotetrameric, consisting of a dimer of dimers. NahR is a salicylate-dependent transcription activator of the nah and sal operons for naphthalene degradation. Salicylic acid is an intermediate o
Probab=86.97 E-value=11 Score=35.71 Aligned_cols=71 Identities=18% Similarity=0.089 Sum_probs=47.4
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +++.. +..+.+...|.+|++|+++...... ...+. +.|+....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--v~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08459 12 MYFLPRLLAALREVAPGVR--IETVR--LPVDELEEALESGEIDLAIGYLPDL---GAGFF-QQRLFRERYVCLVRKDHP 83 (201)
T ss_pred HHHHHHHHHHHHHHCCCCe--EEEEe--cCccCHHHHhhCCCceEEEEcCCCC---cccce-EEEeecCceEEEEcCCCc
Confidence 345667888888876 444 44443 2345789999999999998643221 22233 468888888888876653
No 246
>cd08418 PBP2_TdcA The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold. TdcA, a member of the LysR family, activates the expression of the anaerobically-regulated tdcABCDEFG operon which is involved in the degradation of L-serine and L-threonine to acetate and propionate, respectively. The tdc operon is comprised of one regulatory gene tdcA and six structural genes, tdcB to tdcG. The expression of the tdc operon is affected by several transcription factors including the cAMP receptor protein (CRP), integration host factor (IHF), histone-like protein (HU), and the operon specific regulators TdcA and TcdR. TcdR is divergently transcribed from the operon and encodes a small protein that is required for efficient expression of the Escherichia coli tdc operon. This substrate-binding domain shows significant homology to the type 2 periplasmic binding
Probab=86.88 E-value=20 Score=33.73 Aligned_cols=72 Identities=15% Similarity=0.204 Sum_probs=46.4
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.++. +.+ +.+.. +....+...+.+|++|+++...... .....+.+ .++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~~-~~l~~~~~~~v~~~~~ 84 (201)
T cd08418 12 HTLMPAVINRFKEQFPDVQ--ISIYE--GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELIS-EPLFESDFVVVARKDH 84 (201)
T ss_pred HhhhHHHHHHHHHHCCCce--EEEEe--CcHHHHHHHHHcCCCcEEEEecCCC-CCCcceeE-EeecCCceEEEeCCCC
Confidence 355677788888876 444 44443 3467899999999999998633221 11122333 5677778888876654
No 247
>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=85.78 E-value=24 Score=33.12 Aligned_cols=70 Identities=9% Similarity=0.049 Sum_probs=45.9
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. +....++..+.+|++|+++...... ...+. +.++....+.+++++..+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~hp 83 (199)
T cd08426 13 ELLPSLIARFRQRYPGVF--FTVDV--ASTADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPIGAVVPPGHP 83 (199)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEe--CCcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcEEEEecCCCC
Confidence 45667788887775 444 44433 2457789999999999998633222 12232 367788888888876553
No 248
>PRK10200 putative racemase; Provisional
Probab=85.55 E-value=6.6 Score=38.82 Aligned_cols=88 Identities=15% Similarity=0.066 Sum_probs=52.4
Q ss_pred CCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHH
Q 004136 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (771)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~ 159 (771)
.+|...+....+.+.+.++.+++=|-.+..+. .-.+-+..++|+|+.. ++..
T Consensus 58 ~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~ii---------------------------~~~~ 109 (230)
T PRK10200 58 DKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHIA---------------------------DATG 109 (230)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeehH---------------------------HHHH
Confidence 45777777766666688999888665444443 4555556678877522 1222
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc-CCeEE
Q 004136 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV-SSSEI 201 (771)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~-g~~~i 201 (771)
+.++..+-++|+++.....-- ...+++.+.+. | +++
T Consensus 110 ~~~~~~~~~~VglLaT~~Ti~-----s~~Y~~~l~~~~g-~~~ 146 (230)
T PRK10200 110 RAITGAGMTRVALLGTRYTME-----QDFYRGRLTEQFS-INC 146 (230)
T ss_pred HHHHHcCCCeEEEeccHHHHH-----HhHHHHHHHHhcC-CeE
Confidence 233344667888888765432 44555665544 6 554
No 249
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=84.85 E-value=2.5 Score=45.73 Aligned_cols=88 Identities=17% Similarity=0.255 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccC-cc-cccchhhHHHHHHHHHHHHHHHHH
Q 004136 578 WEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSS 655 (771)
Q Consensus 578 ~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~s~Rl~~~~~~~~~li~~~~ 655 (771)
...|+.-++.++..++++++.++-...+-......++..++|+..-+++..| |+ .|..|.+|++..++.|+++-+.+.
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFAL 313 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFAL 313 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhc
Confidence 3578888888899999999998864333333334578999999999999988 54 689999999999999988887777
Q ss_pred hhccccccee
Q 004136 656 YTASLSSLLT 665 (771)
Q Consensus 656 Yta~L~s~lt 665 (771)
=.+.|-|=++
T Consensus 314 PAGILGSGfA 323 (654)
T KOG1419|consen 314 PAGILGSGFA 323 (654)
T ss_pred ccccccchhh
Confidence 6666665443
No 250
>cd08468 PBP2_Pa0477 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold. LysR-type transcriptional regulator Pa0477 is related to DntR, which controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their spec
Probab=84.25 E-value=31 Score=32.55 Aligned_cols=74 Identities=12% Similarity=0.099 Sum_probs=48.5
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +.+.. +....+++.|.+|++|+++............+.+ .++....+.++++++.+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~hp 86 (202)
T cd08468 12 LAVMPRLMARLEELAPSVR--LNLVH--AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASRDHP 86 (202)
T ss_pred HHHhHHHHHHHHhhCCCCE--EEEEE--CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeCCCC
Confidence 356678888888877 455 44444 3467899999999999998643221100122333 57777788888877653
No 251
>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=84.09 E-value=10 Score=36.94 Aligned_cols=130 Identities=14% Similarity=0.178 Sum_probs=73.1
Q ss_pred HHHHHhcCCeEEEEcCCchHhHHHHHHhh-ccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCC
Q 004136 89 AQELINKEKVKVIAGMETWEETAVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW 167 (771)
Q Consensus 89 ~~~li~~~~v~aviGp~~s~~~~~v~~~~-~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w 167 (771)
+.++. +.++.+++-+ |+.....+.... +..++|+++.... .++-+++ +.
T Consensus 58 ~~~l~-~~g~d~i~i~-C~s~~~~~~~~~~~~~~iPv~~~~~a---------------------------~~~~~~~-~~ 107 (216)
T PF01177_consen 58 AEKLE-KAGVDAIVIA-CNSAHPFVDELRKERVGIPVVGIVEA---------------------------ALEAAKA-GG 107 (216)
T ss_dssp HHHHH-HTTESEEEES-SHHHHHHHHHHHHHHHSSEEEESHHH---------------------------HHHHHHH-TS
T ss_pred HHHHH-hCCCCEEEEc-CCchhhhHHHHhhhcCceEEEeccHH---------------------------HHHHHHh-cC
Confidence 34444 6889988865 443333333444 5668898764322 1444455 88
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhcc-CCe--EEEEeee--cC----CCCCCCCchHHHHHHHHHh-hhCCceEEEE
Q 004136 168 RRVAAIYEDNVYGGDSGKLALLAEALQNV-SSS--EIQSRLV--LP----PISSISDPKEAVRGELKKV-QDKQSRVFIV 237 (771)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~~~~~-g~~--~i~~~~~--~~----~~~~~~d~~~~~~~~l~~l-~~~~~~vIv~ 237 (771)
++++++.... ......+.+.+++. | + ++..... .. ......+....+.+.++++ +..++|+|++
T Consensus 108 ~ri~vl~t~~-----~~~~~~~~~~~~~~~g-i~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiL 181 (216)
T PF01177_consen 108 KRIGVLTTYT-----TEKSPLYEEFIEEAAG-IDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIIL 181 (216)
T ss_dssp SEEEEEESHH-----HHHHTHHHHHHHHCTT-EECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEE
T ss_pred CEEEEEecCc-----ccchHHHHHHHHHhcC-CcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEE
Confidence 9999999643 33356677777777 7 6 5544221 10 1110000012455555555 3779999999
Q ss_pred EecChhH-HHHHHHHHHHc
Q 004136 238 LQASLDM-TIHLFTEANRM 255 (771)
Q Consensus 238 ~~~~~~~-~~~il~~a~~~ 255 (771)
.|..-. +....+.+.+.
T Consensus 182 -gCt~l~~~~~~~~~l~~~ 199 (216)
T PF01177_consen 182 -GCTHLPLLLGAIEALEEE 199 (216)
T ss_dssp -ESTTGGGGHHHHHHHHHT
T ss_pred -CCCchHHHHHHHHhhccc
Confidence 665544 43667666654
No 252
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=83.34 E-value=38 Score=31.67 Aligned_cols=69 Identities=17% Similarity=0.183 Sum_probs=44.8
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.+.. +.+ +.+... .-..+...|.+|++|+++.... .....+ -+.++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~~--~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~~~ 82 (198)
T cd08433 13 VLAVPLLRAVRRRYPGIR--LRIVEG--LSGHLLEWLLNGRLDLALLYGP---PPIPGL-STEPLLEEDLFLVGPADA 82 (198)
T ss_pred hcchHHHHHHHHHCCCcE--EEEEec--CcHHHHHHHhCCCCcEEEEeCC---CCCCCe-eEEEeccccEEEEecCCC
Confidence 45567788888876 444 444432 3467899999999999986322 222222 235777888888886655
No 253
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=83.19 E-value=40 Score=31.47 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=47.0
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. ++...++..+.+|++|+++..... ....+. ..++....+.+++++..+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~p 83 (198)
T cd08421 13 EFLPEDLASFLAAHPDVR--IDLEE--RLSADIVRAVAEGRADLGIVAGNV---DAAGLE-TRPYRTDRLVVVVPRDHP 83 (198)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEe--cCcHHHHHHHhcCCceEEEEecCC---CCCCcE-EEEeecCcEEEEeCCCCC
Confidence 45567888888876 444 44433 245678999999999999863322 223343 367888888888876653
No 254
>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity,
Probab=82.84 E-value=34 Score=31.72 Aligned_cols=70 Identities=19% Similarity=0.337 Sum_probs=46.4
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-..++..+.++. +.+ +++.. +....++.++.+|++|+++..... ....+.+ .++....+++++++..+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~l~~-~~l~~~~~~~v~~~~~~ 83 (195)
T cd08434 13 SLVPDLIRAFRKEYPNVT--FELHQ--GSTDELLDDLKNGELDLALCSPVP---DEPDIEW-IPLFTEELVLVVPKDHP 83 (195)
T ss_pred hhhHHHHHHHHHhCCCeE--EEEec--CcHHHHHHHHHcCCccEEEEccCC---CCCCeeE-EEeecceEEEEecCCCc
Confidence 45667788888876 544 44443 245678999999999999864322 2233333 57778888888876653
No 255
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=82.45 E-value=5.6 Score=39.45 Aligned_cols=75 Identities=19% Similarity=0.240 Sum_probs=46.6
Q ss_pred CcchhHHHHHHHHHHHhhCcccccccCCCCCCCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC
Q 004136 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (771)
Q Consensus 1 m~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~ 80 (771)
|+.+..+..++++++++++|+...+.. ..+|+||+..-.+ +.-++..++-+.++ .|++|+++..++..
T Consensus 1 m~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~I~vg~~~~p~---a~ile~~~k~~~~k-----~Gi~l~i~~FtDY~ 68 (268)
T COG1464 1 MKKLKKLALALVALLALAACGAAAAKA----TKTIKVGATPGPH---AEILEVVVKPALKK-----KGLDLKIVEFTDYV 68 (268)
T ss_pred CchHHHHHHHHHHHHHHHhhhhhcccc----CCcEEEeecCCch---HHHHHHHHHHHHHh-----cCceEEEEEecCCc
Confidence 555555554444445555555443222 1589999874332 23344466666655 38999999999988
Q ss_pred CHHHHHH
Q 004136 81 DPFQAAT 87 (771)
Q Consensus 81 ~~~~a~~ 87 (771)
-|..|+.
T Consensus 69 ~PN~AL~ 75 (268)
T COG1464 69 QPNEALA 75 (268)
T ss_pred chhHHHh
Confidence 8888875
No 256
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=82.38 E-value=42 Score=31.17 Aligned_cols=69 Identities=13% Similarity=0.210 Sum_probs=45.6
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+..+++..+.++. +.+ +++.. +....++..+.+|++|+++....... ..+ -+.++....+.++++...
T Consensus 12 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~~~ 81 (197)
T cd08419 12 YFAPRLLGAFCRRHPGVE--VSLRV--GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPPDH 81 (197)
T ss_pred hHhhHHHHHHHHHCCCce--EEEEE--CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecCCC
Confidence 45667788888876 555 44443 24677899999999999986432211 112 246777888888887655
No 257
>cd08412 PBP2_PAO1_like The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily. This family includes the C-terminal substrate domain of a putative LysR-type transcriptional regulator from the plant pathogen Pseudomonas aeruginosa PAO1and its closely related homologs. The LysR-type transcriptional regulators (LTTRs) are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controll
Probab=82.12 E-value=41 Score=31.30 Aligned_cols=71 Identities=18% Similarity=0.160 Sum_probs=47.6
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +.+.. ++..+++..+.+|++|+++..... ....+. +.|+....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~~ 83 (198)
T cd08412 12 PYYLPGLLRRFREAYPGVE--VRVVE--GNQEELEEGLRSGELDLALTYDLD---LPEDIA-FEPLARLPPYVWLPADHP 83 (198)
T ss_pred hhhhHHHHHHHHHHCCCcE--EEEEE--CCHHHHHHHHHcCCCcEEEEcCCC---CCcccc-eeeeeccceEEEecCCCC
Confidence 456778888888876 455 44433 346778999999999999863221 122232 367888888888876553
No 258
>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=81.90 E-value=21 Score=33.42 Aligned_cols=100 Identities=10% Similarity=-0.010 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC
Q 004136 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (771)
Q Consensus 153 ~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~--g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~ 230 (771)
.....+.+.+...+ .++.++...... .+.+.+.+++. | +.|+....-+-+. .+....++.+.++
T Consensus 35 dl~~~l~~~~~~~~-~~ifllG~~~~~------~~~~~~~l~~~yP~-l~ivg~~~g~f~~------~~~~~i~~~I~~~ 100 (172)
T PF03808_consen 35 DLFPDLLRRAEQRG-KRIFLLGGSEEV------LEKAAANLRRRYPG-LRIVGYHHGYFDE------EEEEAIINRINAS 100 (172)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeCCHHH------HHHHHHHHHHHCCC-eEEEEecCCCCCh------hhHHHHHHHHHHc
Confidence 35555666555555 478888876543 45555566555 4 6666543221122 4578888999999
Q ss_pred CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 231 ~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
+||+|++ .........++.+.++..- .+ +|+..++.
T Consensus 101 ~pdiv~v-glG~PkQE~~~~~~~~~l~-~~--v~i~vG~~ 136 (172)
T PF03808_consen 101 GPDIVFV-GLGAPKQERWIARHRQRLP-AG--VIIGVGGA 136 (172)
T ss_pred CCCEEEE-ECCCCHHHHHHHHHHHHCC-CC--EEEEECch
Confidence 9999999 7776666677766665432 22 66666553
No 259
>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold. The nodulation (nod) genes in soil bacteria play important roles in the development of nodules. nod genes are involved in synthesis of Nod factors that are required for bacterial entry into root hairs. Thirteen nod genes have been identified and are classified into five transcription units: nodD, nodABCIJ, nodFEL, nodMNT, and nodO. NodD is negatively auto-regulates its own expression of nodD gene, while other nod genes are inducible and positively regulated by NodD in the presence of flavonoids released by plant roots. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. T
Probab=81.51 E-value=29 Score=32.74 Aligned_cols=69 Identities=13% Similarity=0.116 Sum_probs=45.5
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-..++..+.+++ +.+ +++... +. .+++.|.+|++|+++...... ...+. ..|+....++++++...+
T Consensus 13 ~~l~~~i~~~~~~~P~i~--l~i~~~--~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08462 13 VLLPPVIERVAREAPGVR--FELLPP--DD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWADNP 82 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEecC--Ch-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcCCCC
Confidence 45667788887776 444 454442 34 799999999999998633221 12233 347778888888876654
No 260
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=81.34 E-value=46 Score=30.91 Aligned_cols=70 Identities=11% Similarity=0.133 Sum_probs=46.5
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+..+++..+.+.. +.+ +.+.. +....+...+.+|++|+++...... ...+. ..|+....+.+++++..
T Consensus 12 ~~~l~~~l~~~~~~~p~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~ 82 (197)
T cd08414 12 YGLLPRLLRRFRARYPDVE--LELRE--MTTAEQLEALRAGRLDVGFVRPPPD---PPGLA-SRPLLREPLVVALPADH 82 (197)
T ss_pred HHHHHHHHHHHHHHCCCcE--EEEec--CChHHHHHHHHcCCccEEEEcCCCC---CCCee-EEEEeeccEEEEecCCC
Confidence 345677788887776 334 44444 2457799999999999998643222 22232 36788888888887655
No 261
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=81.31 E-value=34 Score=31.83 Aligned_cols=72 Identities=18% Similarity=0.206 Sum_probs=46.6
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+.. +.+ +.+.. +..+.+++.+.+|++|+++..-.. ......+ .+.++....+.+++++..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~v~~~~~ 84 (195)
T cd08427 12 TGLLPRALARLRRRHPDLE--VHIVP--GLSAELLARVDAGELDAAIVVEPP-FPLPKDL-VWTPLVREPLVLIAPAEL 84 (195)
T ss_pred HHHhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCCCEEEEcCCC-CccccCc-eEEEcccCcEEEEECCCC
Confidence 356678888888877 545 44443 246789999999999999863211 1101223 235677788888887655
No 262
>TIGR00035 asp_race aspartate racemase.
Probab=80.84 E-value=5.9 Score=39.19 Aligned_cols=46 Identities=11% Similarity=0.132 Sum_probs=25.8
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEee
Q 004136 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~ 127 (771)
++...+..+.+.+.+.++.+++=+-.+.... +..+-+..++|+|+.
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i 104 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM 104 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech
Confidence 3444444444444478888777654443332 444555567888753
No 263
>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=80.59 E-value=7.2 Score=35.73 Aligned_cols=100 Identities=15% Similarity=0.155 Sum_probs=63.3
Q ss_pred HHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHH-HHhhhCCceEE
Q 004136 159 ADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL-KKVQDKQSRVF 235 (771)
Q Consensus 159 ~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l-~~l~~~~~~vI 235 (771)
++++.+.|.++++++..... +. ....+.|++++++.| +............ ..+..... ..+++..+++|
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~--~~r~~gf~~~~~~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~pdai 72 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVS--RERLEGFREALKEHG-IEFEELIFFSDDD-----SEDAREAQLLWLRRLRPDAI 72 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHH--HHHHHHHHHHHHHTT-SEEEGEEEEESSS-----HHHHHHHHHHHHHTCSSSEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhH--HHHHHHHHHHHHHCC-CCCCeeEeecCCc-----chhHHHHHHHHHhcCCCcEE
Confidence 46788889999999994332 33 456788999999999 7654433333222 01222222 22333367876
Q ss_pred EEEecChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 004136 236 IVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (771)
Q Consensus 236 v~~~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 268 (771)
|. ++...+..+++++++.|+..+ +...++-+
T Consensus 73 i~--~~~~~a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 73 IC--SNDRLALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp EE--SSHHHHHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred EE--cCHHHHHHHHHHHHHcCCcccccccEEEec
Confidence 65 888999999999999999543 45444444
No 264
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=80.54 E-value=15 Score=34.66 Aligned_cols=70 Identities=19% Similarity=0.228 Sum_probs=47.1
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +++.. +.. .++..+.+|++|+++..... ....+. ..|+....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--v~l~~--~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08460 12 AAFGPALLAAVAAEAPGVR--LRFVP--ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRAGHP 82 (200)
T ss_pred HHHHHHHHHHHHHHCCCCE--EEEec--Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeCCCC
Confidence 466778888888876 444 55443 234 67899999999999863222 122233 367888888888876653
No 265
>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=80.47 E-value=8.5 Score=40.07 Aligned_cols=90 Identities=20% Similarity=0.198 Sum_probs=66.2
Q ss_pred EEEEEE---eCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 36 KIGAIV---DANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~---p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
++|.+. ....+.-.....|+...++..|. ..++...+..+-.||..+.+.+..|+ ++++.+|+. ........
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np---~i~v~~~~~gs~~D~~~~~~~a~~li-~~GaDvI~~-~ag~~~~g 202 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVNP---DIKVNVSYTGSFNDPAKAKEAAEALI-DQGADVIFP-VAGGSGQG 202 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTTT---T-EEEEEE-SSSS-HHHHHHHHHHHH-HTT-SEEEE-E-CCCHHH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhCc---CceEEEEEcCCcCchHHHHHHHHHHh-hcCCeEEEE-CCCCCchH
Confidence 577777 66666667889999999999994 57888888888899999999999999 699999986 33345666
Q ss_pred HHHhhccCCcc--EEeecCC
Q 004136 113 VAEIASRVQVP--ILSFAAP 130 (771)
Q Consensus 113 v~~~~~~~~iP--~Is~~a~ 130 (771)
+...+++.+.. .|.....
T Consensus 203 v~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 203 VIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHTHETEEEEEES-
T ss_pred HHHHHHHcCCceEEEEeccc
Confidence 77777888888 8877655
No 266
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=80.14 E-value=50 Score=30.62 Aligned_cols=72 Identities=14% Similarity=0.191 Sum_probs=47.6
Q ss_pred ccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+..+++..+.+... .+++++... +...++..|.+|++|+++...... ...+. ..++....+.+++++..+
T Consensus 12 ~~~l~~~l~~~~~~~p-~v~i~i~~~--~~~~~~~~L~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~~ 83 (197)
T cd08438 12 SLLFAPLLAAFRQRYP-NIELELVEY--GGKKVEQAVLNGELDVGITVLPVD---EEEFD-SQPLCNEPLVAVLPRGHP 83 (197)
T ss_pred hhhcHHHHHHHHHHCc-CeEEEEEEc--CcHHHHHHHHcCCCCEEEEecccc---cCCce-eEEeccccEEEEecCCCC
Confidence 3566788888888762 233454442 457789999999999998643322 22232 356777888888876653
No 267
>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of dinitrotoluene and similar compounds, such as DntR, NahR, and LinR. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. Also included are related LysR-type regulators clustered together in phylogenetic trees, including NodD, ToxR, LeuO, SyrM, TdcA, and PnbR. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrate
Probab=80.11 E-value=31 Score=32.29 Aligned_cols=71 Identities=20% Similarity=0.198 Sum_probs=47.3
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.. +.+.. +....+...+.+|++|+++.... .....+ -..|+....+.++++....
T Consensus 12 ~~~~~~~i~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~~ 83 (200)
T cd08417 12 ALLLPPLLARLRQEAPGVR--LRFVP--LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHHhhCCCeE--EEecc--CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecCCCc
Confidence 456667788887776 344 44433 35678999999999999986432 222223 2367888888888876653
No 268
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=79.42 E-value=53 Score=30.40 Aligned_cols=71 Identities=11% Similarity=0.146 Sum_probs=47.2
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.+.. +.+ +++.. +....+.+.+.+|++|+++..... ....+. +.++....+.+++++..+
T Consensus 12 ~~~l~~~l~~~~~~~p~v~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~p 83 (197)
T cd08440 12 ATLLPPVLAAFRRRHPGIR--VRLRD--VSAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPFVLVCPKDHP 83 (197)
T ss_pred hhHHHHHHHHHHHhCCCcE--EEEEe--CChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccEEEEecCCCC
Confidence 456678888888876 444 44443 245778999999999999864322 222232 257777888888876553
No 269
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=79.18 E-value=35 Score=34.34 Aligned_cols=167 Identities=13% Similarity=0.070 Sum_probs=101.3
Q ss_pred HHHHHHHHHCCCcccEEEecCCCChHHHHHHHhc-ccccEEEeeEeeec--ccee---eeecccceeeccEEEEEecCCC
Q 004136 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYD-KTYDAAVGDLTILG--NRTE---YVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 493 ~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~-~~~D~~~~~~~~t~--~r~~---~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
++...+.+..|.++++.+-. -..+..++.+ .++|+.++.=.... ..++ .-+...+|....+++++++.+.
T Consensus 46 ~i~~~F~~~~~~~V~~~f~g----S~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~~~~~~ 121 (258)
T COG0725 46 EIAKQFEKETGVKVEVEFGG----SGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAVPKGSK 121 (258)
T ss_pred HHHHHHHHHHCCeEEEEecc----hHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEEeCCCc
Confidence 78888888888886666533 3456777766 47888766433221 1122 1225567888889999988765
Q ss_pred CCccccccCCCHHHHHHHHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccCcccccchhhHHHHHHHH
Q 004136 567 ESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWL 646 (771)
Q Consensus 567 ~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~Rl~~~~~~ 646 (771)
..
T Consensus 122 ~~------------------------------------------------------------------------------ 123 (258)
T COG0725 122 KK------------------------------------------------------------------------------ 123 (258)
T ss_pred cC------------------------------------------------------------------------------
Confidence 31
Q ss_pred HHHHHHHHHhhcccccceeecccCCCCCChhHhhh-CCceEEE------ecChHHHHHHHHh--cCCCCCCcccCCCCHH
Q 004136 647 FVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKS-GNLKVGC------VDDSFVKKYLEEV--LGFRSGNIVPFGNTEA 717 (771)
Q Consensus 647 ~~~li~~~~Yta~L~s~lt~~~~~~~i~~~~dL~~-~~~~~g~------~~~s~~~~~l~~~--~~~~~~~~~~~~~~~~ 717 (771)
+.+.++|.. .+.++++ .-|-.....|+.. ......++..-.+ .+
T Consensus 124 --------------------------~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~-v~ 176 (258)
T COG0725 124 --------------------------IESLEDLLERPDVRLAIGDPKTVPAGKYAKEALELLGLWYTLKDKLVLATN-VR 176 (258)
T ss_pred --------------------------cccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHHhchhhhccccEEecCc-HH
Confidence 444777765 4677776 3345555555552 1112235555566 88
Q ss_pred HHHHHHHcCCceEEEecchhHHHHHHhcCCceeEee--eeeeceEEEEEecCCCC
Q 004136 718 NYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN--TYRFGGLGFVSNIIYSH 770 (771)
Q Consensus 718 ~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~~--~~~~~~~g~~~~k~s~~ 770 (771)
+.+..|.+|+.|+.+.=...+. ....-+.+..++ ...+..|.+++.+++++
T Consensus 177 ~~l~~V~~G~ad~g~vy~sd~~--~~~~~~~~~~~~~~~~~Pi~y~iav~~~~~~ 229 (258)
T COG0725 177 QALAYVETGEADAGFVYVSDAL--LSKKVKIVGVFPEDLHSPIVYPIAVLKNAKN 229 (258)
T ss_pred HHHHHHHcCCCCeEEEEEEhhh--ccCCceEEEEcccccCCCeEEEEEEEcCCCC
Confidence 9999999999988665444322 122112233333 23357899999999875
No 270
>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulators, OccR and NocR, involved in the catabolism of opines and that of LysR for lysine biosynthesis which clustered together in phylogenetic trees. Opines, such as octopine and nopaline, are low molecular weight compounds found in plant crown gall tumors that are produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. NocR and OccR belong to the family of LysR-type transcriptional regulators that positively regulates the catabolism of nopaline and octopine, respectively. Both nopaline and octopalin are arginine derivatives. In Agrobacterium tumefa
Probab=78.86 E-value=53 Score=30.51 Aligned_cols=70 Identities=9% Similarity=0.061 Sum_probs=47.4
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+..+++..+.+.. +.+ +.+.. +...++...+.+|++|+++...... ...+ .+.|+....+.+++++..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~~~ 82 (196)
T cd08415 12 LSLLPRAIARFRARHPDVR--ISLHT--LSSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCVLPPGH 82 (196)
T ss_pred ccccHHHHHHHHHHCCCcE--EEEEe--cchHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEEEcCCC
Confidence 355678888888876 544 44444 2467789999999999998643221 2223 346788888888887654
No 271
>TIGR00363 lipoprotein, YaeC family. This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family.
Probab=78.43 E-value=11 Score=38.01 Aligned_cols=67 Identities=12% Similarity=0.214 Sum_probs=42.6
Q ss_pred CCCChhHhhhCCceEEEecChHHH----HHHHHhcCCC------------------CCCcccCCCCHHHHHHHHHcCCce
Q 004136 672 NVTDIQSLKSGNLKVGCVDDSFVK----KYLEEVLGFR------------------SGNIVPFGNTEANYIQKFENNTID 729 (771)
Q Consensus 672 ~i~~~~dL~~~~~~~g~~~~s~~~----~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~v~~~~~~ 729 (771)
.+++++||.+ |.+|++.++.... ..|++ .+.- ..++....-...+...++.+|++|
T Consensus 107 ~~~sl~dlk~-G~~IAip~d~~n~~raL~~L~~-aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel~~~~~~~al~~g~vD 184 (258)
T TIGR00363 107 KIKNVNELQD-GAKVAVPNDPTNLGRALLLLQK-QGLIKLKDGNGLLPTVLDIVENPKKLNITELETSQLPRALDDPKVD 184 (258)
T ss_pred CCCCHHHcCC-CCEEEEeCCcchHHHHHHHHHH-cCCceecCCCCCcCChhhhhcCCCCCEEEEcCHHHHHHHhhccccc
Confidence 3899999943 8899997664322 23444 2221 222222111366778889999999
Q ss_pred EEEecchhHHH
Q 004136 730 SLFLERPYEKV 740 (771)
Q Consensus 730 a~i~~~~~~~~ 740 (771)
+.+...+++..
T Consensus 185 aa~v~~~~~~~ 195 (258)
T TIGR00363 185 LAVINTTYAGQ 195 (258)
T ss_pred EEEEChHHHHH
Confidence 99998887653
No 272
>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=78.42 E-value=56 Score=30.19 Aligned_cols=71 Identities=18% Similarity=0.135 Sum_probs=46.7
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+.. +.. +++.. ++...+...+.+|++|+++..... .....+. ..++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~~~ 83 (194)
T cd08436 12 AVDLPELLARFHRRHPGVD--IRLRQ--AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAPDH 83 (194)
T ss_pred HHHHHHHHHHHHHHCCCcE--EEEec--CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecCCC
Confidence 456677888888776 444 44443 245678999999999999864332 1222232 35677778888877655
No 273
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=78.35 E-value=19 Score=38.34 Aligned_cols=95 Identities=12% Similarity=0.091 Sum_probs=69.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
-..+.+.++.++++++.++.+..-.. .+..+.+.+.+++.| +++.....+.++.. .+.....+..+++.++|.
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~--~g~~~~v~~~L~~~~-i~~~if~~v~p~P~----~~~v~~~~~~~~~~~~D~ 89 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAK--LGLLDKVLDSLDAAG-IEYEVFDEVEPEPT----IETVEAGAEVAREFGPDT 89 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCcccc--chhHHHHHHHHHhcC-CeEEEecCCCCCCC----HHHHHHHHHHHHhcCCCE
Confidence 45667777889999999999887665 778999999999999 77654443444331 156788888999999999
Q ss_pred EEE-EecChhHHHHHHHHHHHcC
Q 004136 235 FIV-LQASLDMTIHLFTEANRMG 256 (771)
Q Consensus 235 Iv~-~~~~~~~~~~il~~a~~~g 256 (771)
||- ..++.-++.+.+......+
T Consensus 90 iIalGGGS~~D~AK~i~~~~~~~ 112 (377)
T COG1454 90 IIALGGGSVIDAAKAIALLAENP 112 (377)
T ss_pred EEEeCCccHHHHHHHHHHHhhCC
Confidence 996 1234556777666666543
No 274
>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold. The IlvR is an activator of the upstream and divergently transcribed ilvD gene, which encodes dihydroxy acid dehydratase that participates in isoleucine, leucine, and valine biosynthesis. As in the case of other members of the LysR family, the expression of ilvR gene is repressed in the presence of its own gene product. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport
Probab=78.29 E-value=59 Score=30.39 Aligned_cols=73 Identities=14% Similarity=0.121 Sum_probs=46.9
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +++.. +....+...+.+|++|+++............++ +.|+....+.+++++..+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~~hp 86 (200)
T cd08453 13 SVLPELVRRFREAYPDVE--LQLRE--ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVPAAWA 86 (200)
T ss_pred HHHHHHHHHHHHhCCCce--EEEEe--CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEECCCc
Confidence 46677888887776 545 44443 246678999999999999863222111122232 367778888888876653
No 275
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=78.18 E-value=58 Score=30.22 Aligned_cols=71 Identities=13% Similarity=0.189 Sum_probs=46.8
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +.+... ....++.+|.+|++|+++...... .+.+. +.++....+.+++++..+
T Consensus 12 ~~~l~~~l~~~~~~~P~~~--l~~~~~--~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08420 12 EYLLPRLLARFRKRYPEVR--VSLTIG--NTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPPDHP 83 (201)
T ss_pred hhhhHHHHHHHHHHCCCce--EEEEeC--CcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecCCCC
Confidence 356678888888876 445 444432 346789999999999998643322 22232 367778888888876553
No 276
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=78.00 E-value=18 Score=36.75 Aligned_cols=66 Identities=12% Similarity=0.262 Sum_probs=41.1
Q ss_pred CCChhHhhhCCceEEEecC-hHHH---HHHHHhcCC------------------CCCCcccCCCCHHHHHHHHHcCCceE
Q 004136 673 VTDIQSLKSGNLKVGCVDD-SFVK---KYLEEVLGF------------------RSGNIVPFGNTEANYIQKFENNTIDS 730 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~-s~~~---~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~v~~~~~~a 730 (771)
|+|++||. .|.+|++..+ +... .+|++ .+. .+.++.-..-...+...++.+|++|+
T Consensus 121 i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~-~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~~~~~~~~al~~g~vDa 198 (271)
T PRK11063 121 IKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQK-VGLIKLKDGVGLLPTVLDIVENPKNLKIVELEAPQLPRSLDDAQIAL 198 (271)
T ss_pred CCCHHHhc-CCCEEEecCCCccHHHHHHHHHH-CCCEEecCCCCCCCCHHHHhcCCCCCEEEECcHHHHHHhcccccccE
Confidence 89999994 3889998753 2222 23333 111 11122222213667788888999999
Q ss_pred EEecchhHHH
Q 004136 731 LFLERPYEKV 740 (771)
Q Consensus 731 ~i~~~~~~~~ 740 (771)
.+...+++..
T Consensus 199 a~i~~~~a~~ 208 (271)
T PRK11063 199 AVINTTYASQ 208 (271)
T ss_pred EEEChHHHHH
Confidence 9999888763
No 277
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=77.94 E-value=59 Score=33.57 Aligned_cols=70 Identities=9% Similarity=0.087 Sum_probs=47.6
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-..++..+.+.. +.+ +.+... ..+.+++.|.+|++|+++........+ + .+.|+....+++++++..+
T Consensus 104 ~~~~~~l~~~~~~~P~v~--i~~~~~--~~~~~~~~l~~g~~Dl~i~~~~~~~~~---l-~~~~l~~~~~~~~~~~~hp 174 (305)
T PRK11151 104 YLLPHIIPMLHQTFPKLE--MYLHEA--QTHQLLAQLDSGKLDCAILALVKESEA---F-IEVPLFDEPMLLAVYEDHP 174 (305)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEEeC--CHHHHHHHHHcCCccEEEEecCCCCCC---e-EEEEeccCcEEEEecCCCC
Confidence 45567777777765 433 554442 457899999999999998743322221 2 3478888899999876653
No 278
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=77.72 E-value=41 Score=34.86 Aligned_cols=69 Identities=12% Similarity=0.067 Sum_probs=44.6
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+..+++..+.++. +.. +.+.. +....+...+.+|++|+++...... ...++ ..|+....+.++++...
T Consensus 105 ~~~~~~l~~~~~~~p~i~--l~~~~--~~~~~~~~~l~~g~~Di~i~~~~~~---~~~~~-~~~l~~~~~~lv~~~~~ 174 (305)
T PRK11233 105 SLTMPLLQAVRAEFPGIV--LYLHE--NSGATLNEKLMNGQLDMAVIYEHSP---VAGLS-SQPLLKEDLFLVGTQDC 174 (305)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEEE--CCcHHHHHHHHCCCCCEEEEcCCcC---CCCcE-EEEEeeeeEEEEEcCcc
Confidence 45567888888876 544 44433 2346788999999999998632221 11232 35778888888776553
No 279
>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=77.66 E-value=12 Score=37.64 Aligned_cols=93 Identities=11% Similarity=0.071 Sum_probs=48.0
Q ss_pred CcchhHHHHHHHHHHHhhCcccccccCCCCCCCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC
Q 004136 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (771)
Q Consensus 1 m~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~ 80 (771)
|||...+++++++++++++|++.++.. .....+++||+....++..-......+.-+++ ++ -|++++++...+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~vg~~~~~~~~~~~~~~~~l~~~l~---~~-~g~~v~~~~~~~-- 73 (254)
T TIGR01098 1 MKRLLALLAALLGASLAAACSKKAAEA-AAVPKELNFGILPGENASNLTRRWEPLADYLE---KK-LGIKVQLFVATD-- 73 (254)
T ss_pred ChhHHHHHHHHHHHHHHhhcCCchhhh-ccCCCceEEEECCCCCHHHHHHHHHHHHHHHH---HH-hCCcEEEEeCCC--
Confidence 788877777766666666665433321 13467899999865542111111112222222 22 256777765333
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCC
Q 004136 81 DPFQAATAAQELINKEKVKVIAGME 105 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~ 105 (771)
... ..+.+...++++++...
T Consensus 74 -~~~----~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 74 -YSA----VIEAMRFGRVDIAWFGP 93 (254)
T ss_pred -HHH----HHHHHHcCCccEEEECc
Confidence 111 22233367888777433
No 280
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=77.39 E-value=17 Score=39.15 Aligned_cols=90 Identities=13% Similarity=0.077 Sum_probs=60.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++..-.. .+..+.+.+.+++.| +.+.....+.++.. .++.......+++.++|+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~--~g~~~~v~~~L~~~~-i~~~~f~~v~~np~----~~~v~~~~~~~~~~~~D~ 91 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTK--LGMAGDVQKALEERN-IFSVIYDGTQPNPT----TENVAAGLKLLKENNCDS 91 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCcC----HHHHHHHHHHHHHcCCCE
Confidence 34567788899999999998754433 456788999999988 76533222222221 156888888888999999
Q ss_pred EEE-EecChhHHHHHHHH
Q 004136 235 FIV-LQASLDMTIHLFTE 251 (771)
Q Consensus 235 Iv~-~~~~~~~~~~il~~ 251 (771)
||- ..++.-++.+.+..
T Consensus 92 IiaiGGGS~iD~AK~ia~ 109 (383)
T PRK09860 92 VISLGGGSPHDCAKGIAL 109 (383)
T ss_pred EEEeCCchHHHHHHHHHH
Confidence 995 22344556655554
No 281
>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=77.23 E-value=57 Score=30.36 Aligned_cols=73 Identities=8% Similarity=0.051 Sum_probs=47.0
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeee--ccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTIL--GNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t--~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.+.. +.+ +.+.. ++...+...+.+|++|+++...... ....+.+ .+.++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~ 87 (200)
T cd08423 13 ALLPPALAALRARHPGLE--VRLRE--AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVLPADH 87 (200)
T ss_pred HhhhHHHHHHHHhCCCCe--EEEEe--CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEecCCC
Confidence 45677888888876 444 44443 2456789999999999998632111 1122223 246778888888887665
Q ss_pred C
Q 004136 566 E 566 (771)
Q Consensus 566 ~ 566 (771)
+
T Consensus 88 p 88 (200)
T cd08423 88 P 88 (200)
T ss_pred C
Confidence 3
No 282
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=77.11 E-value=36 Score=35.96 Aligned_cols=92 Identities=17% Similarity=0.166 Sum_probs=69.8
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
.-++|.+.....+.-.+...|+...++..|.+ .++...+..+=.||..+.+.+..|+ ++++++|.....+.....+
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~---i~v~v~~~gsf~D~~k~k~~a~~li-~~GaDVI~~~ag~~~~gv~ 236 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD---IKVKVVYVGSFSDPAKGKEAANALI-DQGADVIYPAAGGTGVGVF 236 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC---ccEEEEEecCccChHHHHHHHHHHH-hcCCCEEEecCCCCcchHH
Confidence 45688888888777788999999999999987 6888888888899999999999998 8999999976655544442
Q ss_pred HHhhccCCccEEeecCC
Q 004136 114 AEIASRVQVPILSFAAP 130 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~ 130 (771)
- .+++.+.=.|.....
T Consensus 237 ~-~A~~~~~~~iGvdsD 252 (345)
T COG1744 237 Q-AAKELGAYAIGVDSD 252 (345)
T ss_pred H-HHHHhCCCeEEEecc
Confidence 0 222223333776655
No 283
>cd08463 PBP2_DntR_like_4 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=76.43 E-value=71 Score=30.27 Aligned_cols=72 Identities=17% Similarity=0.151 Sum_probs=48.7
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +++... +..+.++..|.+|++|+++...... .+.+++ .|+.+..+.+++++..+
T Consensus 12 ~~~~~~~l~~~~~~~P~~~--v~~~~~-~~~~~l~~~L~~g~lDl~i~~~~~~---~~~l~~-~~l~~~~~~lv~~~~h~ 84 (203)
T cd08463 12 ALFLPELVARFRREAPGAR--LEIHPL-GPDFDYERALASGELDLVIGNWPEP---PEHLHL-SPLFSDEIVCLMRADHP 84 (203)
T ss_pred HHHhHHHHHHHHHHCCCCE--EEEEeC-CcchhHHHHHhcCCeeEEEeccccC---CCCcEE-eEeecCceEEEEeCCCC
Confidence 467778899998876 344 444431 2356799999999999998632221 122333 67888888888877764
No 284
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=76.39 E-value=22 Score=35.87 Aligned_cols=74 Identities=9% Similarity=0.067 Sum_probs=44.1
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhccc-ccEEEeeEeeeccc---eeeee-cc-cceeeccEEEEEe
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT-YDAAVGDLTILGNR---TEYVE-FT-QPYAESGFSMIVP 562 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~-~D~~~~~~~~t~~r---~~~~~-fs-~p~~~~~~~~~v~ 562 (771)
...-++.+.+.++.|.++++..-. -..+..++.+|. +|+.++.-.-..++ ...+. .+ .++....++++++
T Consensus 39 ~~~~~l~~~Fe~~~g~~v~~~~~~----Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl~~~ 114 (257)
T PRK10677 39 NALQDIAAQYKKEKGVDVVSSFAS----SSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVVVAP 114 (257)
T ss_pred HHHHHHHHHHHhhhCCeEEEEecc----cHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEEEEE
Confidence 445567777777778775554322 235677777766 99988754221111 12222 22 3577788888888
Q ss_pred cCCC
Q 004136 563 AKQE 566 (771)
Q Consensus 563 ~~~~ 566 (771)
+..+
T Consensus 115 ~~~~ 118 (257)
T PRK10677 115 KASE 118 (257)
T ss_pred CCCc
Confidence 8653
No 285
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=75.94 E-value=81 Score=32.59 Aligned_cols=73 Identities=14% Similarity=0.170 Sum_probs=47.3
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. +....++..|.+|++|+++.......+..+.+ ...++....+.++++...+
T Consensus 108 ~~~~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~~p 181 (305)
T CHL00180 108 YLMPRLIGLFRQRYPQIN--VQLQV--HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIPKSHP 181 (305)
T ss_pred hHHHHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEECCCCc
Confidence 45667788887775 334 44433 24678999999999999986432222111122 2467888889999877664
No 286
>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold. Rhizobium is a nitrogen fixing bacteria present in the roots of leguminous plants, which fixes atmospheric nitrogen to the soil. Most Rhizobium species possess multiple nodulation (nod) genes for the development of nodules. For example, Rhizobium meliloti possesses three copies of nodD genes. NodD1 and NodD2 activate nod operons when Rhizobium is exposed to inducers synthesized by the host plant, while NodD3 acts independent of plant inducers and requires the symbiotic regulator SyrM for nod gene expression. SyrM activates the expression of the regulatory nodulation gene nodD3. In turn, NodD3 activates expression of syrM. In addition, SyrM is involved in exopolysaccharide synthesis. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are
Probab=75.50 E-value=63 Score=30.39 Aligned_cols=70 Identities=19% Similarity=0.221 Sum_probs=46.8
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.++. +.+ +++... ....++..|.+|++|+++..... . ...+. ..++....+++++++..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~~~~~--~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~~h 82 (200)
T cd08467 12 VALLPRLAPRLRERAPGLD--LRLCPI--GDDLAERGLEQGTIDLAVGRFAV--P-PDGLV-VRRLYDDGFACLVRHGH 82 (200)
T ss_pred HHHHHHHHHHHHhhCCCCE--EEEecC--CcccHHHHhhCCCcCEEEecCCC--C-Cccce-eEEeeeccEEEEEcCCC
Confidence 456678888888876 444 454442 45578999999999999853211 1 22233 36788888888887655
No 287
>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=75.35 E-value=7 Score=39.26 Aligned_cols=79 Identities=14% Similarity=0.164 Sum_probs=57.6
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+++.+++.| .++... ++... | .....++++++.+.++|.|++...++.....
T Consensus 1 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~--~~~~~---d-~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFW--QQVIKGAKAAAKELG-YEVEIV--FDAQN---D-PEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHH--HHHHHHHHHHHHHHT-CEEEEE--EESTT---T-HHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEe--CCCCC---C-HHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 4555543 3366 677889999999999 777654 11111 1 1456778888888899999984577778889
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
+++++.+.|+
T Consensus 72 ~l~~~~~~gI 81 (257)
T PF13407_consen 72 FLEKAKAAGI 81 (257)
T ss_dssp HHHHHHHTTS
T ss_pred HHHHHhhcCc
Confidence 9999999997
No 288
>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=75.07 E-value=59 Score=30.29 Aligned_cols=70 Identities=10% Similarity=0.060 Sum_probs=46.0
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+++ +.+ +.+.. +....+...+.+|++|+++..... ....+. +.++....+.++++...
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Di~i~~~~~---~~~~~~-~~~l~~~~~~lv~~~~~ 82 (198)
T cd08461 12 KAILPPLLAALRQEAPGVR--VAIRD--LESDNLEAQLERGEVDLALTTPEY---APDGLR-SRPLFEERYVCVTRRGH 82 (198)
T ss_pred HHHhHHHHHHHHHHCCCcE--EEEee--CCcccHHHHHhcCCCcEEEecCcc---CCccce-eeeeecCcEEEEEcCCC
Confidence 356678888888876 555 44333 234568999999999999863221 122232 46788888888887655
No 289
>cd08466 PBP2_LeuO The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold. LeuO, a LysR-type transcriptional regulator, was originally identified as an activator of the leucine synthesis operon (leuABCD). Subsequently, LeuO was found to be not a specific regulator of the leu gene but a global regulator of unrelated various genes. LeuO activates bglGFB (utilization of beta-D-glucoside) and represses cadCBA (lysine decarboxylation) and dsrA (encoding a regulatory small RNA for translational control of rpoS and hns). LeuO also regulates the yjjQ-bglJ operon which coding for a LuxR-type transcription factor. In Salmonella enterica serovar Typhi, LeuO is a positive regulator of ompS1 (encoding an outer membrane), ompS2 (encoding a pathogenicity determinant), and assT, while LeuO represses the expression of OmpX and Tpx. Both osmS1 and osmS2 influence virulence in the mouse mo
Probab=74.70 E-value=60 Score=30.33 Aligned_cols=71 Identities=11% Similarity=0.073 Sum_probs=47.5
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.+++ +.+ +++.. ++...+...|.+|++|+++.... .....+. +.|+....+.++++....
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~~~ 83 (200)
T cd08466 12 LLLLPRLLARLKQLAPNIS--LRESP--SSEEDLFEDLRLQEVDLVIDYVP---FRDPSFK-SELLFEDELVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHHHHCCCCE--EEEec--CchHhHHHHHHcCCccEEEeccc---CCCCCce-eeeecccceEEEEeCCCC
Confidence 356678888888876 444 44443 35677899999999999986322 1122232 357888888888876653
No 290
>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=74.28 E-value=24 Score=37.88 Aligned_cols=92 Identities=13% Similarity=0.055 Sum_probs=61.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.++++.++.+++.++++..... ....+.+.+.+++.| +++.....+.... +.+...+.+...++.++|.
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~--~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 84 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAA--LGLVARVLALLEDAG-LAAALFDEVPPNP----TEAAVEAGLAAYRAGGCDG 84 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34567788888989999998765543 446788999999988 7654322233222 1246788888888889999
Q ss_pred EEE-EecChhHHHHHHHHHH
Q 004136 235 FIV-LQASLDMTIHLFTEAN 253 (771)
Q Consensus 235 Iv~-~~~~~~~~~~il~~a~ 253 (771)
||- ..++.-++.+++....
T Consensus 85 IIaiGGGSviD~aK~ia~~~ 104 (370)
T cd08192 85 VIAFGGGSALDLAKAVALMA 104 (370)
T ss_pred EEEeCCchHHHHHHHHHHHH
Confidence 995 2234456666655543
No 291
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=73.33 E-value=94 Score=31.79 Aligned_cols=72 Identities=8% Similarity=0.039 Sum_probs=48.7
Q ss_pred ccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+..+++..+.++.. .+++.+.. +....++..+.+|++|+++.... .+.+.+ .+.++....+.+++++..+
T Consensus 103 ~~~l~~~l~~~~~~~p-~~~i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~l-~~~~l~~~~~~~~~~~~~p 174 (296)
T PRK11242 103 AYLIGPLIDAFHARYP-GITLTIRE--MSQERIEALLADDELDVGIAFAP---VHSPEI-EAQPLFTETLALVVGRHHP 174 (296)
T ss_pred hhhhHHHHHHHHHHCC-CCEEEEEe--CCHHHHHHHHHCCCCcEEEEecC---CCCcce-eEEEeeeccEEEEEcCCCc
Confidence 3566788888888752 33355443 24677899999999999986332 222233 3477888888888887653
No 292
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=73.28 E-value=70 Score=33.25 Aligned_cols=71 Identities=11% Similarity=0.102 Sum_probs=45.9
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. +....++..|.+|++|+++..-.... . ..+. +.|+....+.++++...+
T Consensus 106 ~~l~~~l~~~~~~~p~i~--l~~~~--~~~~~~~~~L~~g~~D~~i~~~~~~~-~-~~l~-~~~l~~~~~~~v~~~~~p 177 (313)
T PRK12684 106 YALPAAIKEFKKRYPKVR--LSILQ--GSPTQIAEMVLHGQADLAIATEAIAD-Y-KELV-SLPCYQWNHCVVVPPDHP 177 (313)
T ss_pred HHhHHHHHHHHHHCCCce--EEEEe--CChHHHHHHHHCCCcCEEEeecCCCC-C-CCce-EEEeccceEEEEeCCCCc
Confidence 55678888888766 444 44433 34678999999999999986422111 1 1232 367777888888776653
No 293
>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold. Galactose-binding protein regulator (GbpR), a member of the LysR family of bacterial transcriptional regulators, regulates the expression of chromosomal virulence gene chvE. The chvE gene is involved in the uptake of specific sugars, in chemotaxis to these sugars, and in the VirA-VirG two-component signal transduction system. In the presence of an inducing sugar such as L-arabinose, D-fucose, or D-galactose, GbpR activates chvE expression, while in the absence of an inducing sugar, GbpR represses expression. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a ma
Probab=73.26 E-value=79 Score=29.36 Aligned_cols=73 Identities=15% Similarity=0.235 Sum_probs=46.5
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.+... .+++.+.. ++...++..+.+|++|+++..... ..+.+.+. ..|+....+.+++++..+
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~~~-~~~l~~~~~~~~~~~~~~ 85 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE--GTSDELLEGLRAGELDLAIGRLAD-DEQPPDLA-SEELADEPLVVVARPGHP 85 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe--CCHHHHHHHHHcCCccEEEEecCc-ccCCCCcE-EEEcccCcEEEEEeCCCc
Confidence 455677788877753 23344443 346778999999999999863221 11122333 357788888888877653
No 294
>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=73.24 E-value=29 Score=32.44 Aligned_cols=100 Identities=15% Similarity=0.014 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh
Q 004136 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (771)
Q Consensus 152 ~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~--g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~ 229 (771)
......+.+.+...+ .++.++....+. .+.+.+.+++. | +.|+....-+... .+-...++.+.+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~~------~~~~~~~l~~~yp~-l~i~g~~~g~~~~------~~~~~i~~~I~~ 97 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPEV------LEKAAERLRARYPG-LKIVGYHHGYFGP------EEEEEIIERINA 97 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHHH------HHHHHHHHHHHCCC-cEEEEecCCCCCh------hhHHHHHHHHHH
Confidence 345566666665544 678888766443 44444444443 4 6666532222121 233447889999
Q ss_pred CCceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 004136 230 KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (771)
Q Consensus 230 ~~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (771)
.+||+|++ .........++.+..+.. ... ++++.++
T Consensus 98 ~~pdiv~v-glG~PkQE~~~~~~~~~l-~~~--v~~~vG~ 133 (171)
T cd06533 98 SGADILFV-GLGAPKQELWIARHKDRL-PVP--VAIGVGG 133 (171)
T ss_pred cCCCEEEE-ECCCCHHHHHHHHHHHHC-CCC--EEEEece
Confidence 99999999 777777777777766654 232 5666544
No 295
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=73.13 E-value=74 Score=33.84 Aligned_cols=151 Identities=13% Similarity=0.115 Sum_probs=87.9
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhc-CCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNS-DSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~-~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
..+|..+.|.+++..+.....+--+-++.-+ ...+ ++.+.+...-+++...++++.+-+.+.+|.+.+--.++.....
T Consensus 212 ~l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~e 290 (388)
T COG0426 212 LLKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPKG-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSE 290 (388)
T ss_pred ccCccEEEcCCCceeeCCHHHHHHHHHHHHccCCcc-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHH
Confidence 3679999999976555422222223333322 2223 7888887777888888888777776889987776555544444
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 004136 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (771)
Q Consensus 113 v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (771)
+........-.+|. +|.+... ..|+ ...++..++..-.-++.+.+..+.-|+ ......+++.
T Consensus 291 I~~~i~~a~~~vvG------sPT~~~~-------~~p~---i~~~l~~v~~~~~~~k~~~vfgS~GW~--g~av~~i~~~ 352 (388)
T COG0426 291 IVEEILDAKGLVVG------SPTINGG-------AHPP---IQTALGYVLALAPKNKLAGVFGSYGWS--GEAVDLIEEK 352 (388)
T ss_pred HHHHHhhcceEEEe------cCcccCC-------CCch---HHHHHHHHHhccCcCceEEEEeccCCC--CcchHHHHHH
Confidence 44333333333332 1222222 2222 233444444322334445555555666 6779999999
Q ss_pred HhccCCeEEEEe
Q 004136 193 LQNVSSSEIQSR 204 (771)
Q Consensus 193 ~~~~g~~~i~~~ 204 (771)
++..| .++...
T Consensus 353 l~~~g-~~~~~~ 363 (388)
T COG0426 353 LKDLG-FEFGFD 363 (388)
T ss_pred HHhcC-cEEecc
Confidence 99999 877654
No 296
>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=72.48 E-value=76 Score=31.95 Aligned_cols=122 Identities=15% Similarity=0.076 Sum_probs=68.8
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
=+||++.+.......+...|++.++++.|......+..........+...+.+.+.+++. .++.+|+.. ....+..+.
T Consensus 122 ~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~-~~pdaI~~~-nd~~A~gv~ 199 (265)
T cd06354 122 GKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYD-QGADVIFAA-AGGTGNGVF 199 (265)
T ss_pred CeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHH-CCCcEEEEC-CCCCchHHH
Confidence 467777643322223334788888888762111222222222222235566777888884 457888865 334455666
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l 162 (771)
..++..++.+++.... .+.....|.+..+...-..++.-++..+
T Consensus 200 ~al~~~gisIvGfD~~----~~~~~~~p~lttv~~~~~~~~~~~~~~~ 243 (265)
T cd06354 200 QAAKEAGVYAIGVDSD----QYYLAPGVVLTSMVKRVDVAVYDAIKSA 243 (265)
T ss_pred HHHHhcCCeEEEecCc----ccccCCCcEEEEEeehhHHHHHHHHHHH
Confidence 6677778777777643 4444445777667655555555554444
No 297
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=72.47 E-value=53 Score=33.81 Aligned_cols=73 Identities=14% Similarity=0.138 Sum_probs=46.8
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++.. .+++.+.. +....++.++.+|++|++++..... .....+. ..|+....+.+++++..+
T Consensus 106 ~~~~~~l~~~~~~~P-~~~i~~~~--~~~~~~~~~l~~g~~D~~i~~~~~~-~~~~~~~-~~~l~~~~~~~~~~~~hp 178 (300)
T TIGR02424 106 RLMPEVVKRFLARAP-RLRVRIMT--GPNAYLLDQLRVGALDLVVGRLGAP-ETMQGLS-FEHLYNEPVVFVVRAGHP 178 (300)
T ss_pred hhhHHHHHHHHHhCC-CcEEEEEe--CchHHHHHHHHCCCCCEEEEecCCc-cccccee-eeeecCCceEEEEcCCCc
Confidence 345677777777763 23345444 2457789999999999998643322 1222333 357888888888876553
No 298
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=72.44 E-value=14 Score=39.13 Aligned_cols=84 Identities=14% Similarity=0.022 Sum_probs=59.3
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
.-.+++++... ++|. ....+.+++.+++.| +++.... +... +. ..-.++++.+.+.+++.|++...+..
T Consensus 22 ~~~~i~~v~k~~~~pf~--~~~~~Gi~~aa~~~G-~~v~~~~--~~~~---d~-~~q~~~i~~li~~~vdgIiv~~~d~~ 92 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF--TSGGNGAKEAGKELG-VDVTYDG--PTEP---SV-SGQVQLINNFVNQGYNAIIVSAVSPD 92 (336)
T ss_pred CCcEEEEEECCCCCHHH--HHHHHHHHHHHHHhC-CEEEEEC--CCCC---CH-HHHHHHHHHHHHcCCCEEEEecCCHH
Confidence 55688888863 4676 777889999999999 8776421 2111 11 22346777888889999998444566
Q ss_pred HHHHHHHHHHHcCCC
Q 004136 244 MTIHLFTEANRMGLV 258 (771)
Q Consensus 244 ~~~~il~~a~~~g~~ 258 (771)
.....++++.+.|.+
T Consensus 93 al~~~l~~a~~~gIp 107 (336)
T PRK15408 93 GLCPALKRAMQRGVK 107 (336)
T ss_pred HHHHHHHHHHHCCCe
Confidence 667889999999863
No 299
>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=72.34 E-value=29 Score=37.28 Aligned_cols=93 Identities=14% Similarity=0.137 Sum_probs=61.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++-+++.++++..... ....+.+.+.+++.| +++.....+..+.. .+.....+..+++.++|+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~d~ 86 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVK--LGLLDKVLEALEGAG-IEYAVYDGVPPDPT----IENVEAGLALYRENGCDA 86 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhh--cccHHHHHHHHHhcC-CeEEEeCCCCCCcC----HHHHHHHHHHHHhcCCCE
Confidence 44567778888888999998765543 445788999999888 76543222222221 245788888888889999
Q ss_pred EEE-EecChhHHHHHHHHHHH
Q 004136 235 FIV-LQASLDMTIHLFTEANR 254 (771)
Q Consensus 235 Iv~-~~~~~~~~~~il~~a~~ 254 (771)
||- ..++.-++.+++.....
T Consensus 87 IIaiGGGS~~D~aK~ia~~~~ 107 (374)
T cd08189 87 ILAVGGGSVIDCAKAIAARAA 107 (374)
T ss_pred EEEeCCccHHHHHHHHHHHHh
Confidence 995 22344566666555443
No 300
>cd08441 PBP2_MetR The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold. MetR, a member of the LysR family, is a positive regulator for the metA, metE, metF, and metH genes. The sulfur-containing amino acid methionine is the universal initiator of protein synthesis in all known organisms and its derivative S-adenosylmethionine (SAM) and autoinducer-2 (AI-2) are involved in various cellular processes. SAM plays a central role as methyl donor in methylation reactions, which are essential for the biosynthesis of phospholipids, proteins, DNA and RNA. The interspecies signaling molecule AI-2 is involved in cell-cell communication process (quorum sensing) and gene regulation in bacteria. Although methionine biosynthetic enzymes and metabolic pathways are well conserved in bacteria, the regulation of methionine biosynthesis involves various regulatory mecha
Probab=72.31 E-value=84 Score=29.26 Aligned_cols=69 Identities=7% Similarity=0.171 Sum_probs=43.9
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.+ +.+.. +....+...|.+|++|+++..-... ...+. ..++....+.++++...
T Consensus 13 ~~~~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (198)
T cd08441 13 DWLMPVLDQFRERWPDVE--LDLSS--GFHFDPLPALLRGELDLVITSDPLP---LPGIA-YEPLFDYEVVLVVAPDH 82 (198)
T ss_pred hhhHHHHHHHHHhCCCeE--EEEEe--CCchhHHHHHHcCCceEEEecCCcC---CCCcE-EEEccCCcEEEEEcCCC
Confidence 34567888888876 444 44433 2456789999999999998532221 12232 24677777888776654
No 301
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=72.18 E-value=8.5 Score=46.32 Aligned_cols=54 Identities=7% Similarity=0.265 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHHhhccC-cc-cccchhhHHHHHHHHHHHHHHHHHhhcccccceee
Q 004136 613 QISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTV 666 (771)
Q Consensus 613 ~~~~~~~~~~~~~~~~~-~~-~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~ 666 (771)
.+..++|+++.+++..| |. .|.+...|++.++|.++++.+.++..+++++.+..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46679999999999987 54 57899999999999999999999999999987754
No 302
>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily. OxyR senses hydrogen peroxide and is activated through the formation of an intramolecular disulfide bond. The OxyR activation induces the transcription of genes necessary for the bacterial defense against oxidative stress. The OxyR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repre
Probab=72.07 E-value=85 Score=29.23 Aligned_cols=69 Identities=16% Similarity=0.184 Sum_probs=45.2
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.+ +++.. ++...++..|.+|++|+++...... ...+. ..++....+.++++...
T Consensus 14 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~ 83 (200)
T cd08411 14 YLLPRLLPALRQAYPKLR--LYLRE--DQTERLLEKLRSGELDAALLALPVD---EPGLE-EEPLFDEPFLLAVPKDH 83 (200)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEEe--CcHHHHHHHHHcCCccEEEEeccCC---CCCce-EEEeeccceEEEecCCC
Confidence 46677888888876 344 44443 3467889999999999998632221 12232 25677778888877655
No 303
>PRK10537 voltage-gated potassium channel; Provisional
Probab=71.93 E-value=14 Score=39.87 Aligned_cols=53 Identities=9% Similarity=0.147 Sum_probs=42.8
Q ss_pred chHHHHHHHHHHHhhccC--cccccchhhHHHHHHHHHHHHHHHHHhhcccccce
Q 004136 612 DQISNILWFAFSTIFFSH--RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLL 664 (771)
Q Consensus 612 ~~~~~~~~~~~~~~~~~~--~~~~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~l 664 (771)
.++.+++|+++.++...| ...|.+..+|++...+.++++.+..+..+.++..+
T Consensus 167 ~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 167 ESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred CCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999998877 44578899999999999999987766666655543
No 304
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=71.51 E-value=28 Score=37.49 Aligned_cols=89 Identities=11% Similarity=0.162 Sum_probs=59.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++..-.- .+..+.+.+.+++.| +++.....+..+. +.+.....+..+++.++|+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 90 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVK--CGVVAKVTDVLDAAG-LAYEIYDGVKPNP----TIEVVKEGVEVFKASGADY 90 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhh--CcchHHHHHHHHHCC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 45577788888989999998765543 446888999999988 7654322222222 1256777888888889999
Q ss_pred EEEEec--ChhHHHHHHHH
Q 004136 235 FIVLQA--SLDMTIHLFTE 251 (771)
Q Consensus 235 Iv~~~~--~~~~~~~il~~ 251 (771)
||- .+ +.-++.+++..
T Consensus 91 IIa-iGGGS~iD~aK~ia~ 108 (382)
T PRK10624 91 LIA-IGGGSPQDTCKAIGI 108 (382)
T ss_pred EEE-eCChHHHHHHHHHHH
Confidence 995 33 44455555443
No 305
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=71.44 E-value=19 Score=35.96 Aligned_cols=92 Identities=12% Similarity=0.161 Sum_probs=54.9
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEE
Q 004136 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (771)
Q Consensus 157 a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv 236 (771)
.+.+++++++.+++.++++.+.| ....+.+++.++..| +++.......... +..+......+++..++++|+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~---~~~g~~v~~~l~~~g-~~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~ii 80 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY---KAAGEKVEESLKSAG-IEVAVIEEFVGDA----DEDEVEKLVEALRPKDADLII 80 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH---HHHHHHHHHHHHTTT--EEEEEE-EE-------BHHHHHHHHTTS--TT--EEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH---HHHHHHHHHHHHHcC-CeEEEEecCCCCC----CHHHHHHHHHHhcccCCCEEE
Confidence 45678888888999999998887 566789999999999 8877433222222 124466666677667888888
Q ss_pred EEecChhHHHHHHHHHHHcCC
Q 004136 237 VLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 237 ~~~~~~~~~~~il~~a~~~g~ 257 (771)
- .+.+.-.-..=..|.+++.
T Consensus 81 ~-vGgG~i~D~~K~~A~~~~~ 100 (250)
T PF13685_consen 81 G-VGGGTIIDIAKYAAFELGI 100 (250)
T ss_dssp E-EESHHHHHHHHHHHHHHT-
T ss_pred E-eCCcHHHHHHHHHHHhcCC
Confidence 7 6655433322333555654
No 306
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=71.17 E-value=44 Score=34.80 Aligned_cols=70 Identities=4% Similarity=0.081 Sum_probs=48.2
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
++-.+++..+.+.. +.+ +.+.. +....++..|.+|++|+++...... ...+.+ .++....+.++++...+
T Consensus 125 ~~l~~~l~~f~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Di~i~~~~~~---~~~l~~-~~l~~~~~~lv~~~~hp 195 (314)
T PRK09508 125 RLTSQIYNRIEQIAPNIH--VVFKS--SLNQNIEHQLRYQETEFVISYEEFD---RPEFTS-VPLFKDELVLVASKNHP 195 (314)
T ss_pred HHHHHHHHHHHHhCCCcE--EEEEe--CcchhHHHHHhcCCccEEEecCCCC---ccccce-eeeecCceEEEEcCCCC
Confidence 56788888998887 556 44433 2346789999999999998743221 223333 47778888888876653
No 307
>cd08448 PBP2_LTTR_aromatics_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=71.03 E-value=88 Score=28.92 Aligned_cols=70 Identities=9% Similarity=0.017 Sum_probs=47.4
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.++. +.+ +++.. +...++...+.+|++|+++.... .....+. +.++.+..+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~h 82 (197)
T cd08448 12 YRGLPRILRAFRAEYPGIE--VALHE--MSSAEQIEALLRGELDLGFVHSR---RLPAGLS-ARLLHREPFVCCLPAGH 82 (197)
T ss_pred HHHHHHHHHHHHHHCCCCe--EEEEe--CCHHHHHHHHHcCCcceEEEeCC---CCCcCce-EEEEecCcEEEEeeCCC
Confidence 356678888888877 555 44443 35678999999999999986322 2222232 36778888888877654
No 308
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=70.23 E-value=1.4e+02 Score=30.88 Aligned_cols=72 Identities=13% Similarity=0.157 Sum_probs=47.9
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.+.. +.+ +.+.. +..+.++..+.+|++|+++...... . ...++ +.|+....+.++++...+
T Consensus 105 ~~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~-~-~~~l~-~~~l~~~~~~~~~~~~~p 177 (309)
T PRK12682 105 RYVLPRVVAAFRKRYPKVN--LSLHQ--GSPDEIARMVISGEADIGIATESLA-D-DPDLA-TLPCYDWQHAVIVPPDHP 177 (309)
T ss_pred HHHHHHHHHHHHHhCCCeE--EEEec--CCHHHHHHHHHcCCccEEEecCccc-C-CCcce-EEEeeeeeEEEEecCCCc
Confidence 356778888888876 444 44433 2457789999999999998642221 1 12233 357888888888877653
No 309
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=69.95 E-value=83 Score=32.65 Aligned_cols=71 Identities=14% Similarity=0.258 Sum_probs=46.8
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.+.. +.+ +.+... ....++..|.+|++|+++...... ...+.+ -..|+....+.+++++..
T Consensus 110 ~~l~~~l~~~~~~~p~v~--i~~~~~--~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 110 TFMSDMINKFKEVFPKAQ--VSMYEA--QLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFVLVASKSR 181 (312)
T ss_pred hhHHHHHHHHHHhCCCCE--EEEEeC--CHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEEEEEcCCC
Confidence 45567888888765 333 554442 467899999999999998643221 111223 236888888999887665
No 310
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=69.66 E-value=4.2 Score=43.62 Aligned_cols=60 Identities=15% Similarity=0.188 Sum_probs=46.1
Q ss_pred HHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccC-cc-cccchhhHHHHHHHHHHHHHHHHH
Q 004136 592 MFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSS 655 (771)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~s~Rl~~~~~~~~~li~~~~ 655 (771)
+.++++.+|-.+.. ...++-.++||+..+|+..| |+ .|++++||++...-.+.+++.++.
T Consensus 360 StlvY~~Ek~~~~~----~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 360 STLVYFAEKDEPDT----KFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHhhhcCCCC----CCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 45556666643222 24467789999999999998 66 579999999999999999988754
No 311
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=69.53 E-value=65 Score=30.84 Aligned_cols=71 Identities=11% Similarity=0.055 Sum_probs=47.3
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+..+++..+.++. +.+ +.+.. ++...+...+.+|++|++++... ...+.+. ..|+....+.++++...+
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~~p 83 (221)
T cd08469 12 AVLLPALVRRLETEAPGID--LRIRP--VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRKDHP 83 (221)
T ss_pred HHHHHHHHHHHHHHCCCcE--EEEee--CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeCCCc
Confidence 355677888887776 344 44443 24567899999999999986432 2223343 368888888888876653
No 312
>cd08413 PBP2_CysB_like The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold. CysB is a transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the regulation of transcription in response to sulfur source is attributed to two transcriptional regulators, CysB and Cbl. CysB, in association with Cbl, downregulates the expression of ssuEADCB operon which is required for the utilization of sulfur from aliphatic sulfonates, in the presence of cysteine. Also, Cbl and CysB together directly function as transcriptional activators of tauABCD genes, which are required for utilization of taurine as sulfur source for growth. Like many other members of the LTTR family, CysB is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-bi
Probab=69.37 E-value=93 Score=29.12 Aligned_cols=72 Identities=13% Similarity=0.086 Sum_probs=47.3
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +.+.. +....+...+.+|++|+++...... ....+. +.++....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--v~~~~--~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08413 12 RYVLPPVIAAFRKRYPKVK--LSLHQ--GTPSQIAEMVLKGEADIAIATEALD--DHPDLV-TLPCYRWNHCVIVPPGHP 84 (198)
T ss_pred hhhccHHHHHHHHhCCceE--EEEEe--CCHHHHHHHHHcCCCCEEEEccCCC--CCCCcE-EEEeeeeeEEEEecCCCc
Confidence 345677888888876 334 44433 3467789999999999998632221 112233 367888888888876653
No 313
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=68.35 E-value=1.1e+02 Score=29.01 Aligned_cols=71 Identities=13% Similarity=0.179 Sum_probs=44.6
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEec
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPA 563 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~ 563 (771)
..+-.+++..+.+++ +.+ +++.. ++...++..|.+|++|+++........-...+ ...|+.+..+.++++.
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 12 KSIAYRLLEPAMDLHEPIR--LVCRE--GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHHhCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 356677888888876 444 44444 46788999999999999985332211100112 1357777777776654
No 314
>cd08416 PBP2_MdcR The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold. This family includes the C-terminal substrate binding domain of LysR-type transcriptional regulator (LTTR) MdcR that controls the expression of the malonate decarboxylase (mdc) genes. Like other members of the LTTRs, MdcR is a positive regulatory protein for its target promoter and composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins (PBP2). The PBP2 are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these dom
Probab=67.80 E-value=1e+02 Score=28.54 Aligned_cols=73 Identities=18% Similarity=0.084 Sum_probs=47.2
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +.+.. +....+...+.+|++|+++....... ....+ -+.++....+.+++++..+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~l-~~~~l~~~~~~~v~~~~hp 85 (199)
T cd08416 12 VNTVPRIIMGLKLRRPELD--IELTL--GSNKDLLKKLKDGELDAILVATPEGL-NDPDF-EVVPLFEDDIFLAVPATSP 85 (199)
T ss_pred HhhhHHHHHHHHHhCCCeE--EEEEE--cCcHHHHHHHhCCCCCEEEEecCCcC-CCCCe-EEEEeecceEEEEECCCCc
Confidence 456778888888887 555 44433 23567889999999999986432110 12222 2457777888888876553
No 315
>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=67.77 E-value=20 Score=36.15 Aligned_cols=79 Identities=11% Similarity=0.141 Sum_probs=52.8
Q ss_pred EEEEEEE--eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHH
Q 004136 169 RVAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMT 245 (771)
Q Consensus 169 ~v~ii~~--~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~ 245 (771)
+|+++.. +++|. ....+.+.+++++.| +++..... .. ++ ......++.+.+.++|.|++ .. .....
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~-----~~-~~~~~~l~~~~~~~vdgii~-~~~~~~~~ 69 (273)
T cd06305 1 RIAVVRYGGSGDFD--QAYLAGTKAEAEALG-GDLRVYDA-GG-----DD-AKQADQIDQAIAQKVDAIII-QHGRAEVL 69 (273)
T ss_pred CeEEEeecCCCcHH--HHHHHHHHHHHHHcC-CEEEEECC-CC-----CH-HHHHHHHHHHHHcCCCEEEE-ecCChhhh
Confidence 3566765 35565 677889999999999 87765321 11 11 33456677777778999998 54 44445
Q ss_pred HHHHHHHHHcCCC
Q 004136 246 IHLFTEANRMGLV 258 (771)
Q Consensus 246 ~~il~~a~~~g~~ 258 (771)
...++.+.+.|++
T Consensus 70 ~~~i~~~~~~~ip 82 (273)
T cd06305 70 KPWVKRALDAGIP 82 (273)
T ss_pred HHHHHHHHHcCCC
Confidence 6778888888763
No 316
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=67.53 E-value=15 Score=37.27 Aligned_cols=81 Identities=19% Similarity=0.204 Sum_probs=41.9
Q ss_pred CcchhHHHHHHHHHHHhhCcccccccCCCCCCCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC
Q 004136 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (771)
Q Consensus 1 m~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~ 80 (771)
||++++++++ ++++++.+|+... ...++|+||+.- .+ +.. ..+++.+.+-+. .|++++++..++..
T Consensus 5 ~~~~~~~~~~-~~~l~l~gC~~~~-----~~~~~I~IG~~~-~~---~~~---~~~~~~~~l~~~-~G~~Vel~~f~~~~ 70 (271)
T PRK11063 5 FKTFAAVGAL-IGTLALVGCGQDE-----KDPNHIKVGVIV-GA---EQQ---VAEVAQKVAKEK-YGLDVELVTFNDYV 70 (271)
T ss_pred HHHHHHHHHH-HHHHHHHhccccc-----CCCCcEEEEeCC-CC---hHH---HHHHHHHHHHHh-cCCeEEEEEecCcH
Confidence 4555544333 3334445554221 123469999983 11 111 233344444332 37899999888665
Q ss_pred CHHHHHHHHHHHHhcCCeEEEE
Q 004136 81 DPFQAATAAQELINKEKVKVIA 102 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~avi 102 (771)
.+..|+. +..+++..
T Consensus 71 ~~~~ALa-------~GdID~~~ 85 (271)
T PRK11063 71 LPNEALS-------KGDIDANA 85 (271)
T ss_pred HHHHHHH-------cCCcceec
Confidence 5554443 56677643
No 317
>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=66.04 E-value=20 Score=36.23 Aligned_cols=80 Identities=10% Similarity=0.065 Sum_probs=52.4
Q ss_pred EEEEEEEe---CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHH
Q 004136 169 RVAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (771)
Q Consensus 169 ~v~ii~~~---~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~ 245 (771)
+|+++..+ ++|. ....+.+.+++++.| ..+..... ... + .......++++.+.++|.|++........
T Consensus 1 ~i~~i~~~~~~~~~~--~~~~~g~~~~~~~~g-~~v~~~~~--~~~---~-~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFW--TVVKNGAEDAAKDLG-VDVEYRGP--ETF---D-VADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHH--HHHHHHHHHHHHHhC-CEEEEECC--CCC---C-HHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 46666654 3566 778889999999999 77654321 110 1 13456677788888999998823344445
Q ss_pred HHHHHHHHHcCC
Q 004136 246 IHLFTEANRMGL 257 (771)
Q Consensus 246 ~~il~~a~~~g~ 257 (771)
...++.+.+.|.
T Consensus 72 ~~~l~~~~~~~i 83 (271)
T cd06312 72 DPAIKRAVAAGI 83 (271)
T ss_pred HHHHHHHHHCCC
Confidence 567788888775
No 318
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=65.98 E-value=1.3e+02 Score=30.99 Aligned_cols=73 Identities=10% Similarity=0.111 Sum_probs=47.4
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.+... .+++.+.. ++..+++..|.+|++|+++....... ....+.+ .|+....+++++++..+
T Consensus 108 ~~l~~~l~~~~~~~p-~i~~~~~~--~~~~~~~~~l~~g~~Di~i~~~~~~~-~~~~~~~-~~l~~~~~~l~~~~~~~ 180 (302)
T PRK09791 108 SLMPAVISRFHQQHP-QVKVRIME--GQLVSMINELRQGELDFTINTYYQGP-YDHEFTF-EKLLEKQFAVFCRPGHP 180 (302)
T ss_pred hhhHHHHHHHHHHCC-CeEEEEEe--CChHHHHHHHHCCCccEEEEecCCcc-cccceeE-EEeccceEEEEEcCCCC
Confidence 456677888877663 22244333 35678999999999999986321111 1223444 68888889998876664
No 319
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=65.52 E-value=30 Score=37.47 Aligned_cols=89 Identities=8% Similarity=-0.026 Sum_probs=58.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.+|.+++.++.+..-.. .+..+.+.+.|++.| +++...-.+..+.. .+...+.++.+++.++|+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~P~----~~~v~~~~~~~r~~~~D~ 109 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQ--AGMTAGLTRSLAVKG-IAMTLWPCPVGEPC----ITDVCAAVAQLRESGCDG 109 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCcC----HHHHHHHHHHHHhcCcCE
Confidence 45567788889988888877654443 556788999999999 76543222222221 145778888888999999
Q ss_pred EEEEecCh--hHHHHHHHH
Q 004136 235 FIVLQASL--DMTIHLFTE 251 (771)
Q Consensus 235 Iv~~~~~~--~~~~~il~~ 251 (771)
||- .+.+ -++.+.+..
T Consensus 110 Iia-vGGGS~iD~AKaia~ 127 (395)
T PRK15454 110 VIA-FGGGSVLDAAKAVAL 127 (395)
T ss_pred EEE-eCChHHHHHHHHHHH
Confidence 997 5444 344444433
No 320
>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=65.09 E-value=1.1e+02 Score=28.62 Aligned_cols=129 Identities=19% Similarity=0.337 Sum_probs=75.9
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHH
Q 004136 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~ 160 (771)
+-..+++.+.+++.++++.+||.-+. ++..+ -+..++|+|....+ .....+++..
T Consensus 18 ~~e~~v~~a~~~~~~~g~dViIsRG~--ta~~l---r~~~~iPVV~I~~s--------------------~~Dil~al~~ 72 (176)
T PF06506_consen 18 SLEEAVEEARQLLESEGADVIISRGG--TAELL---RKHVSIPVVEIPIS--------------------GFDILRALAK 72 (176)
T ss_dssp -HHHHHHHHHHHHTTTT-SEEEEEHH--HHHHH---HCC-SS-EEEE-----------------------HHHHHHHHHH
T ss_pred cHHHHHHHHHHhhHhcCCeEEEECCH--HHHHH---HHhCCCCEEEECCC--------------------HhHHHHHHHH
Confidence 56789999999944899999996433 23333 34458888865544 2223444443
Q ss_pred HHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec
Q 004136 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (771)
Q Consensus 161 ~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~ 240 (771)
. +.++ ++++++...+... + ...+.+.+ | .++..... . + ..++...+.+++..+.++|+- ..
T Consensus 73 a-~~~~-~~Iavv~~~~~~~---~-~~~~~~ll---~-~~i~~~~~-~-~------~~e~~~~i~~~~~~G~~viVG-g~ 133 (176)
T PF06506_consen 73 A-KKYG-PKIAVVGYPNIIP---G-LESIEELL---G-VDIKIYPY-D-S------EEEIEAAIKQAKAEGVDVIVG-GG 133 (176)
T ss_dssp C-CCCT-SEEEEEEESS-SC---C-HHHHHHHH---T--EEEEEEE-S-S------HHHHHHHHHHHHHTT--EEEE-SH
T ss_pred H-HhcC-CcEEEEecccccH---H-HHHHHHHh---C-CceEEEEE-C-C------HHHHHHHHHHHHHcCCcEEEC-CH
Confidence 2 2333 8999999876642 1 66666666 5 55544332 1 1 267999999999999999887 33
Q ss_pred ChhHHHHHHHHHHHcCCCC
Q 004136 241 SLDMTIHLFTEANRMGLVG 259 (771)
Q Consensus 241 ~~~~~~~il~~a~~~g~~~ 259 (771)
. ..+.|++.|+..
T Consensus 134 ~------~~~~A~~~gl~~ 146 (176)
T PF06506_consen 134 V------VCRLARKLGLPG 146 (176)
T ss_dssp H------HHHHHHHTTSEE
T ss_pred H------HHHHHHHcCCcE
Confidence 2 256778899854
No 321
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold. HcaR, a member of the LysR family of transcriptional regulators, controls the expression of the hcA1, A2, B, C, and D operon, encoding for the 3-phenylpropionate dioxygenase complex and 3-phenylpropionate-2',3'-dihydrodiol dehydrogenase, that oxidizes 3-phenylpropionate to 3-(2,3-dihydroxyphenyl) propionate. Dioxygenases play an important role in protecting the cell against the toxic effects of dioxygen. The expression of hcaR is negatively auto-regulated, as for other members of the LysR family, and is strongly repressed in the presence of glucose. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=64.87 E-value=1e+02 Score=28.55 Aligned_cols=71 Identities=14% Similarity=0.192 Sum_probs=46.9
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+-.+++..+.++. +.+ +++.. +....++..+.+|++|+++...... ...+. +.++....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~p 83 (196)
T cd08450 12 VQWLPEVLPILREEHPDLD--VELSS--LFSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPLIVVLPADHR 83 (196)
T ss_pred hhhHHHHHHHHHhhCCCcE--EEEEe--cChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccceEEEecCCCC
Confidence 356678888888876 445 44443 2456789999999999998643221 12232 356777888888876653
No 322
>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=64.81 E-value=29 Score=37.87 Aligned_cols=88 Identities=10% Similarity=0.058 Sum_probs=59.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+++++++.+++.++++...+. ....+.+.+.+++.| +++.....+..... .+.....++.+++.++|+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p~----~~~v~~~~~~~~~~~~D~ 83 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQ--LPPVKVVLDSLEAAG-INFEVYDDVRVEPT----DESFKDAIAFAKKGQFDA 83 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhh--cchHHHHHHHHHHcC-CcEEEeCCCCCCcC----HHHHHHHHHHHHhcCCCE
Confidence 45566788889999999998876554 555788999999888 76543222222221 156778888888889999
Q ss_pred EEEEecCh--hHHHHHHH
Q 004136 235 FIVLQASL--DMTIHLFT 250 (771)
Q Consensus 235 Iv~~~~~~--~~~~~il~ 250 (771)
||- .+.+ -++.+++.
T Consensus 84 IIa-iGGGSviD~AKaia 100 (414)
T cd08190 84 FVA-VGGGSVIDTAKAAN 100 (414)
T ss_pred EEE-eCCccHHHHHHHHH
Confidence 997 4433 44444443
No 323
>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=64.61 E-value=52 Score=35.45 Aligned_cols=90 Identities=12% Similarity=0.060 Sum_probs=59.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCC-CCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVY-GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (771)
...+.+.++.++ +++.+|++.... . ....+.+.+.+++.| +++.....+..+.. .++..+....+++.++|
T Consensus 14 l~~l~~~~~~~g-~r~livt~~~~~~~--~g~~~~v~~~L~~~~-~~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~D 85 (380)
T cd08185 14 LNELGEEALKPG-KKALIVTGNGSSKK--TGYLDRVIELLKQAG-VEVVVFDKVEPNPT----TTTVMEGAALAREEGCD 85 (380)
T ss_pred HHHHHHHHHhcC-CeEEEEeCCCchhh--ccHHHHHHHHHHHcC-CeEEEeCCccCCCC----HHHHHHHHHHHHHcCCC
Confidence 345666777777 899999876542 3 566788999999988 76543222332221 14577888888888999
Q ss_pred EEEE-EecChhHHHHHHHHH
Q 004136 234 VFIV-LQASLDMTIHLFTEA 252 (771)
Q Consensus 234 vIv~-~~~~~~~~~~il~~a 252 (771)
+||- ..++.-++.+.+...
T Consensus 86 ~IiavGGGS~iD~aK~ia~~ 105 (380)
T cd08185 86 FVVGLGGGSSMDTAKAIAFM 105 (380)
T ss_pred EEEEeCCccHHHHHHHHHHH
Confidence 9995 223445666665544
No 324
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=64.42 E-value=1.6e+02 Score=29.56 Aligned_cols=69 Identities=9% Similarity=0.149 Sum_probs=44.8
Q ss_pred chHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 490 ~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
+-.+++..+.+.. +.+ +.+.. +....++..+.+|++|+++.....+.. .+. ..|+....+.+++++..+
T Consensus 98 ~~~~~l~~~~~~~p~v~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~---~~~-~~~l~~~~~~lv~s~~~p 167 (279)
T TIGR03339 98 YVLDLVARFRQRYPGIE--VSVRI--GNSQEVLQALQSYRVDVAVSSEVVDDP---RLD-RVVLGNDPLVAVVHRQHP 167 (279)
T ss_pred HHHHHHHHHHHHCCCcE--EEEEE--CCHHHHHHHHHcCCCcEEEEecccCCC---ceE-EEEcCCceEEEEECCCCc
Confidence 4456777777766 344 44443 246788999999999999864333222 222 257777888888876653
No 325
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold. MleR, a transcription activator of malolactic fermentation system, is found in gram-positive bacteria and belongs to the lysR family of bacterial transcriptional regulators. The mleR gene is required for the expression and induction of malolactic fermentation. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase dom
Probab=64.04 E-value=1.2e+02 Score=28.06 Aligned_cols=72 Identities=11% Similarity=0.059 Sum_probs=47.0
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +++.. +....++..+.+|++|+++.... .......+.+ .++.+..+.++++...+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~~-~~l~~~~~~~~~~~~hp 85 (198)
T cd08437 13 YYFPKLAKDLIKTGLMIQ--IDTYE--GGSAELLEQLLQGDLDIALLGSL-TPLENSALHS-KIIKTQHFMIIVSKDHP 85 (198)
T ss_pred HHhHHHHHHHHHhCCceE--EEEEE--cCHHHHHHHHHcCCCCEEEecCC-CCCCcccceE-EEeecceEEEEecCCCc
Confidence 45677888888876 334 55444 24678999999999999986321 1112233433 57788888888876653
No 326
>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=63.74 E-value=77 Score=27.61 Aligned_cols=64 Identities=9% Similarity=0.051 Sum_probs=45.2
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh----hHHHHHHHHHHHcCCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL----DMTIHLFTEANRMGLV 258 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~----~~~~~il~~a~~~g~~ 258 (771)
.-....+...++..| +++.+..... ...+.+..+.+.++++|.+ ++.. ..+..+++++++.+..
T Consensus 13 ~lG~~~~~~~l~~~G-~~vi~lG~~v----------p~e~~~~~a~~~~~d~V~i-S~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 13 DRGAKVIARALRDAG-FEVIYTGLRQ----------TPEEIVEAAIQEDVDVIGL-SSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred HHHHHHHHHHHHHCC-CEEEECCCCC----------CHHHHHHHHHHcCCCEEEE-cccchhhHHHHHHHHHHHHhcCCC
Confidence 455788888899999 8887643221 2455667777889999999 7643 4566777778887664
No 327
>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=63.29 E-value=23 Score=35.70 Aligned_cols=80 Identities=11% Similarity=0.081 Sum_probs=53.4
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhc-cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~-~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~ 245 (771)
+|+++..+ ++|. ....+.+.+++++ .| +++..... ..+. ......++++.+.+.|.|++........
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~~~-~~~~~~~~-~~~~------~~~~~~i~~l~~~~vdgiii~~~~~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFL--TLLRNAMKEHAKVLGG-VELQFEDA-KNDV------ATQLSQVENFIAQGVDAIIVVPVDTAAT 70 (272)
T ss_pred CeeEeecccCCHHH--HHHHHHHHHHHHHcCC-cEEEEeCC-CCCH------HHHHHHHHHHHHcCCCEEEEecCchhhh
Confidence 46777764 4566 7778889999999 88 77765322 1111 3456777788788899998823343445
Q ss_pred HHHHHHHHHcCCC
Q 004136 246 IHLFTEANRMGLV 258 (771)
Q Consensus 246 ~~il~~a~~~g~~ 258 (771)
..++.++.+.+.+
T Consensus 71 ~~~~~~l~~~~iP 83 (272)
T cd06301 71 APIVKAANAAGIP 83 (272)
T ss_pred HHHHHHHHHCCCe
Confidence 6777888887753
No 328
>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=63.20 E-value=32 Score=36.99 Aligned_cols=90 Identities=11% Similarity=0.090 Sum_probs=59.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++..-.. ....+.+.+.+++.| +++.....+..+.+ .+.+.+.++.+++.++|+
T Consensus 14 l~~l~~~l~~~~~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~D~ 86 (376)
T cd08193 14 LARLGELLAALGAKRVLVVTDPGILK--AGLIDPLLASLEAAG-IEVTVFDDVEADPP----EAVVEAAVEAARAAGADG 86 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCcC----HHHHHHHHHHHHhcCCCE
Confidence 34566778888889999988765433 445788999999988 76543222222221 156888888888889999
Q ss_pred EEEEecCh--hHHHHHHHHH
Q 004136 235 FIVLQASL--DMTIHLFTEA 252 (771)
Q Consensus 235 Iv~~~~~~--~~~~~il~~a 252 (771)
||- .+.+ -++.+++...
T Consensus 87 IIa-iGGGs~iD~aK~ia~~ 105 (376)
T cd08193 87 VIG-FGGGSSMDVAKLVAVL 105 (376)
T ss_pred EEE-eCCchHHHHHHHHHHH
Confidence 997 4433 4555555444
No 329
>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=63.19 E-value=1.1e+02 Score=30.63 Aligned_cols=126 Identities=16% Similarity=0.100 Sum_probs=75.4
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
-+||++.+........-..|+..++++.+.. .+..........+...+.+.+.+++ +.+..+|+.... ..+..+.
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~ai~~~~d-~~A~gv~ 195 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNPD---ITVLVIYTGSFFDPAKGKEAALALI-DQGADVIFAAAG-GTGPGVI 195 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCCC---cEEEEEEecCccCcHHHHHHHHHHH-hCCCCEEEEcCC-CCchHHH
Confidence 4577775432222334466888888765432 2332232333334566777788887 445688876543 4454555
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeE
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRR 169 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~ 169 (771)
..+.+.++-++++... ....-..|-+..+..+....+..+++.+..-.|+.
T Consensus 196 ~al~~~gv~vigfD~~----~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~ 246 (260)
T cd06304 196 QAAKEAGVYAIGVDSD----QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKG 246 (260)
T ss_pred HHHHHcCCEEEeecCc----hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCC
Confidence 6666667666665543 33333457788888888888888888887666643
No 330
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, 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 the substrate. The exact function of this family is unknown.
Probab=63.11 E-value=59 Score=32.10 Aligned_cols=117 Identities=14% Similarity=0.212 Sum_probs=70.1
Q ss_pred cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch-HhHHHHHHhhccCCccE
Q 004136 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPI 124 (771)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s-~~~~~v~~~~~~~~iP~ 124 (771)
..|+.=..++...+.++|-. .+++ ..+...++. ...+++ ..+.++||....+ ..-..+...|...++|+
T Consensus 61 diG~~Kae~~~~~l~~inP~---~~V~--~~~~~i~~~----~~~~l~-~~~~D~VvdaiD~~~~k~~L~~~c~~~~ip~ 130 (231)
T cd00755 61 TVGKPKVEVMAERIRDINPE---CEVD--AVEEFLTPD----NSEDLL-GGDPDFVVDAIDSIRAKVALIAYCRKRKIPV 130 (231)
T ss_pred hCCCcHHHHHHHHHHHHCCC---cEEE--EeeeecCHh----HHHHHh-cCCCCEEEEcCCCHHHHHHHHHHHHHhCCCE
Confidence 45666566777777778753 3444 444333332 234555 4457777765444 44455788999999999
Q ss_pred EeecCCCCCCCccCCCCceEEEeecCcHH----HHHHHHHHHHHcCCe-EEEEEEEeCC
Q 004136 125 LSFAAPAVTPLSMSRRWPYLIRMASNDSE----QMKCIADLARKYNWR-RVAAIYEDNV 178 (771)
Q Consensus 125 Is~~a~~~~~~l~~~~~p~~fr~~p~~~~----~~~a~~~~l~~~~w~-~v~ii~~~~~ 178 (771)
|+..+. .. ...|.-+|...-... +++.+-+-|++.+.. .+-++|+...
T Consensus 131 I~s~g~--g~----~~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E~ 183 (231)
T cd00755 131 ISSMGA--GG----KLDPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTEP 183 (231)
T ss_pred EEEeCC--cC----CCCCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCCC
Confidence 988766 22 333555665544333 344555555555664 6888888764
No 331
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=62.47 E-value=1.4e+02 Score=31.31 Aligned_cols=71 Identities=10% Similarity=0.112 Sum_probs=45.3
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.+++. .+++.+.. +....++..+.+|++|+++..-.. .+...+.+ .|+....+.++++...
T Consensus 106 ~~l~~~l~~f~~~~P-~i~i~i~~--~~~~~~~~~L~~g~iDl~i~~~~~--~~~~~l~~-~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 106 YALPPVIKGFIERYP-RVSLHMHQ--GSPTQIAEAAAKGNADFAIATEAL--HLYDDLIM-LPCYHWNRSVVVPPDH 176 (324)
T ss_pred HhhHHHHHHHHHHCC-CcEEEEEe--CCHHHHHHHHHcCCCCEEEecCcc--cCCCCeEE-EEeccceeEEEeCCCC
Confidence 456777888877762 23355444 357889999999999999863211 11222322 5677777788876654
No 332
>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=62.35 E-value=37 Score=36.41 Aligned_cols=91 Identities=11% Similarity=0.112 Sum_probs=61.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++...+. ....+.+.+.+++.| +++.....+.... +.+++...+..+++.++|+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ 83 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVK--TGVLDKVIDSLKEAG-IEVVIFDGVEPNP----TLSNVDAAVAAYREEGCDG 83 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 45667778888889999998766543 366788999999888 6654222222222 1256888888888889999
Q ss_pred EEEEec--ChhHHHHHHHHHH
Q 004136 235 FIVLQA--SLDMTIHLFTEAN 253 (771)
Q Consensus 235 Iv~~~~--~~~~~~~il~~a~ 253 (771)
||- .+ +.-++.+++....
T Consensus 84 Iia-iGGGs~~D~AK~va~~~ 103 (370)
T cd08551 84 VIA-VGGGSVLDTAKAIALLA 103 (370)
T ss_pred EEE-eCCchHHHHHHHHHHHH
Confidence 996 33 4456666655544
No 333
>PRK00865 glutamate racemase; Provisional
Probab=62.35 E-value=1.1e+02 Score=30.98 Aligned_cols=39 Identities=13% Similarity=0.256 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEe
Q 004136 87 TAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (771)
Q Consensus 87 ~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is 126 (771)
+.+..|. +.++.+++=+-.+.++.++..+-+..++|+|+
T Consensus 58 ~~~~~L~-~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 58 EIVEFLL-EYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHH-hCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 3344444 68888877655544444555565667899997
No 334
>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=62.09 E-value=1.4e+02 Score=31.69 Aligned_cols=106 Identities=15% Similarity=0.171 Sum_probs=64.3
Q ss_pred CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccE
Q 004136 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPI 124 (771)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~ 124 (771)
+..|.+...+.+++- . -.+.+.+.|.-.....+.....++- +.. .. --+.-......+.+.+.+.+||+
T Consensus 6 Gf~gD~~~a~~~l~~-----~---g~~d~l~~d~LaE~tma~~~~~~~~-~p~-~g-Y~~~~~~~L~~~L~~~~~~gIkv 74 (362)
T PF07287_consen 6 GFWGDRPDAAVRLAR-----G---GDVDYLVGDYLAERTMAILARAKRK-DPT-KG-YAPDFVRDLRPLLPAAAEKGIKV 74 (362)
T ss_pred ccccCcHHHHHHHHh-----c---CCCCEEEEecHHHHHHHHHHHHHhh-CCC-CC-chHHHHHHHHHHHHHHHhCCCCE
Confidence 445666666666652 2 2678888887765555555544443 221 00 11122233455667788899999
Q ss_pred EeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCC-eEEEEEEEeCCC
Q 004136 125 LSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-RRVAAIYEDNVY 179 (771)
Q Consensus 125 Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w-~~v~ii~~~~~~ 179 (771)
|+-++. .. | ...++.+.+++++.+. -||++|+.|+..
T Consensus 75 I~NaGg--~n-------p---------~~~a~~v~eia~e~Gl~lkvA~V~gDd~~ 112 (362)
T PF07287_consen 75 ITNAGG--LN-------P---------AGCADIVREIARELGLSLKVAVVYGDDLK 112 (362)
T ss_pred EEeCCC--CC-------H---------HHHHHHHHHHHHhcCCCeeEEEEECccch
Confidence 987655 11 1 1178888888888766 489999987764
No 335
>cd08456 PBP2_LysR The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold. LysR, the transcriptional activator of lysA encoding diaminopimelate decarboxylase, catalyses the decarboxylation of diaminopimelate to produce lysine. The LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational
Probab=61.99 E-value=1.3e+02 Score=27.70 Aligned_cols=70 Identities=6% Similarity=-0.007 Sum_probs=46.2
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.++. +.+ +++.. +....+++++.+|++|+++...... ...+. +.++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--~~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08456 12 QSFLPRAIKAFLQRHPDVT--ISIHT--RDSPTVEQWLSAQQCDLGLVSTLHE---PPGIE-RERLLRIDGVCVLPPGH 82 (196)
T ss_pred HhhHHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEEecCCC---CCCee-EEEeeccCeEEEecCCC
Confidence 456678888888887 444 55544 2456788999999999998632221 12222 35677778877776654
No 336
>cd08425 PBP2_CynR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold. CynR is a LysR-like transcriptional regulator of the cyn operon, which encodes genes that allow cyanate to be used as a sole source of nitrogen. The operon includes three genes in the following order: cynT (cyanate permease), cynS (cyanase), and cynX (a protein of unknown function). CynR negatively regulates its own expression independently of cyanate. CynR binds to DNA and induces bending of DNA in the presence or absence of cyanate, but the amount of bending is decreased by cyanate. The CynR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding
Probab=61.50 E-value=1.4e+02 Score=27.69 Aligned_cols=71 Identities=11% Similarity=0.166 Sum_probs=46.0
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++.. .+++.+... ...++...|.+|++|+++..... ....+. ..++....+.++++++.+
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~~--~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~p 84 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLREM--PQERIEAALADDRLDLGIAFAPV---RSPDID-AQPLFDERLALVVGATHP 84 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEEC--cHHHHHHHHHcCCccEEEEecCC---CCCCcE-EEEeccccEEEEecCCCc
Confidence 445678888887762 233555442 45678999999999999863322 222232 367777888888876653
No 337
>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=61.31 E-value=43 Score=36.02 Aligned_cols=89 Identities=13% Similarity=0.066 Sum_probs=59.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++...+. .+..+.+.+.+++.| +++.....+..+.. .+...+.+..+++.++|+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~D~ 83 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVK--LGLVDKLTDSLKKEG-IESAIFDDVVSEPT----DESVEEGVKLAKEGGCDV 83 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--cchHHHHHHHHHHCC-CeEEEECCCCCCcC----HHHHHHHHHHHHhcCCCE
Confidence 34556677777889999999765554 556788999999988 76543322333321 145788888888889999
Q ss_pred EEEEec--ChhHHHHHHHH
Q 004136 235 FIVLQA--SLDMTIHLFTE 251 (771)
Q Consensus 235 Iv~~~~--~~~~~~~il~~ 251 (771)
||- .+ +.-++.+++..
T Consensus 84 IIa-iGGGS~~D~AKaia~ 101 (375)
T cd08194 84 IIA-LGGGSPIDTAKAIAV 101 (375)
T ss_pred EEE-eCCchHHHHHHHHHH
Confidence 996 43 33455555443
No 338
>cd08464 PBP2_DntR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=61.14 E-value=1.4e+02 Score=27.67 Aligned_cols=70 Identities=10% Similarity=0.068 Sum_probs=45.4
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.++-.+++..+.+++ +.+ +.+.. +....++..+.+|++|+++..... . ...+. ..++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~~~ 82 (200)
T cd08464 12 SWLAPPLLAALRAEAPGVR--LVFRQ--VDPFNVGDMLDRGEIDLAIGVFGE--L-PAWLK-REVLYTEGYACLFDPQQ 82 (200)
T ss_pred HHHHHHHHHHHHHHCCCcE--EEEec--CCcccHHHHHhcCcccEEEecCCC--C-cccce-eeeecccceEEEEeCCC
Confidence 356677888888876 555 44443 234568899999999999863221 1 22232 35777778877776554
No 339
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=60.44 E-value=63 Score=32.63 Aligned_cols=98 Identities=11% Similarity=0.063 Sum_probs=67.7
Q ss_pred CceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHH
Q 004136 141 WPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV 220 (771)
Q Consensus 141 ~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~ 220 (771)
-+++++-..+ +..++++.++++.+|.+++.++-+.++ .+.+++.|+..| -+.+..+.--.+ .++
T Consensus 161 GD~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~~-------ieel~~~Lk~lG-A~~ViTeeel~~-------~~~ 224 (354)
T KOG0025|consen 161 GDSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRPN-------IEELKKQLKSLG-ATEVITEEELRD-------RKM 224 (354)
T ss_pred CCeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCcc-------HHHHHHHHHHcC-CceEecHHHhcc-------hhh
Confidence 3577776665 677899999999999999999987655 677888999988 555443311111 112
Q ss_pred HHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 221 RGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 221 ~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
... +....+++.-+- +..+..+..+.+.+++-|.
T Consensus 225 ~k~--~~~~~~prLalN-cVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 225 KKF--KGDNPRPRLALN-CVGGKSATEIARYLERGGT 258 (354)
T ss_pred hhh--hccCCCceEEEe-ccCchhHHHHHHHHhcCce
Confidence 111 122346777777 7888889999998887764
No 340
>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=60.22 E-value=43 Score=36.06 Aligned_cols=90 Identities=9% Similarity=0.101 Sum_probs=59.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++....- .+..+.+.+.+++.| +++.....+..+. +.+...+....+++.++|+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~--~g~~~~v~~~L~~~~-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 89 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIK--FGVADKVTDLLDEAG-IAYELFDEVKPNP----TITVVKAGVAAFKASGADY 89 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--ccchHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 44566778888989999998765443 446788999999888 7654322222222 1256777888888889999
Q ss_pred EEEEecC--hhHHHHHHHHH
Q 004136 235 FIVLQAS--LDMTIHLFTEA 252 (771)
Q Consensus 235 Iv~~~~~--~~~~~~il~~a 252 (771)
||- .+. .-++.+.+..+
T Consensus 90 Iia-iGGGSviD~aKaia~~ 108 (379)
T TIGR02638 90 LIA-IGGGSPIDTAKAIGII 108 (379)
T ss_pred EEE-eCChHHHHHHHHHHHH
Confidence 996 443 34555554443
No 341
>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=60.16 E-value=55 Score=35.21 Aligned_cols=89 Identities=10% Similarity=0.128 Sum_probs=58.4
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++..... ....+.+.+.+++.| +++.....+..+.. .+.....++.+++.++|+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~p~----~~~v~~~~~~~~~~~~D~ 88 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVK--IGVVEKVTDVLDEAG-IDYVIYDGVKPNPT----ITNVKDGLAVFKKEGCDF 88 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhh--cCcHHHHHHHHHHcC-CeEEEeCCCCCCCC----HHHHHHHHHHHHhcCCCE
Confidence 34566778888888988888765442 356888999999888 76543222222221 145788888888889999
Q ss_pred EEEEecC--hhHHHHHHHH
Q 004136 235 FIVLQAS--LDMTIHLFTE 251 (771)
Q Consensus 235 Iv~~~~~--~~~~~~il~~ 251 (771)
||- .+. .-++.+.+..
T Consensus 89 IIa-vGGGS~iD~aK~ia~ 106 (377)
T cd08176 89 IIS-IGGGSPHDCAKAIGI 106 (377)
T ss_pred EEE-eCCcHHHHHHHHHHH
Confidence 996 443 3455555443
No 342
>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=60.07 E-value=30 Score=35.64 Aligned_cols=79 Identities=10% Similarity=-0.005 Sum_probs=51.9
Q ss_pred EEEEEE--eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHHH
Q 004136 170 VAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTI 246 (771)
Q Consensus 170 v~ii~~--~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~~ 246 (771)
|+++.. +++|. ....+.+++++++.| +++........+. ....+.++.+.+.++|.|++ .. ......
T Consensus 2 I~vi~~~~~~~f~--~~i~~gi~~~a~~~g-~~v~~~~~~~~d~------~~~~~~i~~~~~~~~DgiIi-~~~~~~~~~ 71 (298)
T cd06302 2 IAFVPKVTGIPYF--NRMEEGAKEAAKELG-VDAIYVGPTTADA------AGQVQIIEDLIAQGVDAIAV-VPNDPDALE 71 (298)
T ss_pred EEEEEcCCCChHH--HHHHHHHHHHHHHhC-CeEEEECCCCCCH------HHHHHHHHHHHhcCCCEEEE-ecCCHHHHH
Confidence 566664 34565 677889999999999 7765321111111 34567777777788999998 54 334456
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..++++.+.+++
T Consensus 72 ~~~~~~~~~~iP 83 (298)
T cd06302 72 PVLKKAREAGIK 83 (298)
T ss_pred HHHHHHHHCCCe
Confidence 778888887763
No 343
>cd08443 PBP2_CysB The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold. CysB is a transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the regulation of transcription in response to sulfur source is attributed to two transcriptional regulators, CysB and Cbl. CysB, in association with Cbl, downregulates the expression of ssuEADCB operon which is required for the utilization of sulfur from aliphatic sulfonates, in the presence of cysteine. Also, Cbl and CysB together directly function as transcriptional activators of tauABCD genes, which are required for utilization of taurine as sulfur source for growth. Like many other members of the LTTR family, CysB is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding speci
Probab=59.32 E-value=1.5e+02 Score=27.59 Aligned_cols=71 Identities=10% Similarity=0.077 Sum_probs=46.0
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. +....++..+.+|++|+++..-.. .....+. +.++....+.++++...+
T Consensus 13 ~~l~~~l~~f~~~~P~~~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08443 13 YVLPPVIKGFIERYPRVS--LQMHQ--GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVKRDHP 84 (198)
T ss_pred eECcHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEcCCCc
Confidence 45677888888776 444 44333 346778999999999999853221 1112233 367788888888876653
No 344
>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=59.04 E-value=29 Score=35.57 Aligned_cols=78 Identities=10% Similarity=0.104 Sum_probs=53.6
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+.+.+++.| +.+..... .. + .......++.+.+.++|.|++..++......
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~~---~~---~-~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~ 71 (288)
T cd01538 2 IGLSLPTKTEERW--IRDRPNFEAALKELG-AEVIVQNA---NG---D-PAKQISQIENMIAKGVDVLVIAPVDGEALAS 71 (288)
T ss_pred eEEEEeCCCcHHH--HHHHHHHHHHHHHcC-CEEEEECC---CC---C-HHHHHHHHHHHHHcCCCEEEEecCChhhHHH
Confidence 6777764 4466 777889999999999 77665322 11 1 1345677777888899999882344555567
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
.++++.+.|.
T Consensus 72 ~l~~l~~~~i 81 (288)
T cd01538 72 AVEKAADAGI 81 (288)
T ss_pred HHHHHHHCCC
Confidence 8888888775
No 345
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=58.94 E-value=1.5e+02 Score=27.39 Aligned_cols=70 Identities=11% Similarity=0.105 Sum_probs=46.7
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.++. +.+ +.+.. +....+...+.+|++|+++..... ....+ -+.++....+.++++....
T Consensus 14 ~~l~~~i~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~~p 84 (198)
T cd08446 14 DTVPRLLRAFLTARPDVT--VSLHN--MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPKSHP 84 (198)
T ss_pred HHHHHHHHHHHHHCCCeE--EEEee--CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeCCCC
Confidence 45678888888876 444 44433 357788999999999999863322 12222 2457778888888876653
No 346
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=58.85 E-value=1.7e+02 Score=30.28 Aligned_cols=71 Identities=11% Similarity=0.120 Sum_probs=45.8
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-..++..+.++. +.+ +.+.. +.+++++..|.+|++|+++...... ....+.+ .|+....+.+++++..+
T Consensus 106 ~~l~~~i~~f~~~~P~i~--l~~~~--~~~~~~~~~L~~~~~D~~i~~~~~~--~~~~l~~-~~l~~~~~~~v~~~~hp 177 (309)
T PRK12683 106 YALPKVVRQFKEVFPKVH--LALRQ--GSPQEIAEMLLNGEADIGIATEALD--REPDLVS-FPYYSWHHVVVVPKGHP 177 (309)
T ss_pred HHHHHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHcCCccEEEecCCCC--CCCCceE-EEcccCeEEEEecCCCC
Confidence 44567788887776 444 44433 3578899999999999998632211 1122333 46777788888876553
No 347
>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=58.70 E-value=31 Score=34.80 Aligned_cols=80 Identities=10% Similarity=0.109 Sum_probs=51.1
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC-hhHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMT 245 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~-~~~~ 245 (771)
||++|..+ ++|. ....+.+.+.+++.| .++.....-... + .....+.++++...+.|.|++ ... ....
T Consensus 1 ~Igvi~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~~~~~~----~-~~~~~~~i~~l~~~~vdgvii-~~~~~~~~ 71 (273)
T cd06310 1 KIALVPKGTTSDFW--QAVKAGAEAAAKELG-VKVTFQGPASET----D-VAGQVNLLENAIARGPDAILL-APTDAKAL 71 (273)
T ss_pred CeEEEecCCCcHHH--HHHHHHHHHHHHHcC-CEEEEecCccCC----C-HHHHHHHHHHHHHhCCCEEEE-cCCChhhh
Confidence 46777755 4455 677888999999999 776543211011 1 133556677777778999998 543 3333
Q ss_pred HHHHHHHHHcCC
Q 004136 246 IHLFTEANRMGL 257 (771)
Q Consensus 246 ~~il~~a~~~g~ 257 (771)
...+..+.+.+.
T Consensus 72 ~~~l~~~~~~~i 83 (273)
T cd06310 72 VPPLKEAKDAGI 83 (273)
T ss_pred HHHHHHHHHCCC
Confidence 567777777665
No 348
>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=58.20 E-value=28 Score=35.75 Aligned_cols=81 Identities=7% Similarity=0.166 Sum_probs=50.5
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
+|++|..+ ++|. ......+.+++++.| .++.... .... + .....+.+..+.+.++|.|++..++.....
T Consensus 1 ~i~~i~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~--~~~~---~-~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWS--NAQVRGAKDEFAKLG-IEVVATT--DAQF---D-PAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHH--HHHHHHHHHHHHHcC-CEEEEec--CCCC---C-HHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 46666654 3454 566778889999999 7765321 1111 1 123456677777778998888233333356
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..++++.+.|.+
T Consensus 72 ~~i~~~~~~~iP 83 (294)
T cd06316 72 AAYKKVAEAGIK 83 (294)
T ss_pred HHHHHHHHcCCc
Confidence 778888888763
No 349
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=58.16 E-value=1.6e+02 Score=27.43 Aligned_cols=72 Identities=11% Similarity=0.137 Sum_probs=47.6
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.++-.+++..+.++. +.+ +.+.. +....+++.+.+|++|+++...... ....+ -+.|+....+.++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~~~~~~hp 84 (198)
T cd08444 12 RYALPWVVQAFKEQFPNVH--LVLHQ--GSPEEIASMLANGQADIGIATEALE--NHPEL-VSFPYYDWHHHIIVPVGHP 84 (198)
T ss_pred hhhhhHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHCCCccEEEeccccC--CCcCc-EEeeccccceeEEecCCCc
Confidence 456778888888886 445 44433 3466789999999999998632211 11223 2467777888888876653
No 350
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=56.95 E-value=2.1e+02 Score=28.99 Aligned_cols=117 Identities=10% Similarity=0.173 Sum_probs=68.3
Q ss_pred cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCch-HhHHHHHHhhccCCccE
Q 004136 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPI 124 (771)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s-~~~~~v~~~~~~~~iP~ 124 (771)
..|..=..++...+.+||-+ .+++. .+...++. ...+++ ..+.+.||-...+ ..-..+...|...++|+
T Consensus 80 ~vG~~Kve~~~~rl~~INP~---~~V~~--i~~~i~~e----~~~~ll-~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~ 149 (268)
T PRK15116 80 NVGLAKAEVMAERIRQINPE---CRVTV--VDDFITPD----NVAEYM-SAGFSYVIDAIDSVRPKAALIAYCRRNKIPL 149 (268)
T ss_pred hcChHHHHHHHHHHHhHCCC---cEEEE--EecccChh----hHHHHh-cCCCCEEEEcCCCHHHHHHHHHHHHHcCCCE
Confidence 34555455666677777654 44443 34333322 234455 4467777765554 45556888999999999
Q ss_pred EeecCCCCCCCccCCCCceEEEeecCcH----HHHHHHHHHHHH-cCCe-------EEEEEEEeCC
Q 004136 125 LSFAAPAVTPLSMSRRWPYLIRMASNDS----EQMKCIADLARK-YNWR-------RVAAIYEDNV 178 (771)
Q Consensus 125 Is~~a~~~~~~l~~~~~p~~fr~~p~~~----~~~~a~~~~l~~-~~w~-------~v~ii~~~~~ 178 (771)
|+.+.. .. ...|.-+++.--.. .+++.+-+.|++ +|.. .+-++|+...
T Consensus 150 I~~gGa--g~----k~dp~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E~ 209 (268)
T PRK15116 150 VTTGGA--GG----QIDPTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTEA 209 (268)
T ss_pred EEECCc--cc----CCCCCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCCc
Confidence 988766 22 33466666554333 345555555655 5654 3777777654
No 351
>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator NocR, which is involved in the catabolism of nopaline. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, NocR regulates expression of the divergently transcribed nocB and nocR genes of the nopaline catabolism (noc) region. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=56.77 E-value=1.7e+02 Score=27.20 Aligned_cols=69 Identities=12% Similarity=0.074 Sum_probs=44.4
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.. +++.. +...++...+.+|++|+++....... ..+. +.++....+.++++...
T Consensus 13 ~~l~~~l~~f~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~~-~~~l~~~~~~~v~~~~h 82 (196)
T cd08458 13 SFMSGVIQTFIADRPDVS--VYLDT--VPSQTVLELVSLQHYDLGISILAGDY---PGLT-TEPVPSFRAVCLLPPGH 82 (196)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEec--cChHHHHHHHHcCCCCEEEEeccCCC---CCce-EEEeccCceEEEecCCC
Confidence 45567888888876 434 44443 34567889999999999986432211 1222 25677777888776654
No 352
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=56.72 E-value=1e+02 Score=30.66 Aligned_cols=89 Identities=10% Similarity=0.067 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc-cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC
Q 004136 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (771)
Q Consensus 152 ~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~-~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~ 230 (771)
..+...+.+.....+ .++.++.....- .+.+.+.+++ .| +.|+.... .... .++....+.++.++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~~~v------~~~a~~~l~~~y~-l~i~g~~~-Gyf~-----~~e~~~i~~~I~~s 156 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGKPEV------LAQTEAKLRTQWN-VNIVGSQD-GYFT-----PEQRQALFERIHAS 156 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCCHHH------HHHHHHHHHHHhC-CEEEEEeC-CCCC-----HHHHHHHHHHHHhc
Confidence 345666666666556 678888655433 3444444432 26 66664331 1111 03456688999999
Q ss_pred CceEEEEEecChhHHHHHHHHHHHc
Q 004136 231 QSRVFIVLQASLDMTIHLFTEANRM 255 (771)
Q Consensus 231 ~~~vIv~~~~~~~~~~~il~~a~~~ 255 (771)
+||++++ .........++....+.
T Consensus 157 ~~dil~V-glG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 157 GAKIVTV-AMGSPKQEIFMRDCRLV 180 (243)
T ss_pred CCCEEEE-ECCCcHHHHHHHHHHHh
Confidence 9999999 77666666666665444
No 353
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=56.53 E-value=1.7e+02 Score=30.24 Aligned_cols=72 Identities=10% Similarity=0.237 Sum_probs=45.0
Q ss_pred chHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 490 ~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
+-.+++..+.+++.- +++.+.. +....+.+.|.+|++|++++- .-.......+.+ .++....+.++++...+
T Consensus 107 ~l~~~l~~~~~~~P~-i~l~l~~--~~~~~~~~~l~~g~~D~~i~~-~~~~~~~~~l~~-~~l~~~~~~~v~~~~hp 178 (308)
T PRK10094 107 AVAQLLAWLNERYPF-TQFHISR--QIYMGVWDSLLYEGFSLAIGV-TGTEALANTFSL-DPLGSVQWRFVMAADHP 178 (308)
T ss_pred HHHHHHHHHHHhCCC-cEEEEEe--ehhhhHHHHHhCCCccEEEec-ccCccccCCeeE-EEecceeEEEEECCCCC
Confidence 446888888887743 2244433 235678899999999998862 111111223333 57778888888866553
No 354
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=56.51 E-value=1.6e+02 Score=30.55 Aligned_cols=39 Identities=13% Similarity=0.100 Sum_probs=20.7
Q ss_pred CcchhHHHHHHHHH--HHhhCcccccccCCCCCCCcEEEEEEEeCC
Q 004136 1 MNRFFFLVLIIASE--LVFVSPGVESASTNVNIEEVTKIGAIVDAN 44 (771)
Q Consensus 1 m~~~~~~l~~~~~~--~~l~~~~~~~~~~~~~~~~~I~IG~i~p~s 44 (771)
|||+++++.+.+++ +.+.+|+... ...+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDG-----GEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCC-----CCCceEEEEeCCCCC
Confidence 67766554333322 3334444221 235789999876553
No 355
>cd08430 PBP2_IlvY The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic binding fold. In Escherichia coli, IlvY is required for the regulation of ilvC gene expression that encodes acetohydroxy acid isomeroreductase (AHIR), a key enzyme in the biosynthesis of branched-chain amino acids (isoleucine, valine, and leucine). The ilvGMEDA operon genes encode remaining enzyme activities required for the biosynthesis of these amino acids. Activation of ilvC transcription by IlvY requires the additional binding of a co-inducer molecule (either alpha-acetolactate or alpha-acetohydoxybutyrate, the substrates for AHIR) to a preformed complex of IlvY protein-DNA. Like many other LysR-family members, IlvY negatively auto-regulates the transcription of its own divergently transcribed ilvY gene in an inducer-i
Probab=56.39 E-value=1.7e+02 Score=27.06 Aligned_cols=70 Identities=17% Similarity=0.154 Sum_probs=45.6
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.+ +++.. +....++..+.+|++|+++....... ...+. +.++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~--~~~l~-~~~l~~~~~~~~~~~~~ 83 (199)
T cd08430 13 SFLPPILERFRAQHPQVE--IKLHT--GDPADAIDKVLNGEADIAIAARPDKL--PARLA-FLPLATSPLVFIAPNIA 83 (199)
T ss_pred eeccHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHCCCCCEEEEecCCCC--CcccE-EEeeccceEEEEEeCCc
Confidence 45567888888887 555 44443 35677899999999999986322111 11232 35667777777776554
No 356
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein. This model finds the thiamine (and thiamine pyrophosphate) ABC transporter periplasmic binding protein ThiB in proteobacteria. Completed genomes having this protein (E. coli, Vibrio cholera, Haemophilus influenzae) also have the permease ThiP, described by TIGRFAMs equivalog model TIGR01253.
Probab=56.16 E-value=2.3e+02 Score=29.21 Aligned_cols=39 Identities=15% Similarity=0.079 Sum_probs=26.7
Q ss_pred HHHHHHHHHCCCcccEEEecCCCChHHHHHHHhc----ccccEEEe
Q 004136 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYD----KTYDAAVG 534 (771)
Q Consensus 493 ~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~----~~~D~~~~ 534 (771)
.+++.+.+..|+++++.... +-..++..|.. ..+|++++
T Consensus 21 ~~~~~Fe~~~gi~V~~~~~~---s~~~l~~kl~~e~~~~~~DVv~~ 63 (309)
T TIGR01276 21 VVKKAFEADCNCELKLVALE---DGVSLLNRLRLEGKNSKADVVLG 63 (309)
T ss_pred HHHHHHHHHHCCEEEEEecC---cHHHHHHHHHHcCCCCCCCEEEe
Confidence 58889999999886555332 23347777764 47999876
No 357
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=55.94 E-value=1.4e+02 Score=31.34 Aligned_cols=123 Identities=13% Similarity=0.088 Sum_probs=72.2
Q ss_pred CcEEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHHHhc---CCeEEEEcCCch
Q 004136 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINK---EKVKVIAGMETW 107 (771)
Q Consensus 33 ~~I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~-D~~~~~~~a~~~~~~li~~---~~v~aviGp~~s 107 (771)
+.++++.+.... ......-..|++-|+++.+ .++..... ....+...+.+.+.+++.+ .++.+|+...+.
T Consensus 161 g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g-----~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~~d~ 235 (330)
T PRK15395 161 GKIQYVLLKGEPGHPDAEARTTYVIKELNDKG-----IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIANNDA 235 (330)
T ss_pred CceEEEEEecCCCCchHHHHHHHHHHHHHhcC-----CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEECCch
Confidence 567777665432 2233445678888887643 23332222 2344666778888888854 358899975443
Q ss_pred HhHHHHHHhhccC---CccEEeecCCCCCCCccC--CCCceEEEeecCcHHHHHHHHHHHHH
Q 004136 108 EETAVVAEIASRV---QVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARK 164 (771)
Q Consensus 108 ~~~~~v~~~~~~~---~iP~Is~~a~~~~~~l~~--~~~p~~fr~~p~~~~~~~a~~~~l~~ 164 (771)
.+..+...+++. .+|+|+.... +.... ..-|.+..+..+...+++..++++.+
T Consensus 236 -~A~gvl~al~~~Gl~~vpVvg~D~~---~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 236 -MAMGAVEALKAHNKSSIPVFGVDAL---PEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred -HHHHHHHHHHhcCCCCCeEEeeCCC---HHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 344444444444 5588877654 21111 12245667777888888888887744
No 358
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=55.64 E-value=56 Score=30.46 Aligned_cols=53 Identities=13% Similarity=0.175 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCchH---hHHHHHHhhccCCccEEeecCCCCCCCccC
Q 004136 81 DPFQAATAAQELINKEKVKVIAGMETWE---ETAVVAEIASRVQVPILSFAAPAVTPLSMS 138 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~~s~---~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~ 138 (771)
.|..+.+... ..+++..++|..... ....+..+++..++|+++.... ...|..
T Consensus 23 ~p~~aa~lI~---~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~--~~~~~~ 78 (171)
T PRK00945 23 SPKIAAMMIK---KAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGS--YKGLID 78 (171)
T ss_pred CHHHHHHHHH---hCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccc--cccccc
Confidence 4555544433 357899999987644 6677889999999999988765 455554
No 359
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=55.52 E-value=2.3e+02 Score=29.44 Aligned_cols=71 Identities=13% Similarity=0.186 Sum_probs=46.3
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.+.. +.+ +.+.. +....++..|.+|++|+++...... . ...+. +.++....+.+++++..+
T Consensus 106 ~~l~~~l~~f~~~~P~i~--l~l~~--~~~~~~~~~L~~g~~Dl~i~~~~~~-~-~~~l~-~~~l~~~~~~~v~~~~hp 177 (316)
T PRK12679 106 YSLPEVIKAFRELFPEVR--LELIQ--GTPQEIATLLQNGEADIGIASERLS-N-DPQLV-AFPWFRWHHSLLVPHDHP 177 (316)
T ss_pred cchHHHHHHHHHHCCCeE--EEEec--CCHHHHHHHHHcCCCCEEEecccCC-C-CCCce-EEEccCCcEEEEecCCCc
Confidence 56677888888775 333 44433 3466799999999999998633211 1 12233 357788888888876654
No 360
>cd08451 PBP2_BudR The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of BudR regulator, which is responsible for induction of the butanediol formation pathway under fermentative growth conditions. Three enzymes are involved in the production of 1 mol of 2,3 butanediol from the condensation of 2 mol of pyruvate with acetolactate and acetoin as intermediates: acetolactate synthetase, acetolactate decarboxylase, and acetoin reductase. In Klebsiella terrigena, BudR regulates the expression of the budABC operon genes, encoding these three enzymes of the butanediol pathway. In many bacterial species, the use of this pathway can prevent intracellular acidification by diverting metabolism from acid production to the formation of neutral compounds (acetoin and butanediol). This substra
Probab=55.29 E-value=1.7e+02 Score=26.93 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=45.9
Q ss_pred chHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 490 ~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
+-.+++..+.++. +.+ +++.. +..+.++..+.+|++|+++...... ....+ -+.++....++++++...
T Consensus 15 ~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~~ 84 (199)
T cd08451 15 LVPGLIRRFREAYPDVE--LTLEE--ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAGH 84 (199)
T ss_pred ccHHHHHHHHHHCCCcE--EEEec--CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCCC
Confidence 5667888888886 445 44443 3467789999999999998643221 11122 236777888888886655
No 361
>cd08486 PBP2_CbnR The C-terminal substrate binding domain of LysR-type transcriptional regulator, CbnR, involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of LysR-type regulator CbnR which is involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccha
Probab=55.24 E-value=1.8e+02 Score=27.14 Aligned_cols=70 Identities=13% Similarity=0.078 Sum_probs=47.1
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+++ +.+ +.+.. +....++..|.+|++|+++.... .. ...++ +.++.+..+.++++.+.
T Consensus 13 ~~~l~~~l~~f~~~~P~v~--i~i~~--~~~~~l~~~l~~g~~D~~~~~~~--~~-~~~~~-~~~l~~~~~~lv~~~~h 83 (198)
T cd08486 13 YRSLPLLLRAFLTSTPTAT--VSLTH--MTKDEQVEGLLAGTIHVGFSRFF--PR-HPGIE-IVNIAQEDLYLAVHRSQ 83 (198)
T ss_pred HHHHHHHHHHHHHhCCCeE--EEEEE--CCHHHHHHHHHcCCceEEEecCC--CC-CCceE-EEEEeeccEEEEecCCC
Confidence 355678888888776 544 44443 35788999999999999985321 11 22232 35677788888887655
No 362
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=55.17 E-value=2.6e+02 Score=29.00 Aligned_cols=69 Identities=7% Similarity=0.070 Sum_probs=46.3
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-..++..+.+.+. +++++.. ..++++..|.+|++|+++..... ..+.+.+ .|+....+.++++...+
T Consensus 130 ~~l~~~l~~f~~~~P-~i~i~~~----~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~~~~hp 198 (317)
T PRK11482 130 LVMPVIYQAIKTHYP-QLLLRNI----PISDAENQLSQFQTDLIIDTHSC---SNRTIQH-HVLFTDNVVLVCRQGHP 198 (317)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEe----cchhHHHHHHCCCcCEEEeccCC---CCCceEE-EEEecCcEEEEEeCCCC
Confidence 466777888887763 2224432 34578999999999999864432 2233433 67888888888877664
No 363
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=55.11 E-value=1.3e+02 Score=30.84 Aligned_cols=44 Identities=16% Similarity=0.171 Sum_probs=32.3
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeE
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDL 536 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~ 536 (771)
-+.-.|+..+-+.+|+++++. . ++-.-+...|.+|++|+.....
T Consensus 21 ~~~~~i~~~iLE~~Gy~Ve~~--~--~~~~~~~~al~~GdiD~~~e~W 64 (290)
T TIGR03414 21 TATTALASVLLEGLGYQPKVT--L--LSVPVTYAGLKDGDLDVFLGNW 64 (290)
T ss_pred HHHHHHHHHHHHHcCCcceeE--E--ccHHHHHHHHHcCCceEecccc
Confidence 355677877888889987664 2 2346678899999999987643
No 364
>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=55.05 E-value=35 Score=34.58 Aligned_cols=78 Identities=9% Similarity=0.071 Sum_probs=51.0
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTI 246 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~~ 246 (771)
|+++..+ ++|. ......+.+.+++.| .++.... ... + .....+.++.+.+.++|.|++ .. ......
T Consensus 2 igv~~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~~---~~~---~-~~~~~~~i~~~~~~~~Dgiii-~~~~~~~~~ 70 (282)
T cd06318 2 IGFSQYTLNSPFF--AALTEAAKAHAKALG-YELISTD---AQG---D-LTKQIADVEDLLTRGVNVLII-NPVDPEGLV 70 (282)
T ss_pred eeEEeccccCHHH--HHHHHHHHHHHHHcC-CEEEEEc---CCC---C-HHHHHHHHHHHHHcCCCEEEE-ecCCccchH
Confidence 5666653 4565 677889999999999 7765422 111 1 133456788888889999998 54 333335
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..++.+.+.|.+
T Consensus 71 ~~i~~~~~~~iP 82 (282)
T cd06318 71 PAVAAAKAAGVP 82 (282)
T ss_pred HHHHHHHHCCCC
Confidence 667888777753
No 365
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=54.66 E-value=97 Score=29.83 Aligned_cols=88 Identities=20% Similarity=0.235 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (771)
.-.-+.++++.+ -++|++|=.-..-..+....+.+++.+++.| ..+.....+.... .++.. .+. ++|
T Consensus 20 ~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg-~~v~~L~l~~~~~------~~Ie~---~l~--~~d 86 (224)
T COG3340 20 FLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLG-LEVSELHLSKPPL------AAIEN---KLM--KAD 86 (224)
T ss_pred hhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcC-CeeeeeeccCCCH------HHHHH---hhh--hcc
Confidence 344555666555 4688887654322111446899999999999 7776544333222 22332 222 577
Q ss_pred EEEEEecChhHHHHHHHHHHHcCC
Q 004136 234 VFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 234 vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
+|++ .+.+...+|+++++.|+
T Consensus 87 ~IyV---gGGNTF~LL~~lke~gl 107 (224)
T COG3340 87 IIYV---GGGNTFNLLQELKETGL 107 (224)
T ss_pred EEEE---CCchHHHHHHHHHHhCc
Confidence 7777 44566788888888876
No 366
>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=54.56 E-value=34 Score=34.02 Aligned_cols=77 Identities=18% Similarity=0.138 Sum_probs=52.1
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
++++..+ ++|. ....+.+++++++.| +++.... . .. + .+...+.++++.+.+++.|++ .........
T Consensus 2 i~~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~--~-~~---~-~~~~~~~~~~~~~~~~d~iii-~~~~~~~~~ 70 (264)
T cd06267 2 IGVIVPDISNPFF--AELLRGIEEAAREAG-YSVLLCN--S-DE---D-PEKEREALELLLSRRVDGIIL-APSRLDDEL 70 (264)
T ss_pred EEEEECCCCCHHH--HHHHHHHHHHHHHcC-CEEEEEc--C-CC---C-HHHHHHHHHHHHHcCcCEEEE-ecCCcchHH
Confidence 5666655 5676 778889999999989 7765432 1 11 1 134566777888889999998 554444444
Q ss_pred HHHHHHHcCCC
Q 004136 248 LFTEANRMGLV 258 (771)
Q Consensus 248 il~~a~~~g~~ 258 (771)
++.+.+.|.+
T Consensus 71 -~~~~~~~~ip 80 (264)
T cd06267 71 -LEELAALGIP 80 (264)
T ss_pred -HHHHHHcCCC
Confidence 7778888764
No 367
>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=53.97 E-value=33 Score=34.95 Aligned_cols=78 Identities=9% Similarity=0.155 Sum_probs=52.0
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC-hhHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMT 245 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~-~~~~ 245 (771)
+|++|..+ ++|. ....+.+.+++++.| ..+.... ..+. ......++++.+.++|.|++ ... ....
T Consensus 1 ~Ig~v~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~~~------~~~~~~i~~~~~~~~dgiii-~~~~~~~~ 68 (289)
T cd01540 1 KIGFIVKQPEEPWF--QTEWKFAKKAAKEKG-FTVVKID--VPDG------EKVLSAIDNLGAQGAKGFVI-CVPDVKLG 68 (289)
T ss_pred CeeeecCCCCCcHH--HHHHHHHHHHHHHcC-CEEEEcc--CCCH------HHHHHHHHHHHHcCCCEEEE-ccCchhhh
Confidence 35666654 4465 677888999999999 7765321 1111 33456777788888999998 543 3445
Q ss_pred HHHHHHHHHcCCC
Q 004136 246 IHLFTEANRMGLV 258 (771)
Q Consensus 246 ~~il~~a~~~g~~ 258 (771)
..+++++.+.|.+
T Consensus 69 ~~~~~~~~~~~iP 81 (289)
T cd01540 69 PAIVAKAKAYNMK 81 (289)
T ss_pred HHHHHHHHhCCCe
Confidence 6678888888763
No 368
>cd08457 PBP2_OccR The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator OccR, which is involved in the catabolism of octopine. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, OccR protein activates the occQ operon of the Ti plasmid in response to octopine. This operon encodes proteins required for the uptake and catabolism of octopine, an arginine derivative. The occ operon also encodes the TraR protein, which is a quorum-sensing transcriptional regulator of the Ti plasmid tra regulon. This substrate-binding domain shows significant h
Probab=53.82 E-value=1.8e+02 Score=26.82 Aligned_cols=69 Identities=12% Similarity=0.069 Sum_probs=43.6
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.+ +.+... ...++...+.+|++|+++...... ...+. ..++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~~--~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08457 13 GFLPRFLAAFLRLRPNLH--LSLMGL--SSSQVLEAVASGRADLGIADGPLE---ERQGF-LIETRSLPAVVAVPMGH 82 (196)
T ss_pred cccHHHHHHHHHHCCCeE--EEEEec--CcHHHHHHHHcCCccEEEeccCCC---CCCcE-EEEeccCCeEEEeeCCC
Confidence 45678888888876 344 444432 345788999999999998643221 22222 24666777777776544
No 369
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=53.72 E-value=92 Score=36.21 Aligned_cols=68 Identities=19% Similarity=0.226 Sum_probs=45.4
Q ss_pred cCCeEEEEEEEeCCC---------C-CCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 165 YNWRRVAAIYEDNVY---------G-GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 165 ~~w~~v~ii~~~~~~---------g-~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
|..-+|++|...++- | ..+.....+.+.+++.| .++.....++.+. ..+.+.+.++.+ ++|+
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g-~~~~~~~~v~Dd~------~~i~~~l~~~~~-~~D~ 255 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAG-GEPVRYGIVPDDE------EELEAALRKALK-ECDL 255 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCC-CEEEEEEEeCCCH------HHHHHHHHHHHh-cCCE
Confidence 455688888776541 2 00123567888899999 8887766665443 567777877765 7999
Q ss_pred EEEEecC
Q 004136 235 FIVLQAS 241 (771)
Q Consensus 235 Iv~~~~~ 241 (771)
|+. .+.
T Consensus 256 iIt-tGG 261 (633)
T PRK14498 256 VLL-SGG 261 (633)
T ss_pred EEE-CCC
Confidence 998 543
No 370
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=53.69 E-value=2.7e+02 Score=28.73 Aligned_cols=171 Identities=12% Similarity=0.059 Sum_probs=78.7
Q ss_pred CCCCcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeE-EEEcCCchH
Q 004136 30 NIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWE 108 (771)
Q Consensus 30 ~~~~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~-aviGp~~s~ 108 (771)
...+++++|++-..++..-.+....+.-.+++ + -|.+++..+.-+... +-+.+...+++ +.+||. .
T Consensus 32 ~~~~~l~~gi~p~e~~~~~~~~~~pl~~~L~~---~-lG~~V~~~~a~dy~~-------vieal~~g~~D~A~~~~~--a 98 (299)
T COG3221 32 EDPKELRVGIVPTENPTNLIPAWAPLADYLEK---E-LGIPVEFFVATDYAA-------VIEALRAGQVDIAWLGPS--A 98 (299)
T ss_pred cCCcceEEEEcCCCChHHHHHHHHHHHHHHHH---H-hCCceEEEecccHHH-------HHHHHhCCCeeEEecCch--h
Confidence 34578999999877643222333333333332 2 267777765544311 22222266777 666665 1
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 004136 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 109 ~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
-..+. +. ....-|+...... +. ...|-.+|-+..+... +-+...+.+++++--.+...| .-.
T Consensus 99 ~~~a~-~~-~~~~e~~~~~~~~--dg---~~~Y~S~~i~~~ds~i------~sl~dlkgk~~af~d~~StSG-----~l~ 160 (299)
T COG3221 99 YVEAV-DR-ALAGEPLAQTVQK--DG---SPGYYSVIIVRADSPI------KSLEDLKGKRFAFGDPDSTSG-----YLF 160 (299)
T ss_pred HHHHH-hh-cccccceeeeecc--CC---CcceeEEEEEeCCCCc------chHHHhcCCeEeccCCCcchh-----hHh
Confidence 11111 11 1123444433111 00 1234444444433322 223377888998877776655 333
Q ss_pred HHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEE
Q 004136 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (771)
Q Consensus 189 l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~ 237 (771)
-...+.+.| . +.....|...... -.....+..+.+.+.|+-.+
T Consensus 161 P~~~L~~~g-~-~d~~~~f~~v~~~----G~H~~a~~aV~nG~vDva~~ 203 (299)
T COG3221 161 PLYYLAKEG-G-IDPDKFFGEVIFS----GGHDAAVLAVANGQVDVAAV 203 (299)
T ss_pred HHHHHHHhc-C-CChhhhhceeecc----ChHHHHHHHHHcCCceEEec
Confidence 334444444 2 1101111111100 11455666677778887666
No 371
>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=53.68 E-value=47 Score=33.33 Aligned_cols=77 Identities=8% Similarity=0.097 Sum_probs=50.4
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTI 246 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~~ 246 (771)
|+++..+ ++|. ....+.+.+.+++.| +++.... ... + .......++++.+.++|.|++ .. ......
T Consensus 2 i~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~i~~--~~~----~-~~~~~~~~~~~~~~~vdgiii-~~~~~~~~~ 70 (267)
T cd06322 2 IGASLLTQQHPFY--IELANAMKEEAKKQK-VNLIVSI--ANQ----D-LNKQLSDVEDFITKKVDAIVL-SPVDSKGIR 70 (267)
T ss_pred eeEeecCcccHHH--HHHHHHHHHHHHhcC-CEEEEec--CCC----C-HHHHHHHHHHHHHcCCCEEEE-cCCChhhhH
Confidence 4555554 4466 777899999999999 7765422 111 1 133556677777789999988 44 334445
Q ss_pred HHHHHHHHcCC
Q 004136 247 HLFTEANRMGL 257 (771)
Q Consensus 247 ~il~~a~~~g~ 257 (771)
..++++++.|+
T Consensus 71 ~~~~~~~~~~i 81 (267)
T cd06322 71 AAIAKAKKAGI 81 (267)
T ss_pred HHHHHHHHCCC
Confidence 66788888775
No 372
>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=53.65 E-value=1.3e+02 Score=28.27 Aligned_cols=87 Identities=14% Similarity=0.092 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh
Q 004136 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (771)
Q Consensus 152 ~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~--g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~ 229 (771)
......+.+.....+ .++.++..... ..+.+.+.+++. | ++|+.. ..... + .+-...+.++.+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~------v~~~~~~~l~~~yP~-l~i~g~--~g~f~---~--~~~~~i~~~I~~ 98 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD------VLQQLKVKLIKEYPK-LKIVGA--FGPLE---P--EERKAALAKIAR 98 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH------HHHHHHHHHHHHCCC-CEEEEE--CCCCC---h--HHHHHHHHHHHH
Confidence 345666666665555 57777765533 345555555543 4 666654 11111 1 334667889999
Q ss_pred CCceEEEEEecChhHHHHHHHHHHH
Q 004136 230 KQSRVFIVLQASLDMTIHLFTEANR 254 (771)
Q Consensus 230 ~~~~vIv~~~~~~~~~~~il~~a~~ 254 (771)
++||++++ .........++.+..+
T Consensus 99 s~~dil~V-glG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 99 SGAGIVFV-GLGCPKQEIWMRNHRH 122 (177)
T ss_pred cCCCEEEE-EcCCcHhHHHHHHhHH
Confidence 99999999 7766666666665533
No 373
>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=53.34 E-value=69 Score=34.42 Aligned_cols=89 Identities=17% Similarity=0.120 Sum_probs=58.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++..... ....+.+.+.+++.| +.+.....+..+. + ..+..+.+..+++.++|+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p--~--~~~v~~~~~~~~~~~~d~ 88 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIK--AGWVDRVIESLEEAG-LEYVVFSDVSPNP--R--DEEVMAGAELYLENGCDV 88 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC--C--HHHHHHHHHHHHhcCCCE
Confidence 45567778888889999998765443 446788999999888 6654322122222 1 145777788888889999
Q ss_pred EEEEec--ChhHHHHHHHH
Q 004136 235 FIVLQA--SLDMTIHLFTE 251 (771)
Q Consensus 235 Iv~~~~--~~~~~~~il~~ 251 (771)
||- .+ +.-++.+.+..
T Consensus 89 IIa-iGGGsviD~AK~ia~ 106 (377)
T cd08188 89 IIA-VGGGSPIDCAKGIGI 106 (377)
T ss_pred EEE-eCCchHHHHHHHHHH
Confidence 996 44 33455544443
No 374
>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=52.88 E-value=50 Score=32.90 Aligned_cols=79 Identities=9% Similarity=0.039 Sum_probs=50.8
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
+|++|..+ +.|. ....+.+++++++.| +++.....- .+. ......++++...+.+.|++..+......
T Consensus 1 ~ig~i~p~~~~~~~--~~~~~~~~~~a~~~g-~~~~~~~~~-~~~------~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFW--QAMNKGAEAAAKELG-VELIVLDAQ-NDV------SKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHH--HHHHHHHHHHHHhcC-ceEEEECCC-CCH------HHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 46777764 4465 778888999999999 776543221 111 33456777777778999887233334344
Q ss_pred HHHHHHHHcCC
Q 004136 247 HLFTEANRMGL 257 (771)
Q Consensus 247 ~il~~a~~~g~ 257 (771)
..++.+.+.+.
T Consensus 71 ~~~~~l~~~~i 81 (267)
T cd01536 71 PALKKANAAGI 81 (267)
T ss_pred HHHHHHHHCCC
Confidence 56777777664
No 375
>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=52.58 E-value=51 Score=34.04 Aligned_cols=80 Identities=8% Similarity=0.043 Sum_probs=51.6
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhc--cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~--~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~ 244 (771)
+|+++..+ +.|. ....+.+.+++++ .| +++.... ... + .....+.+.++.+.+++.|++...+...
T Consensus 1 ~Igviv~~~~~~~~--~~~~~gi~~~a~~~~~g-~~~~~~~---~~~---~-~~~q~~~i~~l~~~~vdgiii~~~~~~~ 70 (303)
T cd01539 1 KIGVFLYKFDDTFI--SLVRKNLEDIQKENGGK-VEFTFYD---AKN---N-QSTQNEQIDTALAKGVDLLAVNLVDPTA 70 (303)
T ss_pred CeEEEeeCCCChHH--HHHHHHHHHHHHhhCCC-eeEEEec---CCC---C-HHHHHHHHHHHHHcCCCEEEEecCchhh
Confidence 46677754 3455 6677889999998 67 6654432 111 1 1234566778888899988882345444
Q ss_pred HHHHHHHHHHcCCC
Q 004136 245 TIHLFTEANRMGLV 258 (771)
Q Consensus 245 ~~~il~~a~~~g~~ 258 (771)
....++++.+.|++
T Consensus 71 ~~~~~~~~~~~giP 84 (303)
T cd01539 71 AQTVINKAKQKNIP 84 (303)
T ss_pred HHHHHHHHHHCCCC
Confidence 56788888887763
No 376
>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=52.10 E-value=49 Score=33.39 Aligned_cols=81 Identities=6% Similarity=0.022 Sum_probs=51.4
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
+|+++..+ ++|. ......+.+.+++.| .++.....-.. . + .......++.+.+.++|.|++ .....+..
T Consensus 1 ~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~~~~~~~~~~-~---~-~~~~~~~i~~~~~~~vdgiI~-~~~~~~~~ 71 (268)
T cd06306 1 KLCVLYPHLKDAYW--LSVNYGMVEEAKRLG-VSLKLLEAGGY-P---N-LAKQIAQLEDCAAWGADAILL-GAVSPDGL 71 (268)
T ss_pred CeEEEcCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEecCCCC-C---C-HHHHHHHHHHHHHcCCCEEEE-cCCChhhH
Confidence 36777764 4566 677888999999999 77655321110 1 1 133556777777889999998 55433322
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..+.++.+.|++
T Consensus 72 ~~~~~~~~~giP 83 (268)
T cd06306 72 NEILQQVAASIP 83 (268)
T ss_pred HHHHHHHHCCCC
Confidence 257778877763
No 377
>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=52.05 E-value=1.5e+02 Score=28.48 Aligned_cols=89 Identities=8% Similarity=-0.014 Sum_probs=59.9
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC----hh
Q 004136 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LD 243 (771)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~----~~ 243 (771)
.++.+....++.- .-...-+...++..| +++.+-- .+ ......++.+++.+||+|.+ .+. ..
T Consensus 85 ~~vv~~t~~gd~H--~lG~~~v~~~l~~~G-~~vi~LG---~~-------vp~e~~v~~~~~~~pd~v~l-S~~~~~~~~ 150 (197)
T TIGR02370 85 GKVVCGVAEGDVH--DIGKNIVVTMLRANG-FDVIDLG---RD-------VPIDTVVEKVKKEKPLMLTG-SALMTTTMY 150 (197)
T ss_pred CeEEEEeCCCchh--HHHHHHHHHHHHhCC-cEEEECC---CC-------CCHHHHHHHHHHcCCCEEEE-ccccccCHH
Confidence 3555555555543 555788888889999 8876532 11 12566677777889999888 553 46
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 244 MTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 244 ~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
.+..+++++++.|...+-.+|+++...
T Consensus 151 ~~~~~i~~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 151 GQKDINDKLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHHHHHHHHHcCCCCCCEEEEEChhc
Confidence 678888999999876544466665554
No 378
>PRK09701 D-allose transporter subunit; Provisional
Probab=52.02 E-value=93 Score=32.26 Aligned_cols=86 Identities=9% Similarity=0.078 Sum_probs=56.6
Q ss_pred HcCCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-
Q 004136 164 KYNWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA- 240 (771)
Q Consensus 164 ~~~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~- 240 (771)
.+.-.+|+++..+ ++|. ....+.+.+++++.| +.+..... +... + .......++++.+.++|.|++ ..
T Consensus 21 ~~~~~~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~v~~~~~-~~~~---~-~~~~~~~i~~l~~~~vDgiIi-~~~ 91 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFW--VDMKKGIEDEAKTLG-VSVDIFAS-PSEG---D-FQSQLQLFEDLSNKNYKGIAF-APL 91 (311)
T ss_pred hccCCeEEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CeEEEecC-CCCC---C-HHHHHHHHHHHHHcCCCEEEE-eCC
Confidence 4566799999965 4566 777899999999999 77654321 1111 1 134556677788888999998 54
Q ss_pred ChhHHHHHHHHHHHcCCC
Q 004136 241 SLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 241 ~~~~~~~il~~a~~~g~~ 258 (771)
........+.++.+.|++
T Consensus 92 ~~~~~~~~l~~~~~~giP 109 (311)
T PRK09701 92 SSVNLVMPVARAWKKGIY 109 (311)
T ss_pred ChHHHHHHHHHHHHCCCc
Confidence 333344556777777753
No 379
>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=51.29 E-value=1.6e+02 Score=27.25 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=35.3
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCch--HhHHHHHHhhccCCccEEeecCC
Q 004136 81 DPFQAATAAQELINKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAP 130 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~~s--~~~~~v~~~~~~~~iP~Is~~a~ 130 (771)
+|..+++... ..+++..++|.... .....+..+++..++|+++....
T Consensus 16 ~p~~aa~lLk---~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~ 64 (162)
T TIGR00315 16 SPKLVAMMIK---RAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADT 64 (162)
T ss_pred CHHHHHHHHH---cCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcc
Confidence 5655555444 35789999998664 66778889999999999977644
No 380
>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold. In Escherichia coli, XapR is a positive regulator for the expression of xapA gene, encoding xanthosine phosphorylase, and xapB gene, encoding a polypeptide similar to the nucleotide transport protein NupG. As an operon, the expression of both xapA and xapB is fully dependent on the presence of both XapR and the inducer xanthosine. Expression of the xapR is constitutive but not auto-regulated, unlike many other LysR family proteins. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their
Probab=51.01 E-value=2e+02 Score=26.41 Aligned_cols=71 Identities=10% Similarity=0.002 Sum_probs=46.4
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-..++..+.++. +.+ +++.. +....++..+.+|++|+++....... +...+. ..++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~~~ 84 (197)
T cd08449 13 GGLGPALRRFKRQYPNVT--VRFHE--LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPEEH 84 (197)
T ss_pred hhHHHHHHHHHHHCCCeE--EEEEE--CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecCCC
Confidence 46678888888876 444 45444 35678899999999999986332210 122232 35677888888876654
No 381
>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=50.79 E-value=33 Score=34.08 Aligned_cols=78 Identities=15% Similarity=0.141 Sum_probs=50.6
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
+++++... ..++ ....+.+++.+++.| +++..... .. + .....+.++++.+.+++.|++ ........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~l~~~~~---~~---~-~~~~~~~~~~~~~~~~d~ii~-~~~~~~~~ 69 (264)
T cd01537 1 TIGVLVPDLDNPFF--AQVLKGIEEAAKAAG-YQVLLANS---QN---D-AEKQLSALENLIARGVDGIII-APSDLTAP 69 (264)
T ss_pred CeEEEEcCCCChHH--HHHHHHHHHHHHHcC-CeEEEEeC---CC---C-HHHHHHHHHHHHHcCCCEEEE-ecCCCcch
Confidence 36777765 4566 778899999999999 77654321 11 1 134667777777778998888 44433333
Q ss_pred HHHHHHHHcCC
Q 004136 247 HLFTEANRMGL 257 (771)
Q Consensus 247 ~il~~a~~~g~ 257 (771)
..+..+.+.+.
T Consensus 70 ~~~~~l~~~~i 80 (264)
T cd01537 70 TIVKLARKAGI 80 (264)
T ss_pred hHHHHhhhcCC
Confidence 35677777665
No 382
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=50.77 E-value=86 Score=30.88 Aligned_cols=102 Identities=14% Similarity=0.220 Sum_probs=69.8
Q ss_pred CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHH-HHHHhhccCCcc
Q 004136 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA-VVAEIASRVQVP 123 (771)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~-~v~~~~~~~~iP 123 (771)
+..|+.=..+++..+.+||-. .++...+. ....+...+++ ..+.+.||-...+-.+. ++...|..+++|
T Consensus 79 ~~iGk~Kv~vm~eri~~InP~-----c~V~~~~~----f~t~en~~~~~-~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~ 148 (263)
T COG1179 79 GDIGKPKVEVMKERIKQINPE-----CEVTAIND----FITEENLEDLL-SKGFDYVIDAIDSVRAKVALIAYCRRNKIP 148 (263)
T ss_pred hhcccHHHHHHHHHHHhhCCC-----ceEeehHh----hhCHhHHHHHh-cCCCCEEEEchhhhHHHHHHHHHHHHcCCC
Confidence 356888888888899999864 34444443 34455667777 56899999766665554 467889999999
Q ss_pred EEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH
Q 004136 124 ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (771)
Q Consensus 124 ~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l 162 (771)
+|+..++ . .+..|.-+++.--.....+.+++.+
T Consensus 149 vIss~Ga--g----~k~DPTri~v~DiskT~~DPLa~~v 181 (263)
T COG1179 149 VISSMGA--G----GKLDPTRIQVADISKTIQDPLAAKV 181 (263)
T ss_pred EEeeccc--c----CCCCCceEEeeechhhccCcHHHHH
Confidence 9998877 2 3445777777755555555555544
No 383
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=50.71 E-value=57 Score=34.48 Aligned_cols=82 Identities=9% Similarity=0.024 Sum_probs=53.4
Q ss_pred CeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhH
Q 004136 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (771)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~ 244 (771)
-++|+++..+ ++|. ....+.+++++++.| ..+......... + .......++.+.+.++|.|++.......
T Consensus 46 t~~Igvv~p~~~~~f~--~~~~~gi~~aa~~~G-~~l~i~~~~~~~----~-~~~q~~~i~~l~~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 46 AWKLCALYPHLKDSYW--LSVNYGMVEEAKRLG-VDLKVLEAGGYY----N-LAKQQQQLEQCVAWGADAILLGAVTPDG 117 (343)
T ss_pred CeEEEEEecCCCchHH--HHHHHHHHHHHHHhC-CEEEEEcCCCCC----C-HHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 4788888865 4465 667788999999999 776553221111 1 1335567777888899999982334444
Q ss_pred HHHHHHHHHHcCC
Q 004136 245 TIHLFTEANRMGL 257 (771)
Q Consensus 245 ~~~il~~a~~~g~ 257 (771)
....+ ++++.|.
T Consensus 118 ~~~~l-~~~~~gi 129 (343)
T PRK10936 118 LNPDL-ELQAANI 129 (343)
T ss_pred hHHHH-HHHHCCC
Confidence 44556 7777775
No 384
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=50.48 E-value=83 Score=32.47 Aligned_cols=96 Identities=13% Similarity=0.133 Sum_probs=70.2
Q ss_pred CCCceEEEeecCcHHHHHHHH----HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCC
Q 004136 139 RRWPYLIRMASNDSEQMKCIA----DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS 214 (771)
Q Consensus 139 ~~~p~~fr~~p~~~~~~~a~~----~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~ 214 (771)
+.-++-|-+.|+....+.... ..++..|.+++.++++-+--- ....+..++.|+++| +++...-.......
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~--~~~~~~a~~~L~~~~-I~~~vyD~v~~ePt-- 112 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAK--LGLVKVAQDSLEENG-INVEVYDKVQPEPT-- 112 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhh--cccHHHHHHHHHHcC-CceEEecCccCCCc--
Confidence 455788888998888777543 456889999999999877654 666788889999999 77764333322221
Q ss_pred CchHHHHHHHHHhhhCCceEEEEEecCh
Q 004136 215 DPKEAVRGELKKVQDKQSRVFIVLQASL 242 (771)
Q Consensus 215 d~~~~~~~~l~~l~~~~~~vIv~~~~~~ 242 (771)
+ .++...+.-.|+.+.|.++. .+.+
T Consensus 113 v--~s~~~alefak~~~fDs~va-iGGG 137 (465)
T KOG3857|consen 113 V--GSVTAALEFAKKKNFDSFVA-IGGG 137 (465)
T ss_pred h--hhHHHHHHHHHhcccceEEE-EcCc
Confidence 1 56899999999999998887 4433
No 385
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=50.17 E-value=68 Score=32.27 Aligned_cols=80 Identities=8% Similarity=0.071 Sum_probs=50.4
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhcc---CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC-h
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-L 242 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~---g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~-~ 242 (771)
||+++..+ ++|. ....+.+.+.+++. | .++.......... .......++++...++|.|++ ... .
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~~i~~~~~~~~~~g-~~~~l~i~~~~~~-----~~~~~~~~~~~~~~~vdgiIi-~~~~~ 71 (272)
T cd06300 1 KIGLSNSYAGNTWR--AQMLDEFKAQAKELKKAG-LISEFIVTSADGD-----VAQQIADIRNLIAQGVDAIII-NPASP 71 (272)
T ss_pred CeEEeccccCChHH--HHHHHHHHHHHHhhhccC-CeeEEEEecCCCC-----HHHHHHHHHHHHHcCCCEEEE-eCCCh
Confidence 45666643 3454 66778888889888 8 6443322211111 144667888888889999999 553 3
Q ss_pred hHHHHHHHHHHHcCC
Q 004136 243 DMTIHLFTEANRMGL 257 (771)
Q Consensus 243 ~~~~~il~~a~~~g~ 257 (771)
......+..+.+.|.
T Consensus 72 ~~~~~~l~~~~~~~i 86 (272)
T cd06300 72 TALNPVIEEACEAGI 86 (272)
T ss_pred hhhHHHHHHHHHCCC
Confidence 334556778887765
No 386
>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=49.37 E-value=49 Score=35.40 Aligned_cols=91 Identities=13% Similarity=0.099 Sum_probs=63.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.+| ++.+|++..... ....+.+.+.+++.| +++.....+.... +..+....+..+++.++|+
T Consensus 11 l~~l~~~l~~~g--r~lvVt~~~~~~--~~~~~~v~~~L~~~~-i~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~ 81 (366)
T PF00465_consen 11 LEELGEELKRLG--RVLVVTDPSLSK--SGLVDRVLDALEEAG-IEVQVFDGVGPNP----TLEDVDEAAEQARKFGADC 81 (366)
T ss_dssp GGGHHHHHHCTT--EEEEEEEHHHHH--HTHHHHHHHHHHHTT-CEEEEEEEESSS-----BHHHHHHHHHHHHHTTSSE
T ss_pred HHHHHHHHHhcC--CEEEEECchHHh--CccHHHHHHHHhhCc-eEEEEEecCCCCC----cHHHHHHHHHHHHhcCCCE
Confidence 345667777777 999999873332 446899999999999 8776544444443 1267888999999999999
Q ss_pred EEEEecCh--hHHHHHHHHHHHc
Q 004136 235 FIVLQASL--DMTIHLFTEANRM 255 (771)
Q Consensus 235 Iv~~~~~~--~~~~~il~~a~~~ 255 (771)
||- .+.+ -++.+++..+...
T Consensus 82 IIa-iGGGS~~D~aK~va~~~~~ 103 (366)
T PF00465_consen 82 IIA-IGGGSVMDAAKAVALLLAN 103 (366)
T ss_dssp EEE-EESHHHHHHHHHHHHHHTS
T ss_pred EEE-cCCCCcCcHHHHHHhhccC
Confidence 997 5544 4566666666653
No 387
>PRK07475 hypothetical protein; Provisional
Probab=49.13 E-value=89 Score=31.21 Aligned_cols=46 Identities=22% Similarity=0.200 Sum_probs=29.6
Q ss_pred CCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEe
Q 004136 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (771)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is 126 (771)
.++......+.+.+.+.++.+|+.+ |.........+.+..++|+++
T Consensus 61 ~~~~~~l~~aa~~L~~~G~d~I~~~-Cgt~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 61 PSLLDAFVAAARELEAEGVRAITTS-CGFLALFQRELAAALGVPVAT 106 (245)
T ss_pred ccHHHHHHHHHHHHHHcCCCEEEec-hHHHHHHHHHHHHHcCCCEec
Confidence 3555555555555557899999976 444444445566667899874
No 388
>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=49.10 E-value=60 Score=32.46 Aligned_cols=78 Identities=15% Similarity=0.134 Sum_probs=50.0
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+++++++.| +++... .... | .....+.++.+.+.++|.|++ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~---~~~~---~-~~~~~~~i~~~~~~~vdgiii-~~~~~~~~~ 70 (268)
T cd06289 2 IGLVINDLTNPFF--AELAAGLEEVLEEAG-YTVFLA---NSGE---D-VERQEQLLSTMLEHGVAGIIL-CPAAGTSPD 70 (268)
T ss_pred EEEEecCCCcchH--HHHHHHHHHHHHHcC-CeEEEe---cCCC---C-hHHHHHHHHHHHHcCCCEEEE-eCCCCccHH
Confidence 5666653 4565 677888999999999 776432 1111 1 133556777788888999988 543333334
Q ss_pred HHHHHHHcCCC
Q 004136 248 LFTEANRMGLV 258 (771)
Q Consensus 248 il~~a~~~g~~ 258 (771)
.++++.+.|.+
T Consensus 71 ~~~~~~~~~ip 81 (268)
T cd06289 71 LLKRLAESGIP 81 (268)
T ss_pred HHHHHHhcCCC
Confidence 77788877763
No 389
>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=49.09 E-value=61 Score=32.50 Aligned_cols=78 Identities=13% Similarity=0.091 Sum_probs=48.5
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ..+.+.+++++++.| .++....... .. .......++.+.+.+.+.|++ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~~-~~-----~~~~~~~~~~l~~~~vdgiii-~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYV--SEIQLGALDACRDTG-YQLVIEPCDS-GS-----PDLAERVRALLQRSRVDGVIL-TPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccH--HHHHHHHHHHHHhCC-CeEEEEeCCC-Cc-----hHHHHHHHHHHHHCCCCEEEE-eCCCCCccH
Confidence 5666654 4576 778899999999999 7765443211 11 023445555666778998888 433222355
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
.++.+.+.+.
T Consensus 72 ~~~~~~~~~i 81 (270)
T cd01545 72 LLDLLDEAGV 81 (270)
T ss_pred HHHHHHhcCC
Confidence 6777777765
No 390
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=49.05 E-value=3.2e+02 Score=28.15 Aligned_cols=175 Identities=13% Similarity=0.098 Sum_probs=100.7
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc--CC--chHhH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--ME--TWEET 110 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG--p~--~s~~~ 110 (771)
-+++++.--+.+....+.+.-.-+.+++ |.+.++...+...+..+..+...++=.+..|++|+- |. .-...
T Consensus 32 P~Laii~vg~d~as~~Yv~~k~k~~~~~-----Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id~~ 106 (295)
T PRK14174 32 PGLTVIIVGEDPASQVYVRNKAKSCKEI-----GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQIDEF 106 (295)
T ss_pred CeEEEEEeCCChHHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHH
Confidence 4677776665444556666666666666 778888888877788888888888877777887763 32 22222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcC----CeEEEEEEEeCCCCCCcchH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKL 186 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~----w~~v~ii~~~~~~g~~~~~~ 186 (771)
.....+.....+=-+++... ...+.....+. ..|- .+.++.+++++|+ .+++.+|....--| ...+
T Consensus 107 ~i~~~I~p~KDVDGl~~~n~--g~l~~~~~~~~---~~Pc---Tp~ail~ll~~y~i~l~Gk~vvViGrS~iVG--~Pla 176 (295)
T PRK14174 107 AVTLAIDPAKDVDGFHPENL--GRLVMGHLDKC---FVSC---TPYGILELLGRYNIETKGKHCVVVGRSNIVG--KPMA 176 (295)
T ss_pred HHHhcCCccccccccChhhH--HHHhcCCCCCC---cCCC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcch--HHHH
Confidence 23333333333333322211 01111110021 2333 3678899998875 58999999888888 6666
Q ss_pred HHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec
Q 004136 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (771)
Q Consensus 187 ~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~ 240 (771)
.-|.+.++..| .+|..... .+ .++.+.+ .++|++|. ..
T Consensus 177 ~lL~~~~~~~~-atVt~~hs---~t------~~l~~~~-----~~ADIvI~-Av 214 (295)
T PRK14174 177 NLMLQKLKESN-CTVTICHS---AT------KDIPSYT-----RQADILIA-AI 214 (295)
T ss_pred HHHHhccccCC-CEEEEEeC---Cc------hhHHHHH-----HhCCEEEE-ec
Confidence 55555444456 44443221 11 2233332 26999998 54
No 391
>PRK07377 hypothetical protein; Provisional
Probab=48.97 E-value=48 Score=30.83 Aligned_cols=45 Identities=20% Similarity=0.180 Sum_probs=35.9
Q ss_pred cccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEe
Q 004136 487 YDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (771)
Q Consensus 487 ~~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~ 534 (771)
.-+-.++.++.+.++++.++++...+ +-+.+.+.+.+|++|++++
T Consensus 91 ~~~~l~~~l~~~~~~y~~rlElv~y~---~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 91 VFDQLIDQLRTILDKYHLRLELVVYP---DLQALEQALRDKEVHAICL 135 (184)
T ss_pred cHHHHHHHHHHHHHHhCceeeEEecC---CHHHHHHHHhcCCccEEec
Confidence 34557788899999999886665555 4788999999999998876
No 392
>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=48.38 E-value=97 Score=33.42 Aligned_cols=89 Identities=16% Similarity=0.116 Sum_probs=56.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.++++.++ +++.++++...+. ....+.+.+.+++.| +++.......+. .+..+....+...++.++|+|
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~----~~~~~v~~~~~~~~~~~~D~I 83 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAG--TPVFAELVQALAAAG-VEVEVFDGVLPD----LPRSELCDAASAAARAGPDVI 83 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhh--cchHHHHHHHHHHcC-CeEEEECCCCCC----cCHHHHHHHHHHHHhcCCCEE
Confidence 45667788888 8898888655443 466788999999888 765432111111 112456667777778899999
Q ss_pred EEEec--ChhHHHHHHHHHH
Q 004136 236 IVLQA--SLDMTIHLFTEAN 253 (771)
Q Consensus 236 v~~~~--~~~~~~~il~~a~ 253 (771)
|- .+ +.-++.+++....
T Consensus 84 Ia-iGGGS~iD~aK~ia~~~ 102 (386)
T cd08191 84 IG-LGGGSCIDLAKIAGLLL 102 (386)
T ss_pred EE-eCCchHHHHHHHHHHHH
Confidence 86 44 3345555555443
No 393
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=48.20 E-value=3.4e+02 Score=28.19 Aligned_cols=69 Identities=7% Similarity=0.116 Sum_probs=45.7
Q ss_pred chHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 490 ~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
+-.+++..+.+.. +.. +++... .-..+...|.+|++|+++..-.. ..+.+.+ .++....+.++++...+
T Consensus 103 ~l~~~l~~~~~~~P~i~--l~~~~~--~~~~~~~~L~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~~~~hp 172 (317)
T PRK15421 103 WLTPALENFHKNWPQVE--MDFKSG--VTFDPQPALQQGELDLVMTSDIL---PRSGLHY-SPMFDYEVRLVLAPDHP 172 (317)
T ss_pred HHHHHHHHHHHHCCCce--EEEEeC--ccHHHHHHHHCCCcCEEEecCcc---cCCCceE-EEeccceEEEEEcCCCC
Confidence 4566778887775 444 444332 34568899999999999864322 2223443 67888888888876653
No 394
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=48.15 E-value=1.6e+02 Score=27.73 Aligned_cols=75 Identities=11% Similarity=0.192 Sum_probs=43.6
Q ss_pred CCChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHHHhcCCceeEe
Q 004136 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAI 752 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~~~~c~~l~~~ 752 (771)
+++.+||. +++|++.=......||.+ .+. ...+..... .-|. +-..|-.|+.++-..+..-+.+ |+|+++
T Consensus 101 ~~~~~~l~--~~rIATkyp~i~~~~f~~-~Gi-~v~ii~l~G-svE~--aP~~GlaD~IvDiv~TG~TL~~---NgL~~i 170 (182)
T TIGR00070 101 ISSVEDLK--GKRIATKYPNLARRYFEK-KGI-DVEIIKLNG-SVEL--APLLGLADAIVDIVSTGTTLRE---NGLRII 170 (182)
T ss_pred CCChHHhC--CCEEEECCHHHHHHHHHH-cCC-eEEEEECcc-eeec--ccCCCceeEEEEEeCCHHHHHH---CCCEEe
Confidence 77889997 899998555577888877 333 234444443 2222 2335777777665444443333 335666
Q ss_pred e-eeee
Q 004136 753 N-TYRF 757 (771)
Q Consensus 753 ~-~~~~ 757 (771)
. .+..
T Consensus 171 e~i~~s 176 (182)
T TIGR00070 171 EVILES 176 (182)
T ss_pred eEEEee
Confidence 6 4443
No 395
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=48.12 E-value=3.1e+02 Score=27.75 Aligned_cols=70 Identities=14% Similarity=0.143 Sum_probs=45.3
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.+.+ +.+ +.+.. +....++..+.+|++|+++....... ..+. ..|+....+.+++++..+
T Consensus 102 ~~~~~~l~~~~~~~P~i~--i~v~~--~~~~~~~~~l~~g~~Di~i~~~~~~~---~~~~-~~~l~~~~~~lv~~~~hp 172 (290)
T PRK10837 102 YILPAMIARYRRDYPQLP--LELSV--GNSQDVINAVLDFRVDIGLIEGPCHS---PELI-SEPWLEDELVVFAAPDSP 172 (290)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEE--CCHHHHHHHHHhCCceEEEecCCCCC---Ccee-EEEeecceEEEEEcCCCh
Confidence 45567788888876 545 44433 24577999999999999986322221 1222 256777788888876553
No 396
>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=48.07 E-value=62 Score=32.29 Aligned_cols=78 Identities=9% Similarity=-0.012 Sum_probs=50.2
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+.+++++.| +.+..... ..+. ....+.++++.+.++|.|++..++.. ...
T Consensus 2 igvv~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiii~~~~~~-~~~ 70 (266)
T cd06282 2 VGVVLPSLANPVF--AECVQGIQEEARAAG-YSLLLATT-DYDA------EREADAVETLLRQRVDGLILTVADAA-TSP 70 (266)
T ss_pred eEEEeCCCCcchH--HHHHHHHHHHHHHCC-CEEEEeeC-CCCH------HHHHHHHHHHHhcCCCEEEEecCCCC-chH
Confidence 5566643 4565 677889999999999 77765322 1111 33456777777778999998233332 234
Q ss_pred HHHHHHHcCCC
Q 004136 248 LFTEANRMGLV 258 (771)
Q Consensus 248 il~~a~~~g~~ 258 (771)
.++.+.+.|.+
T Consensus 71 ~~~~~~~~~ip 81 (266)
T cd06282 71 ALDLLDAERVP 81 (266)
T ss_pred HHHHHhhCCCC
Confidence 67888888764
No 397
>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=48.03 E-value=1.5e+02 Score=26.74 Aligned_cols=119 Identities=14% Similarity=0.143 Sum_probs=67.1
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
+|+++.+.. ......-..|++.|+++.+- +.....................++.+.++.+||.. +...+..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~-~~~~a~~~~ 84 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEHGI-----EFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICS-NDRLALGVL 84 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHTTS-----EEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEES-SHHHHHHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHCCC-----CCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEc-CHHHHHHHH
Confidence 366666333 34455677888888877633 44433333333333333333334433467788874 444455555
Q ss_pred HhhccCCc------cEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH
Q 004136 115 EIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (771)
Q Consensus 115 ~~~~~~~i------P~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~ 164 (771)
..+...|+ .+++.... +. .....|.+-....+....+...++.+..
T Consensus 85 ~~l~~~g~~vP~di~vv~~~~~---~~-~~~~~p~it~i~~~~~~~g~~a~~~l~~ 136 (160)
T PF13377_consen 85 RALRELGIRVPQDISVVSFDDS---PL-LEFFSPPITTIDQDPREMGREAVELLLD 136 (160)
T ss_dssp HHHHHTTSCTTTTSEEEEESSS---GH-HHCSSSTSEEEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHcCCcccccccEEEecCc---HH-HHHHcCCCceecCCHHHHHHHHHHHHHH
Confidence 66555543 46666533 22 2444566667777888899888888743
No 398
>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=47.60 E-value=68 Score=32.31 Aligned_cols=80 Identities=5% Similarity=0.040 Sum_probs=50.5
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC-hhHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMT 245 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~-~~~~ 245 (771)
++++|..+ ++|. ....+.+.+++++.| +.+.....-.... ...-...++++.+.+++.|++ ... ....
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~~~~~-----~~~~~~~i~~l~~~~vdgiIi-~~~~~~~~ 71 (275)
T cd06320 1 KYGVVLKTLSNEFW--RSLKEGYENEAKKLG-VSVDIQAAPSEGD-----QQGQLSIAENMINKGYKGLLF-SPISDVNL 71 (275)
T ss_pred CeeEEEecCCCHHH--HHHHHHHHHHHHHhC-CeEEEEccCCCCC-----HHHHHHHHHHHHHhCCCEEEE-CCCChHHh
Confidence 35666653 4455 677888999999999 7765432211111 123456677777788999887 543 3334
Q ss_pred HHHHHHHHHcCC
Q 004136 246 IHLFTEANRMGL 257 (771)
Q Consensus 246 ~~il~~a~~~g~ 257 (771)
...++.+.+.+.
T Consensus 72 ~~~~~~~~~~~i 83 (275)
T cd06320 72 VPAVERAKKKGI 83 (275)
T ss_pred HHHHHHHHHCCC
Confidence 556778877775
No 399
>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=47.59 E-value=1.2e+02 Score=32.49 Aligned_cols=86 Identities=10% Similarity=0.074 Sum_probs=55.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.+.++.++.+++.+|++...+ ..+.+.+.+++.| +++.....+..+.. .+...+.+..+++.++|+|
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~-----~~~~~~~~l~~~~-~~~~~~~~~~~~p~----~~~v~~~~~~~~~~~~D~I 81 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA-----IASGLTDILKPLG-TLVVVFDDVQPNPD----LEDLAAGIRLLREFGPDAV 81 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH-----HHHHHHHHHHHcC-CeEEEEcCcCCCcC----HHHHHHHHHHHHhcCcCEE
Confidence 456677788888999999865443 2566778888888 65543222322221 1457778888888899999
Q ss_pred EEEec--ChhHHHHHHHHH
Q 004136 236 IVLQA--SLDMTIHLFTEA 252 (771)
Q Consensus 236 v~~~~--~~~~~~~il~~a 252 (771)
|- .+ +.-++.+++...
T Consensus 82 Ia-vGGGs~~D~aK~ia~~ 99 (367)
T cd08182 82 LA-VGGGSVLDTAKALAAL 99 (367)
T ss_pred EE-eCCcHHHHHHHHHHHH
Confidence 96 43 445566666554
No 400
>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=46.84 E-value=60 Score=32.66 Aligned_cols=79 Identities=10% Similarity=0.080 Sum_probs=51.0
Q ss_pred EEEEEEe---CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
|++|..+ ++|. ....+.+.+.+++.| +.+.... ... + .+...+.++.+.+.++|.|++.....+...
T Consensus 2 i~vi~p~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~---~~~---~-~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (275)
T cd06317 2 IGYTQNNVGSHSYQ--TTYNKAFQAAAEEDG-VEVIVLD---ANG---D-VARQAAQVEDLIAQKVDGIILWPTDGQAYI 71 (275)
T ss_pred eEEEecccCCCHHH--HHHHHHHHHHHHhcC-CEEEEEc---CCc---C-HHHHHHHHHHHHHcCCCEEEEecCCccccH
Confidence 5566643 4576 777889999999999 7765432 111 1 134556677777778999988233444445
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..++++.+.+.+
T Consensus 72 ~~l~~~~~~~iP 83 (275)
T cd06317 72 PGLRKAKQAGIP 83 (275)
T ss_pred HHHHHHHHCCCc
Confidence 667888887753
No 401
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=46.79 E-value=3.6e+02 Score=30.11 Aligned_cols=143 Identities=15% Similarity=0.127 Sum_probs=78.0
Q ss_pred EEcCCchHhHHHHHHhhc-cCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 004136 101 IAGMETWEETAVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (771)
Q Consensus 101 viGp~~s~~~~~v~~~~~-~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~ 179 (771)
|++|.+.....++..+.+ ...+=+|.++-. -++|- ......+.-.++++...-+++.|+|... |
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~HG------------~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~-~ 262 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSHG------------VVWRD--NPTQIVELYLKWAADYQEDRITIFYDTM-S 262 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCCC------------ceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECC-c
Confidence 677877765555655554 223444433311 23452 2222333334444443457899998764 3
Q ss_pred CCCcchHHHHHHHHhcc--CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh------hHHHHHHHH
Q 004136 180 GGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL------DMTIHLFTE 251 (771)
Q Consensus 180 g~~~~~~~~l~~~~~~~--g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~------~~~~~il~~ 251 (771)
|.-+.+++.+.+.+++. | +++... .+.. .+....+..+. +++.|++ .+.. .....++..
T Consensus 263 GnTe~mA~~ia~gl~~~g~g-v~v~~~-~v~~--------~~~~~i~~~~~--~ad~vil-GspT~~~~~~p~~~~fl~~ 329 (479)
T PRK05452 263 NNTRMMADAIAQGIAEVDPR-VAVKIF-NVAR--------SDKNEILTNVF--RSKGVLV-GSSTMNNVMMPKIAGLLEE 329 (479)
T ss_pred cHHHHHHHHHHHHHHhhCCC-ceEEEE-ECCC--------CCHHHHHhHHh--hCCEEEE-ECCccCCcchHHHHHHHHH
Confidence 31166788888888866 4 443322 1221 12444444443 5677777 5432 346677777
Q ss_pred HHHcCCCCCCeEEEeeCccc
Q 004136 252 ANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 252 a~~~g~~~~~~~~i~~~~~~ 271 (771)
+....+.++...-|++.+|.
T Consensus 330 l~~~~l~gK~~~vFGSygw~ 349 (479)
T PRK05452 330 ITGLRFRNKRASAFGSHGWS 349 (479)
T ss_pred hhccCcCCCEEEEEECCCcC
Confidence 77777777766666666553
No 402
>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=46.45 E-value=1e+02 Score=32.79 Aligned_cols=87 Identities=10% Similarity=0.020 Sum_probs=55.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.+.++.++ +++.++++...+-. .+..+.+.+.+++.| +++.....+..+.. .++.....+.+++.++|+|
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~-~g~~~~v~~~L~~~g-~~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~D~I 87 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKK-NGSLDDVTKALEELG-IEYEIFDEVEENPS----LETIMEAVEIAKKFNADFV 87 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhh-cCcHHHHHHHHHHcC-CeEEEeCCCCCCcC----HHHHHHHHHHHHhcCCCEE
Confidence 34566778787 88888887654220 334688899999888 76543222222221 1567888888899999999
Q ss_pred EEEecCh--hHHHHHHH
Q 004136 236 IVLQASL--DMTIHLFT 250 (771)
Q Consensus 236 v~~~~~~--~~~~~il~ 250 (771)
|- .+.+ -++.+.+.
T Consensus 88 Ia-vGGGSviD~aK~ia 103 (357)
T cd08181 88 IG-IGGGSPLDAAKAIA 103 (357)
T ss_pred EE-eCCchHHHHHHHHH
Confidence 97 4433 34454443
No 403
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=46.16 E-value=2.8e+02 Score=30.60 Aligned_cols=90 Identities=16% Similarity=0.111 Sum_probs=54.1
Q ss_pred EEEEEEeCCC---c-CchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEcCCchH-h
Q 004136 36 KIGAIVDANS---Q-MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETWE-E 109 (771)
Q Consensus 36 ~IG~i~p~s~---~-~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~-~~~~a~~~~~~li~~~~v~aviGp~~s~-~ 109 (771)
+||++.-..+ . .........+..++.+|+. + ++++..+... ++..+.+++.++- .+++.++|-...+- .
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~--~~vv~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~tf~~ 76 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADLLNEL--P--VEVVDKPEVTGTPDEARKAAEEFN-EANCDGLIVWMHTFGP 76 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHHHhcC--C--ceEEecCcccCCHHHHHHHHHHHh-hcCCcEEEEccccccc
Confidence 5676654433 1 1223455555566666665 2 3555555444 7777777666665 56888777544443 3
Q ss_pred HHHHHHhhccCCccEEeecCC
Q 004136 110 TAVVAEIASRVQVPILSFAAP 130 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~Is~~a~ 130 (771)
...+...++..++|++-++..
T Consensus 77 ~~~~~~~~~~~~~Pvll~a~~ 97 (452)
T cd00578 77 AKMWIAGLSELRKPVLLLATQ 97 (452)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 344666678889999988765
No 404
>cd08445 PBP2_BenM_CatM_CatR The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold. This CD includes the C-terminal of LysR-type transcription regulators, BenM, CatM, and CatR, which are involved in the benzoate catabolism. The BenM and CatM are paralogs with overlapping functions. BenM responds synergistically to two effectors, benzoate and cis,cis-muconate, to activate expression of the benABCDE operon which is involved in benzoate catabolism, while CatM responses only to muconate. BenM and CatM share high protein sequence identity and bind to the operator-promoter regions that have similar DNA sequences. In Pseudomonas species, phenolic compounds are converted by different enzymes to central intermediates, such as protocatechuate and catechols. Generally, unsubstituted compounds, such as benzoate, are metabolized by an ortho-cleavage pathway. The catBCA operon encodes three enzymes
Probab=45.93 E-value=2.5e+02 Score=26.09 Aligned_cols=71 Identities=18% Similarity=0.216 Sum_probs=47.2
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
..+..+++..+.++. +.+ +.+.. +....++..+.+|++|+++...... ...+. +.|+....+.+++++..+
T Consensus 13 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~hp 84 (203)
T cd08445 13 YGLLPELIRRFRQAAPDVE--IELIE--MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPAGHP 84 (203)
T ss_pred HhHHHHHHHHHHHHCCCeE--EEEEe--CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeCCCC
Confidence 356778888888876 444 44443 2467899999999999998532221 12232 357778888888876553
No 405
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=45.89 E-value=24 Score=31.48 Aligned_cols=55 Identities=15% Similarity=0.269 Sum_probs=39.3
Q ss_pred HHHHHhcCCeEEEEcCCch--HhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEE
Q 004136 89 AQELINKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR 146 (771)
Q Consensus 89 ~~~li~~~~v~aviGp~~s--~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr 146 (771)
+..|-..+++.+++|.... .....+..+++..++|+++.... ...-+...|++.-
T Consensus 5 ~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~---kg~i~~~hp~~~G 61 (137)
T PF00205_consen 5 ADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG---KGVIPEDHPLFLG 61 (137)
T ss_dssp HHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG---TTSSTTTSTTEEE
T ss_pred HHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc---ccccCCCCchhcc
Confidence 3444456899999998777 78889999999999999887755 3333445577655
No 406
>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=45.18 E-value=66 Score=32.64 Aligned_cols=81 Identities=14% Similarity=0.126 Sum_probs=50.3
Q ss_pred EEEEEEe---CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
|++|..+ ++|. ....+.+.+.+++.| ..+.......... .+ .......++.+.+.++|.|++ ........
T Consensus 2 Igvi~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~--~~-~~~~~~~i~~l~~~~vDgiIv-~~~~~~~~ 74 (280)
T cd06303 2 IAVIYPGQQISDYW--VRNIASFTARLEELN-IPYELTQFSSRPG--ID-HRLQSQQLNEALQSKPDYLIF-TLDSLRHR 74 (280)
T ss_pred eeEEecCccHHHHH--HHHHHHHHHHHHHcC-CcEEEEEeccCcc--cC-HHHHHHHHHHHHHcCCCEEEE-cCCchhhH
Confidence 6777765 3566 677888999999999 7765432211110 01 123456677788889999988 65433334
Q ss_pred HHHHHHHHcCC
Q 004136 247 HLFTEANRMGL 257 (771)
Q Consensus 247 ~il~~a~~~g~ 257 (771)
..++.+.+.+.
T Consensus 75 ~~~~~l~~~~~ 85 (280)
T cd06303 75 KLIERVLASGK 85 (280)
T ss_pred HHHHHHHhCCC
Confidence 55666666654
No 407
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=45.03 E-value=2e+02 Score=29.56 Aligned_cols=72 Identities=11% Similarity=0.134 Sum_probs=44.7
Q ss_pred cchHHHHHHHHHHCC-CcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~-f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+..+++..+.++.- .+ +.+.. +....++..|.+|++|++++.... ......+. ..++....+.+++++..+
T Consensus 105 ~~l~~~l~~~~~~~p~i~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~~~~hp 177 (300)
T PRK11074 105 DRTRQLIVDFYRHFDDVE--LIIRQ--EVFNGVWDALADGRVDIAIGATRA-IPVGGRFA-FRDMGMLSWACVVSSDHP 177 (300)
T ss_pred hHHHHHHHHHHHhCCCce--EEEEe--hhhhHHHHHHHCCCCCEEEecCcc-CCcccccc-eeecccceEEEEEcCCCc
Confidence 445677878777763 44 34333 245678999999999999863221 11112232 256777788888876653
No 408
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=44.96 E-value=96 Score=32.54 Aligned_cols=81 Identities=14% Similarity=0.065 Sum_probs=53.2
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
.-+.++++..+ ++|. ....+.+.+++++.| ..+..... ..+. ......++.+.+.++|.|++ .....
T Consensus 63 ~~~~Igvv~~~~~~~~~--~~i~~gi~~~a~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiIi-~~~~~ 131 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFY--AELTAGLTEALEAQG-RMVFLLQG-GKDG------EQLAQRFSTLLNQGVDGVVI-AGAAG 131 (342)
T ss_pred CCCEEEEEeCCCccchH--HHHHHHHHHHHHHcC-CEEEEEeC-CCCH------HHHHHHHHHHHhCCCCEEEE-eCCCC
Confidence 44578888864 4566 677888999999999 76543211 1111 34566777888888999998 54333
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
.....++.+.+.+.
T Consensus 132 ~~~~~~~~l~~~~i 145 (342)
T PRK10014 132 SSDDLREMAEEKGI 145 (342)
T ss_pred CcHHHHHHHhhcCC
Confidence 34566777777765
No 409
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=44.93 E-value=82 Score=32.84 Aligned_cols=81 Identities=15% Similarity=0.108 Sum_probs=51.0
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
+-+.|+++..+ ++|. ..+.+.+.+.+++.| ..+..... ... .....+.++.+.+.+.|.|++ .....
T Consensus 60 ~~~~Igvv~~~~~~~~~--~~l~~gi~~~~~~~g-~~~~~~~~--~~~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~ 128 (328)
T PRK11303 60 RTRSIGLIIPDLENTSY--ARIAKYLERQARQRG-YQLLIACS--DDQ-----PDNEMRCAEHLLQRQVDALIV-STSLP 128 (328)
T ss_pred CCceEEEEeCCCCCchH--HHHHHHHHHHHHHcC-CEEEEEeC--CCC-----HHHHHHHHHHHHHcCCCEEEE-cCCCC
Confidence 44678888764 4455 667788999999999 77754321 111 123445677777778999988 54322
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
.....++++.+.+.
T Consensus 129 ~~~~~~~~l~~~~i 142 (328)
T PRK11303 129 PEHPFYQRLQNDGL 142 (328)
T ss_pred CChHHHHHHHhcCC
Confidence 22345666666664
No 410
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=44.93 E-value=3.4e+02 Score=27.34 Aligned_cols=70 Identities=7% Similarity=0.041 Sum_probs=47.8
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+.. +.. +.+.. +....++..|.+|++|+++...... .. .+ ...|+....+++++++..
T Consensus 101 ~~~l~~~l~~f~~~~P~v~--v~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~-~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 101 ECMLTPWLGRLYQNQEALQ--FEARI--AQRQSLVKQLHERQLDLLITTEAPK--MD-EF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred HHHHHHHHHHHHHhCCCcE--EEEEE--CChHHHHHHHHcCCCCEEEEcCCCc--cC-Cc-cEEEecceeEEEEecCch
Confidence 466778888887765 544 44333 2456799999999999999754332 22 23 346888888888887654
No 411
>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=44.83 E-value=1.1e+02 Score=31.11 Aligned_cols=79 Identities=10% Similarity=0.010 Sum_probs=51.4
Q ss_pred eEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh-hH
Q 004136 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL-DM 244 (771)
Q Consensus 168 ~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~-~~ 244 (771)
++|+++..+ ++|. ....+.+.+.+++.| ..+.... . .. + .+...+.++.+.+.+.|.|++ .... ..
T Consensus 1 ~~ig~i~~~~~~~~~--~~~~~gi~~~a~~~g-y~~~~~~--~-~~---~-~~~~~~~i~~l~~~~vdgiil-~~~~~~~ 69 (280)
T cd06315 1 KNIIFVASDLKNGGI--LGVGEGVREAAKAIG-WNLRILD--G-RG---S-EAGQAAALNQAIALKPDGIVL-GGVDAAE 69 (280)
T ss_pred CeEEEEecccCCcHH--HHHHHHHHHHHHHcC-cEEEEEC--C-CC---C-HHHHHHHHHHHHHcCCCEEEE-cCCCHHH
Confidence 467777765 3455 667888999999999 7765432 1 11 1 134567788888889999999 5432 32
Q ss_pred HHHHHHHHHHcCC
Q 004136 245 TIHLFTEANRMGL 257 (771)
Q Consensus 245 ~~~il~~a~~~g~ 257 (771)
....++.+.+.+.
T Consensus 70 ~~~~~~~~~~~~i 82 (280)
T cd06315 70 LQAELELAQKAGI 82 (280)
T ss_pred HHHHHHHHHHCCC
Confidence 3455666776665
No 412
>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=44.69 E-value=87 Score=31.35 Aligned_cols=75 Identities=12% Similarity=0.148 Sum_probs=47.3
Q ss_pred EEEEEEe-----CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhH
Q 004136 170 VAAIYED-----NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (771)
Q Consensus 170 v~ii~~~-----~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~ 244 (771)
|+++..+ ++|. ..+.+.+++.+++.| .++..... .... ......+..+.+.++|.|++ ......
T Consensus 2 vgv~~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiii-~~~~~~ 70 (268)
T cd06277 2 IGLIASKRILNSPAFY--SEIYRAIEEEAKKYG-YNLILKFV-SDED------EEEFELPSFLEDGKVDGIIL-LGGIST 70 (268)
T ss_pred eEEEEeccccccCCcH--HHHHHHHHHHHHHcC-CEEEEEeC-CCCh------HHHHHHHHHHHHCCCCEEEE-eCCCCh
Confidence 5666655 5566 778889999999999 77654431 1111 22344555666778999998 553332
Q ss_pred HHHHHHHHHHcCC
Q 004136 245 TIHLFTEANRMGL 257 (771)
Q Consensus 245 ~~~il~~a~~~g~ 257 (771)
..++.+.+.+.
T Consensus 71 --~~~~~l~~~~i 81 (268)
T cd06277 71 --EYIKEIKELGI 81 (268)
T ss_pred --HHHHHHhhcCC
Confidence 23677777765
No 413
>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=44.39 E-value=2e+02 Score=24.61 Aligned_cols=63 Identities=11% Similarity=0.116 Sum_probs=42.4
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC----hhHHHHHHHHHHHcCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LDMTIHLFTEANRMGL 257 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~----~~~~~~il~~a~~~g~ 257 (771)
.-...-+...++..| +++.+.. ... .....++.+.+.++++|.+ ++. ...+..+++++++.+.
T Consensus 13 ~lG~~~~~~~l~~~G-~~V~~lg---~~~-------~~~~l~~~~~~~~pdvV~i-S~~~~~~~~~~~~~i~~l~~~~~ 79 (119)
T cd02067 13 DIGKNIVARALRDAG-FEVIDLG---VDV-------PPEEIVEAAKEEDADAIGL-SGLLTTHMTLMKEVIEELKEAGL 79 (119)
T ss_pred hHHHHHHHHHHHHCC-CEEEECC---CCC-------CHHHHHHHHHHcCCCEEEE-eccccccHHHHHHHHHHHHHcCC
Confidence 444778888899999 8875432 111 2455666677789999998 664 2456667777777754
No 414
>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=43.78 E-value=71 Score=32.18 Aligned_cols=78 Identities=12% Similarity=0.061 Sum_probs=49.6
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMT 245 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~ 245 (771)
++++|..+ ++|. ....+.+.+.+++.| +++.... ... ++ ....+.++++.+.++|.|++ .. .....
T Consensus 1 ~i~vi~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~---~~~---~~-~~~~~~i~~~~~~~~dgiii-~~~~~~~~ 69 (277)
T cd06319 1 QIAYIVSDLRIPFW--QIMGRGVKSKAKALG-YDAVELS---AEN---SA-KKELENLRTAIDKGVSGIII-SPTNSSAA 69 (277)
T ss_pred CeEEEeCCCCchHH--HHHHHHHHHHHHhcC-CeEEEec---CCC---CH-HHHHHHHHHHHhcCCCEEEE-cCCchhhh
Confidence 35666653 4565 677888999999999 7775321 111 11 23446677777778999987 44 33334
Q ss_pred HHHHHHHHHcCC
Q 004136 246 IHLFTEANRMGL 257 (771)
Q Consensus 246 ~~il~~a~~~g~ 257 (771)
...++.+.+.|.
T Consensus 70 ~~~l~~~~~~~i 81 (277)
T cd06319 70 VTLLKLAAQAKI 81 (277)
T ss_pred HHHHHHHHHCCC
Confidence 566777887775
No 415
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=43.76 E-value=2e+02 Score=25.60 Aligned_cols=73 Identities=15% Similarity=0.136 Sum_probs=51.5
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec----ChhHHHHHHHHHHHcCCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA----SLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~----~~~~~~~il~~a~~~g~~ 258 (771)
....+.+...++.+| ++|..--. . ......++..++.++++|-+ .+ +......+.+.+++.|+.
T Consensus 15 diGk~iv~~~l~~~G-feVi~LG~---~-------v~~e~~v~aa~~~~adiVgl-S~l~~~~~~~~~~~~~~l~~~gl~ 82 (134)
T TIGR01501 15 AVGNKILDHAFTNAG-FNVVNLGV---L-------SPQEEFIKAAIETKADAILV-SSLYGHGEIDCKGLRQKCDEAGLE 82 (134)
T ss_pred hHhHHHHHHHHHHCC-CEEEECCC---C-------CCHHHHHHHHHHcCCCEEEE-ecccccCHHHHHHHHHHHHHCCCC
Confidence 444788899999999 88876432 1 12566777888889999987 54 345577888889999986
Q ss_pred CCCeEEEeeCc
Q 004136 259 GKDSVWIVTNT 269 (771)
Q Consensus 259 ~~~~~~i~~~~ 269 (771)
.. .|+.+..
T Consensus 83 ~~--~vivGG~ 91 (134)
T TIGR01501 83 GI--LLYVGGN 91 (134)
T ss_pred CC--EEEecCC
Confidence 54 4555443
No 416
>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=43.69 E-value=93 Score=31.02 Aligned_cols=77 Identities=12% Similarity=0.064 Sum_probs=50.7
Q ss_pred EEEEEE--eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~--~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++.. +++|. ....+.+.+++++.| +.+..... ..+. ....+.++.+.+.+.|.|++ ...... ..
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiIi-~~~~~~-~~ 69 (265)
T cd06299 2 IGVIVPDIRNPYF--ASLATAIQDAASAAG-YSTIIGNS-DENP------ETENRYLDNLLSQRVDGIIV-VPHEQS-AE 69 (265)
T ss_pred EEEEecCCCCccH--HHHHHHHHHHHHHcC-CEEEEEeC-CCCH------HHHHHHHHHHHhcCCCEEEE-cCCCCC-hH
Confidence 566665 34566 777889999999999 77664321 1111 34556777888889999998 543322 24
Q ss_pred HHHHHHHcCCC
Q 004136 248 LFTEANRMGLV 258 (771)
Q Consensus 248 il~~a~~~g~~ 258 (771)
.++++.+.|.+
T Consensus 70 ~~~~l~~~~ip 80 (265)
T cd06299 70 QLEDLLKRGIP 80 (265)
T ss_pred HHHHHHhCCCC
Confidence 47888887753
No 417
>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=43.64 E-value=1.7e+02 Score=31.55 Aligned_cols=91 Identities=14% Similarity=0.085 Sum_probs=56.6
Q ss_pred HHHHHHHHHc---CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc
Q 004136 156 KCIADLARKY---NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (771)
Q Consensus 156 ~a~~~~l~~~---~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~ 232 (771)
..+.++++.+ +.+++.++++..... ..+..+.+.+.+++.| +++.....+..+. + .++....++.+++.++
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~-~~g~~~~v~~~L~~~g-i~~~~f~~v~~~p--~--~~~v~~~~~~~~~~~~ 85 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYK-KSGAWDKVEPALDEHG-IEYVLYNKVTPNP--T--VDQVDEAAKLGREFGA 85 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHh-hcChHHHHHHHHHHcC-CeEEEeCCCCCCC--C--HHHHHHHHHHHHHcCC
Confidence 4456667766 778999988755431 0334688889999888 6554322222222 1 1567788888888899
Q ss_pred eEEEE-EecChhHHHHHHHHH
Q 004136 233 RVFIV-LQASLDMTIHLFTEA 252 (771)
Q Consensus 233 ~vIv~-~~~~~~~~~~il~~a 252 (771)
|+||- ..++.-++.+++...
T Consensus 86 D~IIaiGGGS~iD~aK~ia~~ 106 (383)
T cd08186 86 QAVIAIGGGSPIDSAKSAAIL 106 (383)
T ss_pred CEEEEeCCccHHHHHHHHHHH
Confidence 99995 123445566555543
No 418
>TIGR00363 lipoprotein, YaeC family. This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family.
Probab=43.28 E-value=49 Score=33.33 Aligned_cols=55 Identities=24% Similarity=0.192 Sum_probs=32.6
Q ss_pred CcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE
Q 004136 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (771)
Q Consensus 33 ~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi 102 (771)
.+||||+..... ...++.+.+.+.++ -|++++++..++...+..|+. ..++++-+
T Consensus 18 ~~l~vG~~~~~~---~~~~~~~~~~~~~~-----~G~~Ve~~~f~d~~~~~~Al~-------~G~ID~~~ 72 (258)
T TIGR00363 18 LHIKVGVISGAE---QQVAEVAAKVAKEK-----YGLDVELVEFNDYALPNEAVS-------KGDLDANA 72 (258)
T ss_pred CcEEEEeCCCCh---HHHHHHHHHHHHHh-----cCCEEEEEEeCCcHHHHHHHH-------cCCCCeEe
Confidence 579999875432 12233333332221 279999999887766555553 56677643
No 419
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=43.23 E-value=1.4e+02 Score=27.64 Aligned_cols=84 Identities=13% Similarity=0.122 Sum_probs=52.7
Q ss_pred CCeEEEEEEEeCCCCC-CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-CCceEEEEEecCh-
Q 004136 166 NWRRVAAIYEDNVYGG-DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVLQASL- 242 (771)
Q Consensus 166 ~w~~v~ii~~~~~~g~-~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~~vIv~~~~~~- 242 (771)
..-++++|...|.-+. .+.....+...+++.| .++.....++.+. ..+.+.+++..+ .++|+|+. .+..
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G-~~v~~~~iv~Dd~------~~i~~~l~~~~~~~~~DlVIt-tGGtg 74 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAG-HRLADRAIVKDDI------YQIRAQVSAWIADPDVQVILI-TGGTG 74 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCC-CeEEEEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CCCcC
Confidence 3457888876664220 0233567888899999 8888777666544 667888877753 57999998 5422
Q ss_pred ----hHHHHHHHHHHHcCC
Q 004136 243 ----DMTIHLFTEANRMGL 257 (771)
Q Consensus 243 ----~~~~~il~~a~~~g~ 257 (771)
+.+...+..+-+..+
T Consensus 75 ~g~~D~t~eal~~l~~~~l 93 (163)
T TIGR02667 75 FTGRDVTPEALEPLFDKTV 93 (163)
T ss_pred CCCCCCcHHHHHHHHCCcC
Confidence 334555555443333
No 420
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=43.09 E-value=1.3e+02 Score=30.88 Aligned_cols=80 Identities=6% Similarity=0.043 Sum_probs=53.2
Q ss_pred CeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-Chh
Q 004136 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLD 243 (771)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~ 243 (771)
-+.++++..+ ++|. ....+.+.+++++.| +++..... ..+. ......++++.+.+++.|++ .. ...
T Consensus 26 ~~~I~vi~~~~~~~f~--~~~~~~i~~~~~~~G-~~~~~~~~-~~d~------~~~~~~~~~l~~~~~dgiii-~~~~~~ 94 (295)
T PRK10653 26 KDTIALVVSTLNNPFF--VSLKDGAQKEADKLG-YNLVVLDS-QNNP------AKELANVQDLTVRGTKILLI-NPTDSD 94 (295)
T ss_pred CCeEEEEecCCCChHH--HHHHHHHHHHHHHcC-CeEEEecC-CCCH------HHHHHHHHHHHHcCCCEEEE-cCCChH
Confidence 5688888864 4455 777888999999999 77754221 1111 33556677777778998877 44 334
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
.....++.+.+.|.
T Consensus 95 ~~~~~l~~~~~~~i 108 (295)
T PRK10653 95 AVGNAVKMANQANI 108 (295)
T ss_pred HHHHHHHHHHHCCC
Confidence 44466778887775
No 421
>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=43.08 E-value=2.4e+02 Score=25.02 Aligned_cols=64 Identities=11% Similarity=0.143 Sum_probs=47.0
Q ss_pred cchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh----hHHHHHHHHHHHcCCC
Q 004136 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL----DMTIHLFTEANRMGLV 258 (771)
Q Consensus 183 ~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~----~~~~~il~~a~~~g~~ 258 (771)
....+.+...|+..| ++|.....+. .....++..++.++++|.+ ++.. .....+++++++.|..
T Consensus 16 d~g~~iv~~~l~~~G-feVi~lg~~~----------s~e~~v~aa~e~~adii~i-Ssl~~~~~~~~~~~~~~L~~~g~~ 83 (132)
T TIGR00640 16 DRGAKVIATAYADLG-FDVDVGPLFQ----------TPEEIARQAVEADVHVVGV-SSLAGGHLTLVPALRKELDKLGRP 83 (132)
T ss_pred HHHHHHHHHHHHhCC-cEEEECCCCC----------CHHHHHHHHHHcCCCEEEE-cCchhhhHHHHHHHHHHHHhcCCC
Confidence 555788889999999 8887654331 2456677778889999999 7644 4577778888888863
No 422
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=43.06 E-value=1.5e+02 Score=30.25 Aligned_cols=68 Identities=18% Similarity=0.270 Sum_probs=42.5
Q ss_pred CCChhHhh---h---CCceEEEec-ChHHH---HHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHHHHH
Q 004136 673 VTDIQSLK---S---GNLKVGCVD-DSFVK---KYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (771)
Q Consensus 673 i~~~~dL~---~---~~~~~g~~~-~s~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~~~~ 742 (771)
++|++||. + ..+++|+.. ++..+ ..+.+..+.+ -+.+.|.. -.+.+.+|..|++|+.+.....+.-++
T Consensus 90 ~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G-~~~~~~allgG~vd~~~~~~~~~~~~~ 167 (274)
T PF03401_consen 90 YKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDG-GAEALTALLGGHVDAAFGSPGEALPYV 167 (274)
T ss_dssp -SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SS-HHHHHHHHHTTSSSEEEEEHHHHHHHH
T ss_pred cccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCC-ccHHHHHHhCCeeeEEeecHHHHHHHH
Confidence 89999985 2 347888853 33222 2334434443 34568888 899999999999999998766555444
No 423
>PRK00072 hemC porphobilinogen deaminase; Reviewed
Probab=43.04 E-value=3.3e+02 Score=27.97 Aligned_cols=62 Identities=16% Similarity=0.166 Sum_probs=39.3
Q ss_pred CChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHH
Q 004136 674 TDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK 739 (771)
Q Consensus 674 ~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~ 739 (771)
.+++||.+ |.+||+-.---.. .++.. ++.-+++....+.+.-++++.+|+.||.+.-..=++
T Consensus 113 ~~l~~Lp~-ga~IGTsS~RR~a-ql~~~--~Pdl~~~~iRGNV~TRL~KL~~g~~DaivLA~AGL~ 174 (295)
T PRK00072 113 KSLDDLPE-GAVVGTSSLRRQA-QLLAL--RPDLEIKPLRGNVDTRLRKLDEGEYDAIILAAAGLK 174 (295)
T ss_pred CChhHCCC-CCEEecCcHHHHH-HHHHH--CcCCEEEECccCHHHHHHHhhCCCCCEeehHhhHHH
Confidence 56777753 6678763221111 22221 455566666655888999999999999887655544
No 424
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=42.80 E-value=1.5e+02 Score=31.12 Aligned_cols=46 Identities=15% Similarity=0.187 Sum_probs=33.5
Q ss_pred cchHHHHHHHHHHCCCcc-cEEEecCCCChHHHHHHHhcccccEEEeeEee
Q 004136 489 GFSIELFRLVVDHLNYDL-PYEFVPHDGVYDDLINGVYDKTYDAAVGDLTI 538 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~-~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~ 538 (771)
-+.-.+++.+.+.+|+++ ++.... -.-+...|.+|.+|+.......
T Consensus 42 ~~~t~v~~~iLe~~GY~V~e~~~~~----~~~~~~ala~GdiDv~~~~W~P 88 (331)
T PRK11119 42 TFQTLLVSRALEKLGYDVNKPKEVD----YNVFYTSIANGDATFTAVNWFP 88 (331)
T ss_pred HHHHHHHHHHHHHcCCceeeecccC----cHHHHHHHHcCCCeEehhhccc
Confidence 466678888888899885 444322 2568899999999998765554
No 425
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=42.65 E-value=2.8e+02 Score=25.65 Aligned_cols=69 Identities=10% Similarity=0.071 Sum_probs=45.2
Q ss_pred cchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 489 G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.+-.+++..+.++. +.+ +++.. +....+..+|.+|++|+++... ......+. +.++....+.++++...
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~~h 82 (197)
T cd08452 13 EFLPPIVREYRKKFPSVK--VELRE--LSSPDQVEELLKGRIDIGFLHP---PIQHTALH-IETVQSSPCVLALPKQH 82 (197)
T ss_pred hHHHHHHHHHHHHCCCcE--EEEEe--cChHHHHHHHHCCCccEEEeeC---CCCCCCee-EEEeeeccEEEEEeCCC
Confidence 45567788887776 444 44443 3567799999999999998632 22222233 35777778888877654
No 426
>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=42.61 E-value=80 Score=31.84 Aligned_cols=83 Identities=14% Similarity=0.085 Sum_probs=50.3
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHH
Q 004136 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (771)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~ 246 (771)
+|+++..+ ++|. ....+.+.+++++.| ..+.......... .++ ....+.++.+.+ ++|.|++.........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~--~~~-~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFY--RELAAALEAAAAAFP-DARIRVRIHFVES--FDP-AALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHH--HHHHHHHHHHHhhhh-ccCceEEEEEccC--CCH-HHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 46777764 3465 677888889998887 5544332211111 011 335567777777 8999888233334445
Q ss_pred HHHHHHHHcCCC
Q 004136 247 HLFTEANRMGLV 258 (771)
Q Consensus 247 ~il~~a~~~g~~ 258 (771)
..++++.+.|.+
T Consensus 74 ~~i~~~~~~~ip 85 (275)
T cd06307 74 AAVARLAAAGVP 85 (275)
T ss_pred HHHHHHHHCCCc
Confidence 778888887753
No 427
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=42.44 E-value=86 Score=34.38 Aligned_cols=25 Identities=16% Similarity=0.274 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEEEe
Q 004136 52 ITAMKIAVQNFNSDSRNHKLSLQIR 76 (771)
Q Consensus 52 ~~a~~~Av~~iN~~~~g~~i~l~~~ 76 (771)
...++-.+++.|+..++++|+++..
T Consensus 47 ~~~~~~~~~~F~~~~~~i~V~~~~~ 71 (437)
T TIGR03850 47 TKMWEEVVEAFEKSHEGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHHCCCceEEEEeC
Confidence 3456778889998878899998764
No 428
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=42.37 E-value=96 Score=30.13 Aligned_cols=87 Identities=14% Similarity=0.171 Sum_probs=51.8
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH-HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHH
Q 004136 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVA-EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (771)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~-~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~ 159 (771)
++...+..+.+-+.+-|...++-|. .++..++ ++-+..+||+|+. .++.+
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~--NT~H~~~d~iq~~~~iPllhI---------------------------idaTa 109 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPT--NTMHKVADDIQKAVGIPLLHI---------------------------IDATA 109 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeC--CcHHHHHHHHHHhcCCCeehH---------------------------HHHHH
Confidence 4555555544444477888887543 3444444 3444678888742 34555
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEE
Q 004136 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (771)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~ 202 (771)
+-+++-|.++++++.....-- ...+++.+++.| ++++
T Consensus 110 ~~ik~~g~kkvgLLgT~~Tm~-----~~fY~~~l~~~g-ievv 146 (230)
T COG1794 110 KAIKAAGAKKVGLLGTRFTME-----QGFYRKRLEEKG-IEVV 146 (230)
T ss_pred HHHHhcCCceeEEeeccchHH-----hHHHHHHHHHCC-ceEe
Confidence 666667778888887653321 344566777777 6554
No 429
>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=42.34 E-value=71 Score=32.13 Aligned_cols=78 Identities=12% Similarity=0.095 Sum_probs=48.6
Q ss_pred EEEEEE-eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHH
Q 004136 170 VAAIYE-DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHL 248 (771)
Q Consensus 170 v~ii~~-~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~i 248 (771)
|++|.. .++|. ..+...+.+++++.| ..+.... .... + .....+.+..+.+.++|.+++...........
T Consensus 2 i~~v~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~~~---~-~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 72 (271)
T cd06314 2 IAVVTNGASPFW--KIAEAGVKAAGKELG-VDVEFVV--PQQG---T-VNAQLRMLEDLIAEGVDGIAISPIDPKAVIPA 72 (271)
T ss_pred eEEEcCCCcHHH--HHHHHHHHHHHHHcC-CeEEEeC--CCCC---C-HHHHHHHHHHHHhcCCCEEEEecCChhHhHHH
Confidence 455553 34465 777888999999999 7765432 1111 1 13355677778888999999823333334567
Q ss_pred HHHHHHcCC
Q 004136 249 FTEANRMGL 257 (771)
Q Consensus 249 l~~a~~~g~ 257 (771)
++++.+ +.
T Consensus 73 l~~~~~-~i 80 (271)
T cd06314 73 LNKAAA-GI 80 (271)
T ss_pred HHHHhc-CC
Confidence 777765 54
No 430
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=42.21 E-value=93 Score=32.43 Aligned_cols=83 Identities=8% Similarity=0.087 Sum_probs=55.8
Q ss_pred eEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHH
Q 004136 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (771)
Q Consensus 168 ~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~ 245 (771)
.++++++.. ++|. ....+.++++.++.| .. ......+... |. ..-.+++..+...++|.|++...++...
T Consensus 34 ~~i~~~~~~~~~~f~--~~~~~g~~~~a~~~g-~~-~~~~~~~~~~---d~-~~Q~~~i~~~ia~~~daIiv~~~d~~~~ 105 (322)
T COG1879 34 KTIGVVVPTLGNPFF--QAVRKGAEAAAKKLG-VV-VAVVIADAQN---DV-AKQIAQIEDLIAQGVDAIIINPVDPDAL 105 (322)
T ss_pred ceEEEEeccCCChHH--HHHHHHHHHHHHHcC-Cc-EEEEeccccc---Ch-HHHHHHHHHHHHcCCCEEEEcCCChhhh
Confidence 567777764 4566 777788888888888 51 1122111111 11 2244455666667899999867888999
Q ss_pred HHHHHHHHHcCCC
Q 004136 246 IHLFTEANRMGLV 258 (771)
Q Consensus 246 ~~il~~a~~~g~~ 258 (771)
...+++|.+.|.+
T Consensus 106 ~~~v~~a~~aGIp 118 (322)
T COG1879 106 TPAVKKAKAAGIP 118 (322)
T ss_pred HHHHHHHHHCCCc
Confidence 9999999999974
No 431
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=42.10 E-value=2.7e+02 Score=25.61 Aligned_cols=71 Identities=15% Similarity=0.075 Sum_probs=45.0
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.++. +.+ +++... ..+.++.++.+|++|+++...... ....+ -+.++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--i~i~~~--~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~h 83 (195)
T cd08431 12 LQPLYPLIAEFYQLNKATR--IRLSEE--VLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAPNH 83 (195)
T ss_pred hHHHHHHHHHHHHHCCCCc--eEEEEe--ccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcCCC
Confidence 356778888888887 555 444332 345689999999999998632111 11122 235666777777776654
No 432
>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=42.06 E-value=1.2e+02 Score=29.10 Aligned_cols=74 Identities=20% Similarity=0.195 Sum_probs=46.0
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEE
Q 004136 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (771)
Q Consensus 157 a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv 236 (771)
.++..++.. .++|+++..|.- = .+..+.++.+.+..| +.+..... ..|+.....+.+++.++.+.|+|+
T Consensus 20 KLAa~~~~~-~~~v~lis~D~~-R--~ga~eQL~~~a~~l~-vp~~~~~~------~~~~~~~~~~~l~~~~~~~~D~vl 88 (196)
T PF00448_consen 20 KLAARLKLK-GKKVALISADTY-R--IGAVEQLKTYAEILG-VPFYVART------ESDPAEIAREALEKFRKKGYDLVL 88 (196)
T ss_dssp HHHHHHHHT-T--EEEEEESTS-S--THHHHHHHHHHHHHT-EEEEESST------TSCHHHHHHHHHHHHHHTTSSEEE
T ss_pred HHHHHHhhc-cccceeecCCCC-C--ccHHHHHHHHHHHhc-cccchhhc------chhhHHHHHHHHHHHhhcCCCEEE
Confidence 334444434 688999997754 3 667899999999999 55433211 112223455677888878899999
Q ss_pred EEecCh
Q 004136 237 VLQASL 242 (771)
Q Consensus 237 ~~~~~~ 242 (771)
+ ...+
T Consensus 89 I-DT~G 93 (196)
T PF00448_consen 89 I-DTAG 93 (196)
T ss_dssp E-EE-S
T ss_pred E-ecCC
Confidence 9 6654
No 433
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=41.97 E-value=3.5e+02 Score=30.61 Aligned_cols=141 Identities=16% Similarity=0.267 Sum_probs=85.3
Q ss_pred EEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecC
Q 004136 71 LSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASN 150 (771)
Q Consensus 71 i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~ 150 (771)
.++.+.+. .-..+++.+.+.+..+++++||.-+++. ..+. +...||+|....+ .|
T Consensus 40 ~~~~~~~~--~~~~~v~~~~~~~~~~~~dviIsrG~ta--~~i~---~~~~iPVv~i~~s---------~~--------- 94 (538)
T PRK15424 40 ANITPIQL--GFEKAVTYIRKRLATERCDAIIAAGSNG--AYLK---SRLSVPVILIKPS---------GF--------- 94 (538)
T ss_pred ceEEehhh--hHHHHHHHHHHHHhhCCCcEEEECchHH--HHHH---hhCCCCEEEecCC---------Hh---------
Confidence 33443343 4667888885544377999999765543 2222 3468999976654 11
Q ss_pred cHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC
Q 004136 151 DSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (771)
Q Consensus 151 ~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~ 230 (771)
...+++ ..++.++ .++++|...+.. ...+.+.+.+ + +.+..... .. . .+...++.++++.
T Consensus 95 --Dil~al-~~a~~~~-~~iavv~~~~~~----~~~~~~~~~l---~-~~i~~~~~-~~-~------~e~~~~v~~lk~~ 154 (538)
T PRK15424 95 --DVMQAL-ARARKLT-SSIGVVTYQETI----PALVAFQKTF---N-LRIEQRSY-VT-E------EDARGQINELKAN 154 (538)
T ss_pred --HHHHHH-HHHHhcC-CcEEEEecCccc----HHHHHHHHHh---C-CceEEEEe-cC-H------HHHHHHHHHHHHC
Confidence 133443 3335655 578888765542 1156666655 3 44443322 11 1 5799999999999
Q ss_pred CceEEEEEecChhHHHHHHHHHHHcCCCCCCeEEEe
Q 004136 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (771)
Q Consensus 231 ~~~vIv~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (771)
+.++||- ... ....|.+.|+.+ +++.
T Consensus 155 G~~~vvG-~~~------~~~~A~~~g~~g---~~~~ 180 (538)
T PRK15424 155 GIEAVVG-AGL------ITDLAEEAGMTG---IFIY 180 (538)
T ss_pred CCCEEEc-Cch------HHHHHHHhCCce---EEec
Confidence 9999887 322 246788899887 4554
No 434
>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=41.53 E-value=71 Score=31.39 Aligned_cols=78 Identities=14% Similarity=0.119 Sum_probs=50.5
Q ss_pred EEEEEEEeC---CCCCCcchHHHHHHHHhc--cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 169 RVAAIYEDN---VYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 169 ~v~ii~~~~---~~g~~~~~~~~l~~~~~~--~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
+|+++.... .++ ....+.+++.+++ .+ +++..... ... ..+....++++.+.+++.|++ .....
T Consensus 1 ~Ig~i~~~~~~~~~~--~~~~~~~~~~~~~~g~~-~~~~~~~~--~~~-----~~~~~~~~~~~~~~~~d~ii~-~~~~~ 69 (269)
T cd01391 1 KIGVLLPLSGSAPFG--AQLLAGIELAAEEIGRG-LEVILADS--QSD-----PERALEALRDLIQQGVDGIIG-PPSSS 69 (269)
T ss_pred CceEEeecCCCcHHH--HHHHHHHHHHHHHhCCc-eEEEEecC--CCC-----HHHHHHHHHHHHHcCCCEEEe-cCCCH
Confidence 366777643 466 6777888888888 66 55543321 111 134667777787778999998 65555
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
....+...+.+.+.
T Consensus 70 ~~~~~~~~~~~~~i 83 (269)
T cd01391 70 SALAVVELAAAAGI 83 (269)
T ss_pred HHHHHHHHHHHcCC
Confidence 54447777777765
No 435
>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=41.24 E-value=96 Score=32.94 Aligned_cols=85 Identities=12% Similarity=0.088 Sum_probs=55.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.+.++.++ +++.++++...+ ....+.+.+.+++.| +.+.+.. +..... .++....++.+++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~---~~~~~~v~~~L~~~~-i~~~~~~-~~~~p~----~~~v~~~~~~~~~~~~D~I 81 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL---DLVGAKIEESLAAAG-IDARFEV-FGGECT----RAEIERLAEIARDNGADVV 81 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCcCC----HHHHHHHHHHHhhcCCCEE
Confidence 44666777775 888888854443 456788888999888 7765332 333321 2567788888888899999
Q ss_pred EEEecCh--hHHHHHHHH
Q 004136 236 IVLQASL--DMTIHLFTE 251 (771)
Q Consensus 236 v~~~~~~--~~~~~il~~ 251 (771)
|- .+.+ -++.+++..
T Consensus 82 Ia-vGGGS~iD~aK~ia~ 98 (351)
T cd08170 82 IG-IGGGKTLDTAKAVAD 98 (351)
T ss_pred EE-ecCchhhHHHHHHHH
Confidence 87 4433 344444443
No 436
>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=41.11 E-value=2.5e+02 Score=29.80 Aligned_cols=103 Identities=13% Similarity=0.068 Sum_probs=61.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce--
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR-- 233 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~-- 233 (771)
..+.++++.++.+++.++++...+ ....+.+.+.+++.| +++... .++...... +.+.+...+..+++.++|
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~---~~~~~~l~~~L~~~g-~~~~~~-~~~~~e~~k-~~~~v~~~~~~~~~~~~dr~ 85 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE---DLYGHRLLEYLREAG-APVELL-SVPSGEEHK-TLSTLSDLVERALALGATRR 85 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhcC-CceEEE-EeCCCCCCC-CHHHHHHHHHHHHHcCCCCC
Confidence 345566777777899988876654 446788889999888 654332 233322111 124577888888888887
Q ss_pred -EEEEEec--ChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 234 -VFIVLQA--SLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 234 -vIv~~~~--~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+|+. .+ ...++..++......| ..++.|-|.
T Consensus 86 ~~IIA-vGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 86 SVIVA-LGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred cEEEE-ECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 6665 33 3345555555444333 334555543
No 437
>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=40.34 E-value=1.5e+02 Score=28.85 Aligned_cols=83 Identities=16% Similarity=0.133 Sum_probs=54.4
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCC-CCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
-+||++.|.. .+.. ...++...- +.++.+...... ++.....+++++|. +++..+|+-.--..+...=
T Consensus 126 ~~vGVivP~~----eQ~~----~~~~kW~~l--~~~~~~a~asPy~~~~~~l~~Aa~~L~-~~gadlIvLDCmGYt~~~r 194 (221)
T PF07302_consen 126 HQVGVIVPLP----EQIA----QQAEKWQPL--GNPVVVAAASPYEGDEEELAAAARELA-EQGADLIVLDCMGYTQEMR 194 (221)
T ss_pred CeEEEEecCH----HHHH----HHHHHHHhc--CCCeEEEEeCCCCCCHHHHHHHHHHHH-hcCCCEEEEECCCCCHHHH
Confidence 6799999995 2222 223333333 356677777765 77888888888887 7888888865444444444
Q ss_pred HHhhccCCccEEeec
Q 004136 114 AEIASRVQVPILSFA 128 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~ 128 (771)
..+.+..++|+|-..
T Consensus 195 ~~~~~~~g~PVlLsr 209 (221)
T PF07302_consen 195 DIVQRALGKPVLLSR 209 (221)
T ss_pred HHHHHHhCCCEEeHH
Confidence 456667899988543
No 438
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=40.16 E-value=4.5e+02 Score=27.39 Aligned_cols=71 Identities=7% Similarity=-0.102 Sum_probs=47.2
Q ss_pred cchHHHHHHHHHHCC-CcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~-f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+-.+++..+.+++. .+ +.+.. +..+.++..|.+|++|+++....... ..... ..|++...+.++++...+
T Consensus 106 ~~l~~~l~~f~~~~P~v~--i~l~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~--~~~~~-~~~l~~~~~~l~~~~~hp 177 (327)
T PRK12680 106 FVLPPAVAQIKQAYPQVS--VHLQQ--AAESAALDLLGQGDADIAIVSTAGGE--PSAGI-AVPLYRWRRLVVVPRGHA 177 (327)
T ss_pred HhhHHHHHHHHHHCCCcE--EEEEe--CChHHHHHHHHCCCCcEEEEecCCCC--CCcce-EEEeeccceEEEEeCCCh
Confidence 456788888888774 44 44444 24678999999999999986322111 11122 468888888888876653
No 439
>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=40.15 E-value=2.4e+02 Score=27.43 Aligned_cols=87 Identities=15% Similarity=0.128 Sum_probs=58.1
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC----hh
Q 004136 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LD 243 (771)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~----~~ 243 (771)
.++.+....++.- .-...-+...++..| +++.+--. +. .....+..+++.+|++|.+ .+. ..
T Consensus 89 ~~vvl~t~~gd~H--diG~~iv~~~l~~~G-~~Vi~LG~---~v-------p~e~~v~~~~~~~~~~V~l-S~~~~~~~~ 154 (213)
T cd02069 89 GKIVLATVKGDVH--DIGKNLVGVILSNNG-YEVIDLGV---MV-------PIEKILEAAKEHKADIIGL-SGLLVPSLD 154 (213)
T ss_pred CeEEEEeCCCchh--HHHHHHHHHHHHhCC-CEEEECCC---CC-------CHHHHHHHHHHcCCCEEEE-ccchhccHH
Confidence 3555555555543 555788888999999 88876431 11 2456667777889999988 643 45
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 004136 244 MTIHLFTEANRMGLVGKDSVWIVTNTV 270 (771)
Q Consensus 244 ~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (771)
.+..+++++++.+...+ +|+++...
T Consensus 155 ~~~~~i~~L~~~~~~~~--i~vGG~~~ 179 (213)
T cd02069 155 EMVEVAEEMNRRGIKIP--LLIGGAAT 179 (213)
T ss_pred HHHHHHHHHHhcCCCCe--EEEEChhc
Confidence 67788888888877333 66666543
No 440
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=40.15 E-value=1.2e+02 Score=31.78 Aligned_cols=80 Identities=8% Similarity=0.159 Sum_probs=55.0
Q ss_pred CeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecCh-h
Q 004136 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL-D 243 (771)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~-~ 243 (771)
-.+|+++..+ ++|. ....+.+.+++++.| ..+..... .. + .....+.++.+.+.++|.|++ .... .
T Consensus 25 ~~~Ig~i~~~~~~~f~--~~~~~gi~~~a~~~g-~~l~i~~~---~~---~-~~~~~~~i~~l~~~~vDGiIi-~~~~~~ 93 (330)
T PRK10355 25 EVKIGMAIDDLRLERW--QKDRDIFVKKAESLG-AKVFVQSA---NG---N-EETQMSQIENMINRGVDVLVI-IPYNGQ 93 (330)
T ss_pred CceEEEEecCCCchHH--HHHHHHHHHHHHHcC-CEEEEECC---CC---C-HHHHHHHHHHHHHcCCCEEEE-eCCChh
Confidence 4678888753 5577 788899999999999 77664321 11 1 134667788888889999999 5543 3
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
.....++.+.+.+.
T Consensus 94 ~~~~~l~~~~~~~i 107 (330)
T PRK10355 94 VLSNVIKEAKQEGI 107 (330)
T ss_pred hHHHHHHHHHHCCC
Confidence 33456777777764
No 441
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=40.00 E-value=1.2e+02 Score=32.57 Aligned_cols=85 Identities=9% Similarity=0.056 Sum_probs=55.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.+++++ +++.+|++...+ ....+.+.+.++..| +++.... +..... .+.....++.+++.++|+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~---~~~~~~v~~~l~~~~-~~~~~~~-~~~ep~----~~~v~~~~~~~~~~~~d~ 87 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL---GIVGDRVEASLKEAG-LTVVFEV-FNGECS----DNEIDRLVAIAEENGCDV 87 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCCCC----HHHHHHHHHHHHhcCCCE
Confidence 345667778888 899888865544 346788888898888 7664332 333221 246778888888889999
Q ss_pred EEEEecCh--hHHHHHHH
Q 004136 235 FIVLQASL--DMTIHLFT 250 (771)
Q Consensus 235 Iv~~~~~~--~~~~~il~ 250 (771)
||- .+.+ -++.+++.
T Consensus 88 IIa-vGGGsv~D~aK~iA 104 (366)
T PRK09423 88 VIG-IGGGKTLDTAKAVA 104 (366)
T ss_pred EEE-ecChHHHHHHHHHH
Confidence 986 4433 44555544
No 442
>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=39.81 E-value=2.9e+02 Score=27.73 Aligned_cols=120 Identities=14% Similarity=0.044 Sum_probs=68.3
Q ss_pred EEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc-CCeEEEEcCCchHhHHHH
Q 004136 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (771)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~-~~v~aviGp~~s~~~~~v 113 (771)
+||.+.... ......-..|++-|+++.+-. ..+.......+...+.+.+.+++.. .++.+|+.. +...+..+
T Consensus 120 ~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~gv 193 (269)
T cd06287 120 QIALIVGSARRNSYLEAEAAYRAFAAEHGMP-----PVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVP-VDAFAVGA 193 (269)
T ss_pred cEEEEeCCcccccHHHHHHHHHHHHHHcCCC-----cceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHH
Confidence 577775332 223345567888888764221 1222223334556677778888743 357899865 34455556
Q ss_pred HHhhccCCc--c-EEeecC-CCCCCCccCCCCceEEEeecCcHHHHHHHHHHHH
Q 004136 114 AEIASRVQV--P-ILSFAA-PAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (771)
Q Consensus 114 ~~~~~~~~i--P-~Is~~a-~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~ 163 (771)
...+.+.++ | -|+..+ . +........|.+-.+..+....++..++.+.
T Consensus 194 l~al~~~gl~vP~dvsvig~~--d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~ 245 (269)
T cd06287 194 VRAATELGRAVPDQLRVVTRY--DGLRARTSEPPLTAVDLHLDEVAEQAVDLLF 245 (269)
T ss_pred HHHHHHcCCCCCCceEEEecc--CchhhccCCCCcccccCCHHHHHHHHHHHHH
Confidence 565655554 5 233222 2 2333444456677788888888888887763
No 443
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.73 E-value=1.1e+02 Score=30.67 Aligned_cols=77 Identities=10% Similarity=0.067 Sum_probs=49.6
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ..+.+.+.+.+++.| ..+..... ..+. ......++.+.+.+.+.|++ .........
T Consensus 2 Igvv~~~~~~~~~--~~~~~~i~~~a~~~g-~~~~~~~~-~~~~------~~~~~~i~~l~~~~vdgii~-~~~~~~~~~ 70 (269)
T cd06281 2 IGCLVSDITNPLL--AQLFSGAEDRLRAAG-YSLLIANS-LNDP------ERELEILRSFEQRRMDGIII-APGDERDPE 70 (269)
T ss_pred EEEEecCCccccH--HHHHHHHHHHHHHcC-CEEEEEeC-CCCh------HHHHHHHHHHHHcCCCEEEE-ecCCCCcHH
Confidence 5666653 4555 677888999999999 77654321 1111 33566777788888999888 543333345
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
+++.+++.+.
T Consensus 71 ~~~~~~~~~i 80 (269)
T cd06281 71 LVDALASLDL 80 (269)
T ss_pred HHHHHHhCCC
Confidence 6677777664
No 444
>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=39.70 E-value=89 Score=31.19 Aligned_cols=77 Identities=10% Similarity=0.130 Sum_probs=49.5
Q ss_pred EEEEEE--eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecC-hhHHH
Q 004136 170 VAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMTI 246 (771)
Q Consensus 170 v~ii~~--~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~-~~~~~ 246 (771)
|++|.. +++|. ....+.+.+.+++.| +.+.... ... + .......++++.+.+++.|++ ... .....
T Consensus 2 I~vv~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~~---~~~---~-~~~~~~~~~~~~~~~~dgii~-~~~~~~~~~ 70 (268)
T cd06323 2 IGLSVSTLNNPFF--VTLKDGAQKEAKELG-YELTVLD---AQN---D-AAKQLNDIEDLITRGVDAIII-NPTDSDAVV 70 (268)
T ss_pred eeEecccccCHHH--HHHHHHHHHHHHHcC-ceEEecC---CCC---C-HHHHHHHHHHHHHcCCCEEEE-cCCChHHHH
Confidence 455554 34566 777889999999999 7775321 111 1 134566777777778999888 543 33345
Q ss_pred HHHHHHHHcCC
Q 004136 247 HLFTEANRMGL 257 (771)
Q Consensus 247 ~il~~a~~~g~ 257 (771)
..++++.+.+.
T Consensus 71 ~~l~~l~~~~i 81 (268)
T cd06323 71 PAVKAANEAGI 81 (268)
T ss_pred HHHHHHHHCCC
Confidence 67778877765
No 445
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=39.65 E-value=2.8e+02 Score=24.78 Aligned_cols=85 Identities=13% Similarity=0.025 Sum_probs=55.1
Q ss_pred EEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec----ChhH
Q 004136 169 RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA----SLDM 244 (771)
Q Consensus 169 ~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~----~~~~ 244 (771)
++.+....++.- .-....+...++..| +++.+--. . ....+.+..+.+.++++|.+ .+ ....
T Consensus 5 ~vl~~~~~gD~H--~lG~~iv~~~lr~~G-~eVi~LG~---~-------vp~e~i~~~a~~~~~d~V~l-S~~~~~~~~~ 70 (137)
T PRK02261 5 TVVLGVIGADCH--AVGNKILDRALTEAG-FEVINLGV---M-------TSQEEFIDAAIETDADAILV-SSLYGHGEID 70 (137)
T ss_pred EEEEEeCCCChh--HHHHHHHHHHHHHCC-CEEEECCC---C-------CCHHHHHHHHHHcCCCEEEE-cCccccCHHH
Confidence 444444343332 455788888999999 88876432 1 12456667777889999998 65 3456
Q ss_pred HHHHHHHHHHcCCCCCCeEEEeeC
Q 004136 245 TIHLFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 245 ~~~il~~a~~~g~~~~~~~~i~~~ 268 (771)
+..+++++++.+.... .+|+++.
T Consensus 71 ~~~~~~~L~~~~~~~~-~i~vGG~ 93 (137)
T PRK02261 71 CRGLREKCIEAGLGDI-LLYVGGN 93 (137)
T ss_pred HHHHHHHHHhcCCCCC-eEEEECC
Confidence 7888888888877543 3444443
No 446
>PF09600 Cyd_oper_YbgE: Cyd operon protein YbgE (Cyd_oper_YbgE); InterPro: IPR011846 This entry describes a small protein of unknown function, about 100 amino acids in length, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It appears to be an integral membrane protein. It is found so far only in the Proteobacteria [].
Probab=39.60 E-value=1.6e+02 Score=23.67 Aligned_cols=72 Identities=8% Similarity=0.131 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhhhhccccCccCcCcccchHHHHHHHHHHHhhccC-cccccchhhHHHHHHHHHHHHHHHHHhh
Q 004136 584 TAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSH-RANIQSNLTRVVVVLWLFVVFILTSSYT 657 (771)
Q Consensus 584 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~s~Rl~~~~~~~~~li~~~~Yt 657 (771)
+++++.++++++|--++..... +....-....+.+...+.+-.| |..|++.--|.++.-|.-..+++...|.
T Consensus 7 lilAl~la~~v~~~P~~fA~~~--g~~~~~~~~ll~wavc~~~IhGvGF~Pr~~~Wr~lFsP~~a~~il~~~l~~ 79 (82)
T PF09600_consen 7 LILALALAACVFWDPNRFAAAT--GGFSHWLAPLLIWAVCAGWIHGVGFRPRSWIWRLLFSPLIAWIILIYGLIL 79 (82)
T ss_pred HHHHHHHHHHHHcCHHHHHHHc--CCCcHHHHHHHHHHHHHHHhhccccchhHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4455566666666555433211 1111223333444444444455 9999999999999999888888777653
No 447
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=39.41 E-value=3.6e+02 Score=27.04 Aligned_cols=34 Identities=6% Similarity=0.248 Sum_probs=24.5
Q ss_pred cCCeEEEEcCCchHhHHHHHHhhccCCccEEeec
Q 004136 95 KEKVKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (771)
Q Consensus 95 ~~~v~aviGp~~s~~~~~v~~~~~~~~iP~Is~~ 128 (771)
+.++.+++=+-.+..+.....+-+..++|+|+.-
T Consensus 59 ~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~ii 92 (251)
T TIGR00067 59 RHNIKLLVVACNTASALALEDLQRNFDFPVVGVI 92 (251)
T ss_pred hCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeec
Confidence 6788888876555555566677777789999743
No 448
>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=39.39 E-value=1.1e+02 Score=30.64 Aligned_cols=79 Identities=15% Similarity=0.082 Sum_probs=47.6
Q ss_pred CCeEEEEEEEe---------CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEE
Q 004136 166 NWRRVAAIYED---------NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (771)
Q Consensus 166 ~w~~v~ii~~~---------~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv 236 (771)
..+.|++|..+ ++|. ....+.+.+.+++.| +.+..... .. .+.....+.+.+.++|.|+
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~v~~~---~~------~~~~~~~~~l~~~~~dgii 69 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFF--LSLLGGIADALAERG-YDLLLSFV---SS------PDRDWLARYLASGRADGVI 69 (275)
T ss_pred CceEEEEEecCccccccccCCchH--HHHHHHHHHHHHHcC-CEEEEEeC---Cc------hhHHHHHHHHHhCCCCEEE
Confidence 35678888863 2344 566778899999999 77654321 11 1123333445556899888
Q ss_pred EEecChhHHHHHHHHHHHcCCC
Q 004136 237 VLQASLDMTIHLFTEANRMGLV 258 (771)
Q Consensus 237 ~~~~~~~~~~~il~~a~~~g~~ 258 (771)
+ ...... ...++++.+.|.+
T Consensus 70 i-~~~~~~-~~~~~~~~~~~ip 89 (275)
T cd06295 70 L-IGQHDQ-DPLPERLAETGLP 89 (275)
T ss_pred E-eCCCCC-hHHHHHHHhCCCC
Confidence 7 443222 2447778777763
No 449
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=39.30 E-value=1.9e+02 Score=29.39 Aligned_cols=41 Identities=15% Similarity=-0.018 Sum_probs=27.5
Q ss_pred chHHHHHHHHHH-CCCcccEEEecCCCChHHHHHHHhcccccEEE
Q 004136 490 FSIELFRLVVDH-LNYDLPYEFVPHDGVYDDLINGVYDKTYDAAV 533 (771)
Q Consensus 490 ~~~~l~~~~a~~-l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~ 533 (771)
-..++.+.+.+. .|+++++. ..+ .+......|.+|++|+..
T Consensus 45 ~~~e~a~~~~k~~~G~~Velv--~fs-d~~~~n~AL~~G~ID~n~ 86 (272)
T PRK09861 45 DVAEVAKKVAKEKYGLDVELV--GFS-GSLLPNDATNHGELDANV 86 (272)
T ss_pred HHHHHHHHHHHHcCCCeEEEE--ecC-chhhHHHHHHcCCcceeh
Confidence 344566666655 58885555 433 255667899999999875
No 450
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of porphobilinogen (PBG) into hydroxymethylbilane (HMB). HMBS consists of three domains, and is believed to bind substrate through a hinge-bending motion of domains I and II. HMBS is found in all organisms except viruses.
Probab=38.84 E-value=4.1e+02 Score=27.27 Aligned_cols=62 Identities=15% Similarity=0.165 Sum_probs=39.6
Q ss_pred CChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHH
Q 004136 674 TDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK 739 (771)
Q Consensus 674 ~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~ 739 (771)
.+++||.+ |.+||+-.---. ..++.. ++.-+++....+.+.-++++.+|+.||.+.-..=+.
T Consensus 109 ~~l~~Lp~-ga~IGTsS~RR~-aql~~~--rpdl~~~~iRGNV~TRL~KL~~ge~DaiiLA~AGL~ 170 (292)
T cd00494 109 SSLEDLPA-GSVVGTSSLRRQ-AQLKRK--RPDLKFEPLRGNVDTRLRKLDEGEYDAIILAAAGLK 170 (292)
T ss_pred CChhHCCC-CCEEecCCHHHH-HHHHHH--CCCCEEEEcCCCHHHHHHHhcCCCCCEeehHhhHHH
Confidence 36777753 567776322111 223322 455667766655889999999999999987665554
No 451
>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=38.73 E-value=88 Score=32.28 Aligned_cols=77 Identities=9% Similarity=0.132 Sum_probs=49.9
Q ss_pred EEEEEEe---CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC--CceEEEEEecChhH
Q 004136 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDM 244 (771)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vIv~~~~~~~~ 244 (771)
|+++..+ ++|. ....+.+++++++.| .++..... ..+. +.....++.+.+. ++|.|++ ......
T Consensus 2 Igvi~~~~~~~~~~--~~~~~gi~~~~~~~g-~~v~~~~~-~~~~------~~~~~~i~~~~~~~~~vdgiIi-~~~~~~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFW--NSVARFMQAAADDLG-IELEVLYA-ERDR------FLMLQQARTILQRPDKPDALIF-TNEKSV 70 (305)
T ss_pred eEEecCCCCCCcHH--HHHHHHHHHHHHhcC-CeEEEEeC-CCCH------HHHHHHHHHHHHhccCCCEEEE-cCCccc
Confidence 5556543 3455 667788999999999 77654321 1111 3355677778887 8999998 544334
Q ss_pred HHHHHHHHHHcCC
Q 004136 245 TIHLFTEANRMGL 257 (771)
Q Consensus 245 ~~~il~~a~~~g~ 257 (771)
...+++.+.+.|.
T Consensus 71 ~~~~~~~~~~~gi 83 (305)
T cd06324 71 APELLRLAEGAGV 83 (305)
T ss_pred hHHHHHHHHhCCC
Confidence 5566788887776
No 452
>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=38.73 E-value=96 Score=32.85 Aligned_cols=87 Identities=17% Similarity=0.185 Sum_probs=55.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.+.++.++ +++.+|++...+ ....+.+.+.+++.| +++.....+..+. +.++........++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~i 82 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL---AAAKDKIKAALEQSG-IEITDFIWYGGES----TYENVERLKKNPAVQEADMI 82 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH---HHHHHHHHHHHHHCC-CeEEEEEecCCCC----CHHHHHHHHHHHhhcCCCEE
Confidence 44566777777 888888876544 344677888888888 7654333333322 12457777777788899999
Q ss_pred EEEec--ChhHHHHHHHHH
Q 004136 236 IVLQA--SLDMTIHLFTEA 252 (771)
Q Consensus 236 v~~~~--~~~~~~~il~~a 252 (771)
|- .+ +.-++.+++...
T Consensus 83 ia-vGGGs~~D~aK~ia~~ 100 (345)
T cd08171 83 FA-VGGGKAIDTVKVLADK 100 (345)
T ss_pred EE-eCCcHHHHHHHHHHHH
Confidence 96 43 334555555444
No 453
>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=38.62 E-value=1e+02 Score=30.98 Aligned_cols=77 Identities=9% Similarity=0.042 Sum_probs=48.8
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhc--cCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDM 244 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~--~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~ 244 (771)
|+++..+ ++|. ......+.+++++ .| .++.... ... + .......++.+.+.++|.|++ .. ....
T Consensus 2 Ig~v~~~~~~~~~--~~~~~gi~~~~~~~~~~-~~~~~~~---~~~---~-~~~~~~~i~~~~~~~~dgiIi-~~~~~~~ 70 (271)
T cd06321 2 IGVSVGDLGNPFF--VALAKGAEAAAKKLNPG-VKVTVVS---ADY---D-LNKQVSQIDNFIAAKVDLILL-NAVDSKG 70 (271)
T ss_pred eEEEecccCCHHH--HHHHHHHHHHHHHhCCC-eEEEEcc---CCC---C-HHHHHHHHHHHHHhCCCEEEE-eCCChhH
Confidence 5666654 4566 7778889999999 66 5543321 111 1 123456677777788999888 54 3333
Q ss_pred HHHHHHHHHHcCC
Q 004136 245 TIHLFTEANRMGL 257 (771)
Q Consensus 245 ~~~il~~a~~~g~ 257 (771)
....++.+.+.|.
T Consensus 71 ~~~~i~~~~~~~i 83 (271)
T cd06321 71 IAPAVKRAQAAGI 83 (271)
T ss_pred hHHHHHHHHHCCC
Confidence 4667788877765
No 454
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=38.60 E-value=4.3e+02 Score=26.71 Aligned_cols=72 Identities=13% Similarity=0.092 Sum_probs=46.5
Q ss_pred cchHHHHHHHHHHCC-CcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~-f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+..+++..+.++.. .+ +.+... +-+..+.++.+|++|+++.... .......+.+ .|+....+.+++++..+
T Consensus 110 ~~l~~~l~~f~~~~p~i~--l~i~~~--~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~~-~~l~~~~~~~v~~~~~~ 182 (294)
T PRK09986 110 GRLRPAMRHFLKENPNVE--WLLREL--SPSMQMAALERRELDAGIWRMA-DLEPNPGFTS-RRLHESAFAVAVPEEHP 182 (294)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEeC--CHHHHHHHHHcCCCCEEEecCC-ccCCCCCeEE-EEeecccEEEEEcCCCC
Confidence 445677788877763 44 554432 3467899999999999985221 0112233444 67888888888877664
No 455
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=38.54 E-value=4e+02 Score=27.31 Aligned_cols=62 Identities=19% Similarity=0.197 Sum_probs=38.6
Q ss_pred CChhHhhhCCceEEEecChHHHHHHHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHH
Q 004136 674 TDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK 739 (771)
Q Consensus 674 ~~~~dL~~~~~~~g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~ 739 (771)
.+++||.+ |.+||+-.-=-..+ ++. .++.-+++....+.+.-++++.+|+.||.+.-..=++
T Consensus 109 ~~l~~Lp~-ga~VGTsS~RR~aq-l~~--~rPdl~i~~iRGNV~TRL~KL~~g~~DaiiLA~AGL~ 170 (292)
T TIGR00212 109 LSLDSLPQ-GAKVGTSSLRRKAQ-LKA--IRPDLKIEPLRGNIDTRLRKLDEGEYDAIILAEAGLK 170 (292)
T ss_pred CChhHCCC-CCEeccCCHHHHHH-HHH--HCCCCEEEECcCCHHHHHHHhcCCCCCEeehHhhHHH
Confidence 46777753 56776522211112 222 1455567666655888999999999999987665554
No 456
>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=38.37 E-value=3.2e+02 Score=25.60 Aligned_cols=94 Identities=11% Similarity=0.166 Sum_probs=45.0
Q ss_pred CCeEEEEcCCchHhHHHHHHhhccC--CccEEeecCCCCCCCccC-CCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEE
Q 004136 96 EKVKVIAGMETWEETAVVAEIASRV--QVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA 172 (771)
Q Consensus 96 ~~v~aviGp~~s~~~~~v~~~~~~~--~iP~Is~~a~~~~~~l~~-~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~i 172 (771)
.++.+++||.++.-......+++.. +...+.+..+. .|.... +.-.|.|- + . ..+-+.++.-..=...-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR-~~r~~E~~g~~y~fv---s-~---~~f~~~~~~~~fie~~~ 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTR-PPRPGEVDGVDYHFV---S-K---EEFERMIKAGEFIEYGE 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS--GGTTS-TTTSEEE------H---HHHHHHHHTTHEEEEEE
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeeccc-CCcccccCCcceEEE---e-e---chhhhhhccccEEEEee
Confidence 5789999999887666666665543 34333333330 233222 33455543 1 1 11222222211111111
Q ss_pred EEEeCCCCCCcchHHHHHHHHhccCCeEEE
Q 004136 173 IYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (771)
Q Consensus 173 i~~~~~~g~~~~~~~~l~~~~~~~g~~~i~ 202 (771)
+.++.|| .. .+.+.+.+++.. .++.
T Consensus 74 -~~g~~YG--t~-~~~i~~~~~~gk-~~il 98 (183)
T PF00625_consen 74 -YDGNYYG--TS-KSAIDKVLEEGK-HCIL 98 (183)
T ss_dssp -ETTEEEE--EE-HHHHHHHHHTTT-EEEE
T ss_pred -ecchhhh--hc-cchhhHhhhcCC-cEEE
Confidence 3344576 44 577777777666 5544
No 457
>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=38.33 E-value=1e+02 Score=31.61 Aligned_cols=79 Identities=11% Similarity=0.071 Sum_probs=47.9
Q ss_pred EEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHH
Q 004136 171 AAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHL 248 (771)
Q Consensus 171 ~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~i 248 (771)
+++..+ ++|. ....+.+.+++++.| ....... .+... + .....+.++.+.+.++|.|++...........
T Consensus 2 gvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~~~i~~-~~~~~---d-~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~ 73 (302)
T TIGR02637 2 GLVVKSLGNPFF--EAANKGAEEAAKELG-SVYIIYT-GPTGT---T-AEGQIEVVNSLIAQKVDAIAISANDPDALVPA 73 (302)
T ss_pred EEEeccCCCHHH--HHHHHHHHHHHHHhC-CeeEEEE-CCCCC---C-HHHHHHHHHHHHHcCCCEEEEeCCChHHHHHH
Confidence 344443 4455 667788889998888 5322211 11111 1 13455677888888999988823334455677
Q ss_pred HHHHHHcCC
Q 004136 249 FTEANRMGL 257 (771)
Q Consensus 249 l~~a~~~g~ 257 (771)
++++.+.|.
T Consensus 74 l~~~~~~gi 82 (302)
T TIGR02637 74 LKKAMKRGI 82 (302)
T ss_pred HHHHHHCCC
Confidence 888888775
No 458
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=38.20 E-value=1.1e+02 Score=31.23 Aligned_cols=55 Identities=15% Similarity=0.120 Sum_probs=30.4
Q ss_pred CcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE
Q 004136 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (771)
Q Consensus 33 ~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~avi 102 (771)
++|+||+..... .. -.+++.+...++ .|++++++..+....+..|+. +..+++-+
T Consensus 32 ~tLkVG~~~~~~----~~---~~e~a~~~~k~~-~G~~Velv~fsd~~~~n~AL~-------~G~ID~n~ 86 (272)
T PRK09861 32 KHIKVGVINGAE----QD---VAEVAKKVAKEK-YGLDVELVGFSGSLLPNDATN-------HGELDANV 86 (272)
T ss_pred CcEEEEEcCCch----HH---HHHHHHHHHHHc-CCCeEEEEecCchhhHHHHHH-------cCCcceeh
Confidence 479999875332 11 222222332221 379999997766555444443 56677655
No 459
>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=38.01 E-value=68 Score=32.31 Aligned_cols=73 Identities=10% Similarity=0.100 Sum_probs=49.1
Q ss_pred eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHHHHHHHHHc
Q 004136 176 DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRM 255 (771)
Q Consensus 176 ~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~il~~a~~~ 255 (771)
+++|. ....+.+.+.+++.| +++..... .. + .....+.++.+...++|.|++...........++++.+.
T Consensus 10 ~~~~~--~~~~~~~~~~a~~~g-~~~~~~~~---~~---~-~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~ 79 (273)
T cd06309 10 ESPWR--TAETKSIKDAAEKRG-FDLKFADA---QQ---K-QENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAA 79 (273)
T ss_pred CCHHH--HHHHHHHHHHHHhcC-CEEEEeCC---CC---C-HHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHC
Confidence 35565 778899999999999 87765321 11 1 134567788888889999988233333335677888887
Q ss_pred CCC
Q 004136 256 GLV 258 (771)
Q Consensus 256 g~~ 258 (771)
+.+
T Consensus 80 ~iP 82 (273)
T cd06309 80 GIP 82 (273)
T ss_pred CCC
Confidence 753
No 460
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=37.96 E-value=2.3e+02 Score=30.41 Aligned_cols=100 Identities=17% Similarity=0.145 Sum_probs=61.5
Q ss_pred cHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhh
Q 004136 151 DSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ 228 (771)
Q Consensus 151 ~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~ 228 (771)
....+..+++.+... ..++|.+...+..-| ......+.+.+++.| ..+.....|...... + .+.....+..+.
T Consensus 124 ~~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~--~~~~~~L~~~L~~~G-~~V~~~~vY~~~~~~-~-~~~~~~~~~~l~ 198 (381)
T PRK07239 124 ASESSAEVLEYLLEEGVAGKRIAVQLHGATDE--WEPLPEFLEALRAAG-AEVVPVPVYRWVPPP-D-PGPLDRLVDAIA 198 (381)
T ss_pred CCCccHHHHHHHhcCCCCCCEEEEEcCCCccc--cCchHHHHHHHHHCC-CEEEEeCcEEEcCCC-C-hhHHHHHHHHHH
Confidence 344567777777543 456666654332222 233567889999999 888766555332210 0 122345556666
Q ss_pred hCCceEEEEEecChhHHHHHHHHHHHcCC
Q 004136 229 DKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (771)
Q Consensus 229 ~~~~~vIv~~~~~~~~~~~il~~a~~~g~ 257 (771)
+...|+|++ .++..+..+++.+.+.++
T Consensus 199 ~~~~d~v~F--tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 199 SRGLDAVTF--TSAPAVAALLERAREMGL 225 (381)
T ss_pred cCCccEEEE--cCHHHHHHHHHHHHHcCC
Confidence 666787776 888899999988876654
No 461
>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=37.93 E-value=1.1e+02 Score=31.69 Aligned_cols=71 Identities=7% Similarity=0.106 Sum_probs=49.0
Q ss_pred eCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHHHHHHHHHHH
Q 004136 176 DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTIHLFTEANR 254 (771)
Q Consensus 176 ~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~~~il~~a~~ 254 (771)
++++. ....+.+++++++.| .++.... ... + .....++++.+.+.++|.|++ .. ........++.+.+
T Consensus 9 ~~~~~--~~~~~~i~~~a~~~g-~~v~~~~---~~~---~-~~~q~~~i~~l~~~~vDgIIi-~~~~~~~~~~~l~~~~~ 77 (302)
T TIGR02634 9 RLERW--QKDRDIFVAAAESLG-AKVFVQS---ANG---N-EAKQISQIENLIARGVDVLVI-IPQNGQVLSNAVQEAKD 77 (302)
T ss_pred chhhH--HHHHHHHHHHHHhcC-CEEEEEe---CCC---C-HHHHHHHHHHHHHcCCCEEEE-eCCChhHHHHHHHHHHH
Confidence 34566 777889999999999 7775431 111 1 134557788888889999998 54 34445677888888
Q ss_pred cCC
Q 004136 255 MGL 257 (771)
Q Consensus 255 ~g~ 257 (771)
.++
T Consensus 78 ~~i 80 (302)
T TIGR02634 78 EGI 80 (302)
T ss_pred CCC
Confidence 775
No 462
>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=37.76 E-value=1.5e+02 Score=30.91 Aligned_cols=81 Identities=11% Similarity=0.114 Sum_probs=51.2
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
.-+.|+++..+ ++|. ....+.+.+++++.| ..+..... ..+. ......+..+.+.+.|.|++ .....
T Consensus 59 ~~~~Igvi~~~~~~~~~--~~~~~~i~~~~~~~g-y~~~i~~~-~~~~------~~~~~~~~~l~~~~vdgiIi-~~~~~ 127 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSY--ARIAKELEQQCREAG-YQLLIACS-DDNP------DQEKVVIENLLARQVDALIV-ASCMP 127 (327)
T ss_pred CCceEEEEeCCCCCccH--HHHHHHHHHHHHHCC-CEEEEEeC-CCCH------HHHHHHHHHHHHcCCCEEEE-eCCCC
Confidence 44678888864 4465 677888999999999 77754321 1111 23455677777788999888 54322
Q ss_pred HHHHHHHHHHHcCC
Q 004136 244 MTIHLFTEANRMGL 257 (771)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (771)
.....++++.+.+.
T Consensus 128 ~~~~~~~~l~~~~i 141 (327)
T TIGR02417 128 PEDAYYQKLQNEGL 141 (327)
T ss_pred CChHHHHHHHhcCC
Confidence 12345666666664
No 463
>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=37.46 E-value=1.6e+02 Score=26.74 Aligned_cols=64 Identities=17% Similarity=0.275 Sum_probs=41.7
Q ss_pred EEEEEEEeCC--CCC-CcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhC-CceEEEEEec
Q 004136 169 RVAAIYEDNV--YGG-DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQA 240 (771)
Q Consensus 169 ~v~ii~~~~~--~g~-~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vIv~~~~ 240 (771)
++++|...++ .|. .+.....+++.+++.| .++.....++.+. +.+.+.+++..+. ++|+|+. .+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G-~~v~~~~~v~Dd~------~~i~~~l~~~~~~~~~DlVit-tG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAG-HEVVAYEIVPDDK------DEIREALIEWADEDGVDLILT-TG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcC-CeeeeEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CC
Confidence 5677766553 220 0223456888899999 8887766666544 5677777766542 7899988 54
No 464
>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=37.42 E-value=1.4e+02 Score=29.90 Aligned_cols=76 Identities=8% Similarity=0.052 Sum_probs=48.6
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+.+++++.| +.+..... ..+. ....+.++.+.+.++|.|++ ....... .
T Consensus 2 igvi~p~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~~~-~~~~------~~~~~~i~~~~~~~vdgii~-~~~~~~~-~ 69 (268)
T cd06270 2 IGLVVSDLDGPFF--GPLLSGVESVARKAG-KHLIITAG-HHSA------EKEREAIEFLLERRCDALIL-HSKALSD-D 69 (268)
T ss_pred EEEEEccccCcch--HHHHHHHHHHHHHCC-CEEEEEeC-CCch------HHHHHHHHHHHHcCCCEEEE-ecCCCCH-H
Confidence 4555543 5566 778889999999999 77664321 1111 23456777777889999998 5533222 2
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
.++++.+.|.
T Consensus 70 ~~~~~~~~~i 79 (268)
T cd06270 70 ELIELAAQVP 79 (268)
T ss_pred HHHHHhhCCC
Confidence 2777777775
No 465
>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=37.39 E-value=1e+02 Score=30.79 Aligned_cols=76 Identities=12% Similarity=0.124 Sum_probs=49.1
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
++++..+ ++|. ..+.+.+.+.+++.| +++...... .. .....+.++.+.+.++|.|++ ....... .
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~--~~-----~~~~~~~i~~l~~~~~dgiii-~~~~~~~-~ 69 (270)
T cd06296 2 IGLVFPDLDSPWA--SEVLRGVEEAAAAAG-YDVVLSESG--RR-----TSPERQWVERLSARRTDGVIL-VTPELTS-A 69 (270)
T ss_pred eEEEECCCCCccH--HHHHHHHHHHHHHcC-CeEEEecCC--Cc-----hHHHHHHHHHHHHcCCCEEEE-ecCCCCh-H
Confidence 5666653 5676 788899999999999 777543221 11 123556777888888998887 4432222 3
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
.++.+.+.+.
T Consensus 70 ~~~~~~~~~i 79 (270)
T cd06296 70 QRAALRRTGI 79 (270)
T ss_pred HHHHHhcCCC
Confidence 4777777665
No 466
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=37.30 E-value=46 Score=38.64 Aligned_cols=54 Identities=11% Similarity=0.189 Sum_probs=46.9
Q ss_pred hHHHHHHHHHHHhhccC-ccc-ccchhhHHHHHHHHHHHHHHHHHhhcccccceee
Q 004136 613 QISNILWFAFSTIFFSH-RAN-IQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTV 666 (771)
Q Consensus 613 ~~~~~~~~~~~~~~~~~-~~~-~~~~s~Rl~~~~~~~~~li~~~~Yta~L~s~lt~ 666 (771)
.+.-|+|+++..|...| +.. +...+-.++.++.+++++++.++.-+|+.++|..
T Consensus 294 kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs 349 (727)
T KOG0498|consen 294 KYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQS 349 (727)
T ss_pred HHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHH
Confidence 47789999999999987 443 4778889999999999999999999999999853
No 467
>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=36.53 E-value=1.2e+02 Score=30.45 Aligned_cols=77 Identities=9% Similarity=0.087 Sum_probs=47.2
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhcc-CCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-ChhHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMT 245 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~-g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~~~ 245 (771)
|+++..+ ++|. ....+.+.+.+++. | +++..... ..+. ......+..+.+.++|.|++ .. .....
T Consensus 2 ig~~~~~~~~~~~--~~~~~~i~~~~~~~~g-~~~~~~~~-~~~~------~~~~~~i~~~~~~~vdgiii-~~~~~~~~ 70 (270)
T cd06308 2 IGFSQCNLADPWR--AAMNDEIQREASNYPD-VELIIADA-ADDN------SKQVADIENFIRQGVDLLII-SPNEAAPL 70 (270)
T ss_pred EEEEeeCCCCHHH--HHHHHHHHHHHHhcCC-cEEEEEcC-CCCH------HHHHHHHHHHHHhCCCEEEE-ecCchhhc
Confidence 5566654 3344 56678888888885 8 76654321 1111 33456677777778999888 54 33333
Q ss_pred HHHHHHHHHcCC
Q 004136 246 IHLFTEANRMGL 257 (771)
Q Consensus 246 ~~il~~a~~~g~ 257 (771)
...+..+.+.|+
T Consensus 71 ~~~~~~~~~~~i 82 (270)
T cd06308 71 TPVVEEAYRAGI 82 (270)
T ss_pred hHHHHHHHHCCC
Confidence 556777777765
No 468
>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=36.43 E-value=1.5e+02 Score=31.90 Aligned_cols=88 Identities=13% Similarity=0.206 Sum_probs=55.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.+.++.++ +++.++.+...+- ..+..+.+.+.+++.| +++.....+..+.. .++....+..+++.++|+|
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~~~v~~~L~~~g-~~~~~~~~v~~~p~----~~~v~~~~~~~~~~~~D~I 90 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIK-KNGLYDRVIASLKEAG-IEVVELGGVEPNPR----LETVREGIELCKEEKVDFI 90 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHH-hcCcHHHHHHHHHHcC-CeEEEECCccCCCC----HHHHHHHHHHHHHcCCCEE
Confidence 45566777774 8888887654331 0345788999999988 76543222222221 1467788888888999999
Q ss_pred EEEecC--hhHHHHHHHH
Q 004136 236 IVLQAS--LDMTIHLFTE 251 (771)
Q Consensus 236 v~~~~~--~~~~~~il~~ 251 (771)
|- .+. .-++.+++..
T Consensus 91 Ia-iGGGS~iD~aK~ia~ 107 (382)
T cd08187 91 LA-VGGGSVIDSAKAIAA 107 (382)
T ss_pred EE-eCChHHHHHHHHHHh
Confidence 96 443 3455554433
No 469
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=36.37 E-value=2.8e+02 Score=29.47 Aligned_cols=105 Identities=15% Similarity=0.168 Sum_probs=62.1
Q ss_pred ceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHH
Q 004136 142 PYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVR 221 (771)
Q Consensus 142 p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~ 221 (771)
|+-+...+.. ...+.+.++.++.+++.++++...+ ....+.+.+.+++.| +.+... .++......+ .+.+.
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~~---~~~~~~v~~~L~~~g-i~~~~~-~~~~~e~~~~-~~~v~ 79 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETVA---PLYLEKLRASLEAAG-FEVDVV-VLPDGEQYKS-LETLE 79 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCchH---HHHHHHHHHHHHhcC-CceEEE-EeCCCCCCCC-HHHHH
Confidence 3434444442 3456667777788899999976554 557788888898888 655422 2332221111 24577
Q ss_pred HHHHHhhhCCc---eEEEEEecC--hhHHHHHHHHHHHcC
Q 004136 222 GELKKVQDKQS---RVFIVLQAS--LDMTIHLFTEANRMG 256 (771)
Q Consensus 222 ~~l~~l~~~~~---~vIv~~~~~--~~~~~~il~~a~~~g 256 (771)
..++.+++.++ |.|+. .+. ..++..++......|
T Consensus 80 ~~~~~~~~~~~~r~d~IIa-vGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 80 KIYDALLEAGLDRSDTLIA-LGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred HHHHHHHHcCCCCCCEEEE-EcCcHHHHHHHHHHHHhcCC
Confidence 77777777654 88886 433 345555555444444
No 470
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold. In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After
Probab=36.26 E-value=1.2e+02 Score=28.44 Aligned_cols=70 Identities=17% Similarity=0.164 Sum_probs=47.0
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.++-.+++..+.++. +.+ +.+.. +....+++.|.+|++|+++...... ...+.. .++....+.+++++..
T Consensus 12 ~~~l~~~l~~f~~~~P~i~--l~i~~--~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~~h 82 (200)
T cd08465 12 RLVLPALMRQLRAEAPGID--LAVSQ--ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADRAT 82 (200)
T ss_pred HHhhhHHHHHHHHHCCCcE--EEEec--CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeCCC
Confidence 356677888887765 444 44443 3578899999999999998633222 122333 4677788888887765
No 471
>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=36.02 E-value=2.6e+02 Score=25.49 Aligned_cols=81 Identities=9% Similarity=0.068 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (771)
.+..+..|.++++.+++.++-+.-.- ..+.+.+.+.+.-.| +++..... .+....+.+-...+-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A~---D~~~k~~lkma~P~g-vk~~i~sv-----------e~a~~~l~~~~~~~~~ 77 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVNDDVAN---DEVRQTLMGIVAPTG-FKVRFVSL-----------EKTINVIHKPAYHDQT 77 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CEEEEEEH-----------HHHHHHHhCcCCCCce
Confidence 46677889999999998888766543 455666666655567 66654221 3355555554455678
Q ss_pred EEEEEecChhHHHHHHH
Q 004136 234 VFIVLQASLDMTIHLFT 250 (771)
Q Consensus 234 vIv~~~~~~~~~~~il~ 250 (771)
++++ +-++.++..+++
T Consensus 78 v~vl-~k~~~da~~l~~ 93 (151)
T TIGR00854 78 IFLL-FRNPQDVLTLVE 93 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999999887755
No 472
>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=36.02 E-value=1.1e+02 Score=29.84 Aligned_cols=93 Identities=13% Similarity=0.169 Sum_probs=62.3
Q ss_pred ecCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHH
Q 004136 148 ASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (771)
Q Consensus 148 ~p~~~~~~~a~~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~ 226 (771)
.|.....+..+++.+.. ..-+++.++..+. + ...+.+.+++.| .++.....|.. .. ...-......
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~--~-----~~~l~~~L~~~g-~~v~~~~vY~~-~~----~~~~~~~~~~ 163 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEG--G-----RPDLPEKLREAG-IEVTEVIVYET-PP----EELSPELKEA 163 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSS--S-----CHHHHHHHHHTT-EEEEEEECEEE-EE----HHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC--c-----cHHHHHHHHHCC-CeEEEEEEeec-cc----ccchHHHHHH
Confidence 56656667888888864 4547777766443 3 456788899999 88887766655 21 1223444455
Q ss_pred hhhCCceEEEEEecChhHHHHHHHHHHHc
Q 004136 227 VQDKQSRVFIVLQASLDMTIHLFTEANRM 255 (771)
Q Consensus 227 l~~~~~~vIv~~~~~~~~~~~il~~a~~~ 255 (771)
+...+.++|++ .++..+..+++.+.+.
T Consensus 164 l~~~~~~~v~f--tS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 164 LDRGEIDAVVF--TSPSAVRAFLELLKKN 190 (231)
T ss_dssp HHHTTTSEEEE--SSHHHHHHHHHHSSGH
T ss_pred HHcCCCCEEEE--CCHHHHHHHHHHhHhh
Confidence 55667887776 8888888888887764
No 473
>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=35.99 E-value=3.8e+02 Score=26.73 Aligned_cols=115 Identities=15% Similarity=0.168 Sum_probs=64.9
Q ss_pred CcEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHH
Q 004136 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (771)
Q Consensus 33 ~~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~ 112 (771)
+.=+||++.+.+...+.....+++-++++. |.++..... .+.....+.+.+++ . ++.+|+.+........
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~-----g~~~~~~~~---~~~~~~~~~~~~~~-~-~~dai~~~~d~~a~~~ 199 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAKL-----GIEVVEATV---SSSNDVQQAAQSLA-G-KVDAIYVPTDNTVASA 199 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHhC-----CCEEEEEec---CCHHHHHHHHHHhc-c-cCCEEEEcCchhHHhH
Confidence 445688886554334555567777777652 344433211 12334456666666 2 3567776655432222
Q ss_pred ---HHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH
Q 004136 113 ---VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (771)
Q Consensus 113 ---v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~ 164 (771)
+.......++|+++.... .+ ..|.+.....+...+++..++++.+
T Consensus 200 ~~~~~~~~~~~~ipvig~d~~----~~---~~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 200 MEAVVKVANEAKIPVIASDDD----MV---KRGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred HHHHHHHHHHcCCCEEEcCHH----HH---hCCceEEecCCHHHHHHHHHHHHHH
Confidence 222222247998877644 22 2256667777888888888887743
No 474
>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=35.63 E-value=79 Score=33.38 Aligned_cols=87 Identities=9% Similarity=0.009 Sum_probs=55.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceE
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (771)
...+.+.++.++.+++.++++...+. . ..+.+.+.+++.+ ..+ +. .+.... +.+.....+..+++.++|.
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~--~-~~~~v~~~l~~~~-~~~-~~-~~~~~p----~~~~v~~~~~~~~~~~~d~ 80 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLAT--K-LAERVASALGDRV-AGT-FD-GAVMHT----PVEVTEAAVAAAREAGADG 80 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHH--H-HHHHHHHHhccCC-cEE-eC-CCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35567788889999999998765543 3 6677788887766 433 11 111111 1245777778888889999
Q ss_pred EEEEec--ChhHHHHHHHHH
Q 004136 235 FIVLQA--SLDMTIHLFTEA 252 (771)
Q Consensus 235 Iv~~~~--~~~~~~~il~~a 252 (771)
||- .+ +.-++.+++...
T Consensus 81 IIa-iGGGs~iD~aK~ia~~ 99 (337)
T cd08177 81 IVA-IGGGSTIDLAKAIALR 99 (337)
T ss_pred EEE-eCCcHHHHHHHHHHHH
Confidence 986 43 334555555543
No 475
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=35.40 E-value=5.1e+02 Score=26.63 Aligned_cols=167 Identities=14% Similarity=0.193 Sum_probs=92.3
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
.=.|+.||+-++ .+..-+++.|+.++ ||..+-+.-.|.+-...+.++-..+-+ ++=+++|.--.. .-..+
T Consensus 44 gk~laliFeK~S---TRTR~SFeva~~ql----Gg~~~~l~~~~~Qlgr~Esi~DTArVL-sr~~D~I~~R~~--~~~~v 113 (310)
T COG0078 44 GKNLALIFEKTS---TRTRVSFEVAATQL----GGHAIYLGPGDSQLGRGESIKDTARVL-SRMVDAIMIRGF--SHETL 113 (310)
T ss_pred CceEEEEecCCC---chhhhhHHHHHHHc----CCCeEEeCCCccccCCCCcHHHHHHHH-HhhhheEEEecc--cHHHH
Confidence 345899998874 56788899999887 344555544443322222222222222 344455543222 23477
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH---HHcC---CeEEEEEEEeCCCCCCcchHH
Q 004136 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLA 187 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~ 187 (771)
..+|++.++|+|..- ++...| ..++++++ .+++ ..+++.+.+. ....+
T Consensus 114 e~lA~~s~VPViNgL--------tD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg------NNv~n 167 (310)
T COG0078 114 EELAKYSGVPVINGL--------TDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG------NNVAN 167 (310)
T ss_pred HHHHHhCCCceEccc--------ccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc------chHHH
Confidence 789999999998544 333323 24566655 5554 4566666544 34577
Q ss_pred HHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHh-hhCCceEEEEEecChhH
Q 004136 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV-QDKQSRVFIVLQASLDM 244 (771)
Q Consensus 188 ~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l-~~~~~~vIv~~~~~~~~ 244 (771)
.+-......| ..+... -|.+- .+..++....+++ +++++.+.+. .++.+
T Consensus 168 Sl~~~~a~~G-~dv~ia--~Pk~~---~p~~~~~~~a~~~a~~~g~~i~~t--~d~~e 217 (310)
T COG0078 168 SLLLAAAKLG-MDVRIA--TPKGY---EPDPEVVEKAKENAKESGGKITLT--EDPEE 217 (310)
T ss_pred HHHHHHHHhC-CeEEEE--CCCcC---CcCHHHHHHHHHHHHhcCCeEEEe--cCHHH
Confidence 7777788888 665432 22222 1114455555554 4445555444 44443
No 476
>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=35.37 E-value=1.6e+02 Score=24.42 Aligned_cols=59 Identities=12% Similarity=0.193 Sum_probs=41.9
Q ss_pred chHHHHHHHHhccCCe-EEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec--ChhHHHHHHHHHHHcCC
Q 004136 184 GKLALLAEALQNVSSS-EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA--SLDMTIHLFTEANRMGL 257 (771)
Q Consensus 184 ~~~~~l~~~~~~~g~~-~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~--~~~~~~~il~~a~~~g~ 257 (771)
...+.+++.++..| . .+.. . .+..+.+..+++..+++|++ .. .......++++.++.+.
T Consensus 9 ~~~~~l~~~l~~~~-~~~v~~-~------------~~~~~~~~~~~~~~~d~iii-d~~~~~~~~~~~~~~i~~~~~ 70 (112)
T PF00072_consen 9 EIRELLEKLLERAG-YEEVTT-A------------SSGEEALELLKKHPPDLIII-DLELPDGDGLELLEQIRQINP 70 (112)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE-E------------SSHHHHHHHHHHSTESEEEE-ESSSSSSBHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHhCC-CCEEEE-E------------CCHHHHHHHhcccCceEEEE-Eeeeccccccccccccccccc
Confidence 34788888888888 6 3332 1 23566777778888999998 53 44567888899888883
No 477
>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=35.37 E-value=51 Score=28.49 Aligned_cols=88 Identities=16% Similarity=0.202 Sum_probs=46.9
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
++++++...+..+ .+...+.+.+.+.| .+|...- +....... ..-+. .+.++ ...+|++++ +..+.....
T Consensus 1 ksiAVvGaS~~~~---~~g~~v~~~l~~~G-~~v~~Vn--p~~~~i~G-~~~y~-sl~e~-p~~iDlavv-~~~~~~~~~ 70 (116)
T PF13380_consen 1 KSIAVVGASDNPG---KFGYRVLRNLKAAG-YEVYPVN--PKGGEILG-IKCYP-SLAEI-PEPIDLAVV-CVPPDKVPE 70 (116)
T ss_dssp -EEEEET--SSTT---SHHHHHHHHHHHTT--EEEEES--TTCSEETT-EE-BS-SGGGC-SST-SEEEE--S-HHHHHH
T ss_pred CEEEEEcccCCCC---ChHHHHHHHHHhCC-CEEEEEC--CCceEECc-EEeec-cccCC-CCCCCEEEE-EcCHHHHHH
Confidence 5788888766543 33455555666688 6665431 11110000 00111 12222 357999999 999999999
Q ss_pred HHHHHHHcCCCCCCeEEEeeC
Q 004136 248 LFTEANRMGLVGKDSVWIVTN 268 (771)
Q Consensus 248 il~~a~~~g~~~~~~~~i~~~ 268 (771)
+++++.++|.. .+|+.++
T Consensus 71 ~v~~~~~~g~~---~v~~~~g 88 (116)
T PF13380_consen 71 IVDEAAALGVK---AVWLQPG 88 (116)
T ss_dssp HHHHHHHHT-S---EEEE-TT
T ss_pred HHHHHHHcCCC---EEEEEcc
Confidence 99999999854 4888877
No 478
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=35.29 E-value=4.9e+02 Score=26.38 Aligned_cols=71 Identities=7% Similarity=0.135 Sum_probs=48.6
Q ss_pred cchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCCC
Q 004136 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (771)
Q Consensus 489 G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (771)
.+..+++..+.++.. .+++.+... ..++++..+.+|++|+++..... ..+.+.+ .|+....+++++++..+
T Consensus 103 ~~l~~~~~~~~~~~p-~v~i~~~~~--~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~~-~~l~~~~~~~v~~~~~p 173 (296)
T PRK09906 103 NLLPKVLPMFRLRHP-DTLIELVSL--ITTQQEEKLRRGELDVGFMRHPV---YSDEIDY-LELLDEPLVVVLPVDHP 173 (296)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEeC--CcHHHHHHHHcCCeeEEEecCCC---CCCCceE-EEEecccEEEEecCCCc
Confidence 456677888887762 233554442 35779999999999999864433 2333443 68899999999887654
No 479
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=35.28 E-value=3.3e+02 Score=28.46 Aligned_cols=121 Identities=13% Similarity=0.175 Sum_probs=69.8
Q ss_pred CCceEEEeec-CcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCc
Q 004136 140 RWPYLIRMAS-NDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDP 216 (771)
Q Consensus 140 ~~p~~fr~~p-~~~~~~~a~~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~ 216 (771)
..|+++-+.- +-.--...++++.++| ..++|.+...| .|= .+..+.++...++.| +.+.... .+. ||
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~D-TFR--AaAiEQL~~w~er~g-v~vI~~~---~G~---Dp 206 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGD-TFR--AAAIEQLEVWGERLG-VPVISGK---EGA---DP 206 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecc-hHH--HHHHHHHHHHHHHhC-CeEEccC---CCC---Cc
Confidence 3477665442 2222233444444332 33666666655 443 566789999999999 7776542 222 44
Q ss_pred hHHHHHHHHHhhhCCceEEEEEecCh---------hHHHHHHHHHHHcCCCCCCeEEEeeCccc
Q 004136 217 KEAVRGELKKVQDKQSRVFIVLQASL---------DMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (771)
Q Consensus 217 ~~~~~~~l~~l~~~~~~vIv~~~~~~---------~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (771)
..-.-+.++..+..+.|+|++ .+.+ ++...+.+.....--..+..+++..+...
T Consensus 207 AaVafDAi~~Akar~~Dvvli-DTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAtt 269 (340)
T COG0552 207 AAVAFDAIQAAKARGIDVVLI-DTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATT 269 (340)
T ss_pred HHHHHHHHHHHHHcCCCEEEE-eCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEccc
Confidence 455667888999999999999 6654 34444444444433333444566545544
No 480
>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=35.24 E-value=3.1e+02 Score=27.14 Aligned_cols=118 Identities=15% Similarity=0.140 Sum_probs=62.3
Q ss_pred EEEEEEeCCC--cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc-CCeEEEEcCCchHhHHH
Q 004136 36 KIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (771)
Q Consensus 36 ~IG~i~p~s~--~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~-~~v~aviGp~~s~~~~~ 112 (771)
+|+++..... .....-..|++-++++.+-. ++........+...+.+.+.+++.+ ..+.+|++.... .+..
T Consensus 114 ~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~a~~ 187 (265)
T cd06291 114 HIAHIGGPNNTVSPTNLRYEGFLDVLKENGLE-----VRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDL-TAIL 187 (265)
T ss_pred EEEEEccCcccccchHHHHHHHHHHHHHcCCC-----CChheeeccccchHHHHHHHHHHhCCCCCCEEEECChH-HHHH
Confidence 5777764432 33445567888777663221 1111112222333456677777743 346888875544 3444
Q ss_pred HHHhhccCCc--c----EEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHH
Q 004136 113 VAEIASRVQV--P----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (771)
Q Consensus 113 v~~~~~~~~i--P----~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~ 163 (771)
+...+.+.++ | +++.... + ......|.+..+..+...++...++.+.
T Consensus 188 ~~~al~~~g~~vp~di~v~g~d~~---~-~~~~~~~~~~tv~~~~~~~g~~a~~~l~ 240 (265)
T cd06291 188 VLKEAQQRGIRVPEDLQIIGYDGT---K-LTRLYTPELTTIRQPIEEIAKTAVDLLI 240 (265)
T ss_pred HHHHHHHcCCCCCcceEEeccCCh---H-HHhhcCCCceeecCCHHHHHHHHHHHHH
Confidence 5555554443 3 3443322 2 2222345566677777778887777663
No 481
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=34.93 E-value=1.7e+02 Score=31.67 Aligned_cols=80 Identities=15% Similarity=0.070 Sum_probs=51.5
Q ss_pred cCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEE-EecChh
Q 004136 165 YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV-LQASLD 243 (771)
Q Consensus 165 ~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~-~~~~~~ 243 (771)
.+.+++.+|++..... .+..+.+.+.+++.| +++.....+..+.+ .+...+.+..+++.++|+||- ..++.-
T Consensus 19 ~~~~k~liVtd~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p~----~~~v~~~~~~~~~~~~D~IIaiGGGS~i 91 (398)
T cd08178 19 KGKKRAFIVTDRFMVK--LGYVDKVIDVLKRRG-VETEVFSDVEPDPS----LETVRKGLELMNSFKPDTIIALGGGSPM 91 (398)
T ss_pred cCCCeEEEEcChhHHh--CccHHHHHHHHHHCC-CeEEEecCCCCCcC----HHHHHHHHHHHHhcCCCEEEEeCCccHH
Confidence 3568888888654333 446788999999988 76543222322221 145778888888889999995 223445
Q ss_pred HHHHHHHH
Q 004136 244 MTIHLFTE 251 (771)
Q Consensus 244 ~~~~il~~ 251 (771)
++.+++..
T Consensus 92 D~AK~iA~ 99 (398)
T cd08178 92 DAAKIMWL 99 (398)
T ss_pred HHHHHHHH
Confidence 66666554
No 482
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=34.89 E-value=5.1e+02 Score=26.41 Aligned_cols=74 Identities=12% Similarity=0.188 Sum_probs=44.6
Q ss_pred ccchHHHHHHHHHHCCCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
.++-.+++..+.++.. .+++.+.. +....+...|.+|++|+++............+ ...|+....+.++++.+.
T Consensus 105 ~~~l~~~l~~f~~~~P-~i~l~~~~--~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~~~~~~~ 178 (296)
T PRK11062 105 KRLVSRVLLTAVPEDE-SIHLRCFE--STHEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSFFCTNPL 178 (296)
T ss_pred HhhHHHHHHHHHhcCC-ceEEEEEe--CCHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcceEecCCC
Confidence 4677788888877652 23344433 35678999999999999985322211112223 235677777766665544
No 483
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=34.86 E-value=1.6e+02 Score=32.03 Aligned_cols=89 Identities=17% Similarity=0.139 Sum_probs=59.0
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHH--HhcCCC-CcEEEEEEecCCCCHHHHHHHH-HHHH-hcCCeEEEEcCCchHh
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQN--FNSDSR-NHKLSLQIRDHNRDPFQAATAA-QELI-NKEKVKVIAGMETWEE 109 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~--iN~~~~-g~~i~l~~~D~~~~~~~a~~~~-~~li-~~~~v~aviGp~~s~~ 109 (771)
-+||++..-|- .......+.-+++. .+..|+ ...-++.+.||-|+...-.+.+ .+|+ .+-.+.+|||...|+-
T Consensus 299 ~kvgvvnQTTm--~~~et~~I~~~l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSN 376 (460)
T PLN02821 299 VKVGIANQTTM--LKGETEEIGKLLEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSN 376 (460)
T ss_pred ccEEEEECCCC--cHHHHHHHHHHHHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCcc
Confidence 67888775541 12223333334443 333332 2334567789989888777764 4554 2457778999999999
Q ss_pred HHHHHHhhccCCccEE
Q 004136 110 TAVVAEIASRVQVPIL 125 (771)
Q Consensus 110 ~~~v~~~~~~~~iP~I 125 (771)
+..++.+|...++|..
T Consensus 377 T~~L~eIa~~~g~~sy 392 (460)
T PLN02821 377 TSHLQEIAEHKGIPSY 392 (460)
T ss_pred HHHHHHHHHHhCCCEE
Confidence 9999999999999953
No 484
>PRK10481 hypothetical protein; Provisional
Probab=34.41 E-value=1.9e+02 Score=28.35 Aligned_cols=83 Identities=16% Similarity=0.143 Sum_probs=48.9
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v 113 (771)
=+||++.|... +..+ ..++.... |..+.+...+. ..++....+++.+|. .+++.+|+-......+...
T Consensus 130 ~riGVitP~~~----qi~~----~~~kw~~~--G~~v~~~~aspy~~~~~~l~~aa~~L~-~~gaD~Ivl~C~G~~~~~~ 198 (224)
T PRK10481 130 HQVGVIVPVEE----QLAQ----QAQKWQVL--QKPPVFALASPYHGSEEELIDAGKELL-DQGADVIVLDCLGYHQRHR 198 (224)
T ss_pred CeEEEEEeCHH----HHHH----HHHHHHhc--CCceeEeecCCCCCCHHHHHHHHHHhh-cCCCCEEEEeCCCcCHHHH
Confidence 47999999852 1122 22333333 34444444332 255667777788887 6888877743222233455
Q ss_pred HHhhccCCccEEeec
Q 004136 114 AEIASRVQVPILSFA 128 (771)
Q Consensus 114 ~~~~~~~~iP~Is~~ 128 (771)
..+-+..++|+|.+.
T Consensus 199 ~~le~~lg~PVI~~n 213 (224)
T PRK10481 199 DLLQKALDVPVLLSN 213 (224)
T ss_pred HHHHHHHCcCEEcHH
Confidence 667777899999764
No 485
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=34.37 E-value=5.5e+02 Score=26.63 Aligned_cols=136 Identities=10% Similarity=0.145 Sum_probs=73.8
Q ss_pred EEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHhHHHHH
Q 004136 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (771)
Q Consensus 35 I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~~~~v~ 114 (771)
-.++.+|... ..+...+|+.|+.++ ||..+.+...++...-.+.++-..+.++.-++++|+-=. ..-..+.
T Consensus 46 k~~~~lF~~p---STRTR~SFe~A~~~L----Gg~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~--~~~~~~~ 116 (305)
T PRK00856 46 KTVANLFFEP---STRTRLSFELAAKRL----GADVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRH--PQSGAAR 116 (305)
T ss_pred cEEEEEeccC---CcchHHHHHHHHHHc----CCcEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeC--CChHHHH
Confidence 4577777655 367788999999988 344554443333222223333333333333355555321 2233455
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH---HHcC---CeEEEEEEEeCCCCCCcchHHH
Q 004136 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLAL 188 (771)
Q Consensus 115 ~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~~ 188 (771)
.+++..++|+|..... +...| .+++++++ +++| ..+|+++.+. .++ .....
T Consensus 117 ~~a~~~~vPVINa~~g-------~~~HP------------tQ~LaDl~Ti~e~~G~l~g~kv~~vGD~-~~~---~v~~S 173 (305)
T PRK00856 117 LLAESSDVPVINAGDG-------SHQHP------------TQALLDLLTIREEFGRLEGLKVAIVGDI-KHS---RVARS 173 (305)
T ss_pred HHHHHCCCCEEECCCC-------CCCCc------------HHHHHHHHHHHHHhCCCCCCEEEEECCC-CCC---cHHHH
Confidence 6677789999976532 11122 23444443 4443 3466666632 233 34677
Q ss_pred HHHHHhccCCeEEEE
Q 004136 189 LAEALQNVSSSEIQS 203 (771)
Q Consensus 189 l~~~~~~~g~~~i~~ 203 (771)
+...+...| .++..
T Consensus 174 l~~~~~~~g-~~~~~ 187 (305)
T PRK00856 174 NIQALTRLG-AEVRL 187 (305)
T ss_pred HHHHHHHcC-CEEEE
Confidence 777788888 66554
No 486
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=34.22 E-value=4.2e+02 Score=27.78 Aligned_cols=122 Identities=15% Similarity=0.046 Sum_probs=73.6
Q ss_pred EEEEEEEeCC-CcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCC--eEEEEcCCchHhHH
Q 004136 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEK--VKVIAGMETWEETA 111 (771)
Q Consensus 35 I~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~--v~aviGp~~s~~~~ 111 (771)
=+||++.... ...+..-..|+.-|+++.+-... ...+.....+...+.+.+.+++.... +.||+.... ..+.
T Consensus 176 ~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~----~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD-~~Al 250 (333)
T COG1609 176 RRIAFIGGPLDSSASRERLEGYRAALREAGLPIN----PEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCAND-LMAL 250 (333)
T ss_pred ceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCC----cceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCc-HHHH
Confidence 4577777663 34455667788777777643311 33334444478888888899885332 788886443 3344
Q ss_pred HHHHhhccC--CccE-EeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHH
Q 004136 112 VVAEIASRV--QVPI-LSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (771)
Q Consensus 112 ~v~~~~~~~--~iP~-Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l 162 (771)
.+...+.+. .+|- |+..+.. +..+..-..|-+-.+..+....++..+++|
T Consensus 251 g~l~~~~~~g~~vP~disviGfD-d~~~~~~~~P~LTTv~~~~~~~G~~A~~~L 303 (333)
T COG1609 251 GALRALRELGLRVPEDLSVIGFD-DIELARFLTPPLTTVRQPIEELGRRAAELL 303 (333)
T ss_pred HHHHHHHHcCCCCCCeeEEEEec-ChhhhhhCCCCCeeecCCHHHHHHHHHHHH
Confidence 444444443 4563 4444440 223344455777788888888888888777
No 487
>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=33.87 E-value=1.4e+02 Score=31.69 Aligned_cols=88 Identities=9% Similarity=0.208 Sum_probs=53.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEE
Q 004136 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (771)
Q Consensus 156 ~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vI 235 (771)
..+.++++.++.+++.++++...+ ....+.+.+.+++.| +++............+ .+.....++.+++ ++|+|
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~---~~~~~~v~~~l~~~~-i~~~~~~~~~~~~~pt--~~~v~~~~~~~~~-~~d~I 84 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY---AAAGKKVEALLKRAG-VVVLLIVLPAGDLIAD--EKAVGRVLKELER-DTDLI 84 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH---HHHHHHHHHHHHHCC-CeeEEeecCCCcccCC--HHHHHHHHHHhhc-cCCEE
Confidence 446677888888899888855443 333677888899888 7554322222221111 1456677777766 89998
Q ss_pred EEEec--ChhHHHHHHHH
Q 004136 236 IVLQA--SLDMTIHLFTE 251 (771)
Q Consensus 236 v~~~~--~~~~~~~il~~ 251 (771)
|- .+ +.-++..++..
T Consensus 85 Ia-IGGGs~~D~aK~vA~ 101 (348)
T cd08175 85 IA-VGSGTINDITKYVSY 101 (348)
T ss_pred EE-ECCcHHHHHHHHHHH
Confidence 86 33 33455555543
No 488
>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=33.77 E-value=2.9e+02 Score=25.17 Aligned_cols=81 Identities=11% Similarity=0.133 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCce
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (771)
.+..+..|.++++.+++.++-+.-.- ..+.+.+...+.-.| +++..... .+....+.+-+..+-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A~---D~~~k~~l~ma~P~g-vk~~i~sv-----------e~a~~~l~~~~~~~~~ 76 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVAN---DELRKTLLKLAAPPG-VKLRIFTV-----------EKAIEAINSPKYDKQR 76 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CeEEEEEH-----------HHHHHHHhCcCCCCce
Confidence 46778889999999998887665443 445666666555567 66654221 3455555554445678
Q ss_pred EEEEEecChhHHHHHHH
Q 004136 234 VFIVLQASLDMTIHLFT 250 (771)
Q Consensus 234 vIv~~~~~~~~~~~il~ 250 (771)
++++ +-++.++..+++
T Consensus 77 v~il-~k~~~~~~~l~~ 92 (151)
T cd00001 77 VFLL-FKNPQDVLRLVE 92 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999999887755
No 489
>PLN02522 ATP citrate (pro-S)-lyase
Probab=33.51 E-value=7.9e+02 Score=28.26 Aligned_cols=207 Identities=10% Similarity=0.111 Sum_probs=111.4
Q ss_pred CcEEEEEEEeCCC----------cCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcC--CeEE
Q 004136 33 EVTKIGAIVDANS----------QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKV 100 (771)
Q Consensus 33 ~~I~IG~i~p~s~----------~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~--~v~a 100 (771)
.+-..|.++|.+. ..|.+....++-|+++. ++....+++.... .+.+.+.+.+... +..+
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~g~~~~~iPVf~tv~eA~~~~----~~~~~~vifvp~~----~a~da~lEa~~a~GIk~~V 108 (608)
T PLN02522 37 TPSVAGIINPGSEGFQKLFFGQEEIAIPVHGSIEAACKAH----PTADVFINFASFR----SAAASSMEALKQPTIRVVA 108 (608)
T ss_pred CCeeEEEEcCCCCcceeEecCCEeeCccccchHHHHHHhC----CCCcEEEEeCChH----HhHHHHHHHHhhCCCCEEE
Confidence 3555677788441 24667778888888763 2334444444333 3333333333222 4445
Q ss_pred EEcCCc-hHhHHHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 004136 101 IAGMET-WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (771)
Q Consensus 101 viGp~~-s~~~~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~~~w~~v~ii~~~~~~ 179 (771)
||...- ......+..+++..++.+|.|.+. .+-+. ..+++.-........+. -..+.--+|++|......
T Consensus 109 IiteGfpe~d~~~l~~~Ar~~g~rlIGPNc~----Gii~p---~~~kig~~~~~~~~~~~--~~~~~pG~VgiVSqSGtL 179 (608)
T PLN02522 109 IIAEGVPESDTKQLIAYARANNKVVIGPATV----GGIQA---GAFKIGDTAGTLDNIIQ--CKLYRPGSVGFVSKSGGM 179 (608)
T ss_pred EECCCCChhhHHHHHHHHHHcCCEEECCCCC----eeEcc---CcccccccccccccccC--cCCCCCCcEEEEeccHHH
Confidence 553222 233567888999999999998865 22221 11111110000000000 012445589999988665
Q ss_pred CCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhh-CCceEEEEEecC--hhHHHHHHHHHHHcC
Q 004136 180 GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVLQAS--LDMTIHLFTEANRMG 256 (771)
Q Consensus 180 g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~~vIv~~~~~--~~~~~~il~~a~~~g 256 (771)
+ ..+...+.+.| +-+.....+-.+. ++-.++.+.|..+.+ .+.++|++ ... ..+-..+++.+++..
T Consensus 180 ~------~ei~~~~~~~G-lG~S~~VsiGnd~---~~g~~~~D~L~~~~~Dp~Tk~Ivl-ygEiGg~~e~~f~ea~~~a~ 248 (608)
T PLN02522 180 S------NEMYNVIARVT-DGIYEGIAIGGDV---FPGSTLSDHVLRFNNIPQIKMIVV-LGELGGRDEYSLVEALKQGK 248 (608)
T ss_pred H------HHHHHHHHHcC-CCeEEEEEeCCCC---CCCCCHHHHHHHHhcCCCCCEEEE-EEecCchhHHHHHHHHHHhc
Confidence 4 33445566666 4444444443322 111457888887764 47888888 544 566778888888766
Q ss_pred CCCCCeEEEee
Q 004136 257 LVGKDSVWIVT 267 (771)
Q Consensus 257 ~~~~~~~~i~~ 267 (771)
...+-..|+.+
T Consensus 249 ~~KPVVa~kaG 259 (608)
T PLN02522 249 VSKPVVAWVSG 259 (608)
T ss_pred CCCCEEEEecc
Confidence 55553444433
No 490
>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=33.48 E-value=1.4e+02 Score=29.56 Aligned_cols=76 Identities=12% Similarity=0.001 Sum_probs=48.2
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+++++++.| .++..... ..+. ......++++.+.++|.|++ ..... ...
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~~------~~~~~~i~~l~~~~~dgii~-~~~~~-~~~ 69 (259)
T cd01542 2 IGVIVPRLDSFST--SRTVKGILAALYENG-YQMLLMNT-NFSI------EKEIEALELLARQKVDGIIL-LATTI-TDE 69 (259)
T ss_pred eEEEecCCccchH--HHHHHHHHHHHHHCC-CEEEEEeC-CCCH------HHHHHHHHHHHhcCCCEEEE-eCCCC-CHH
Confidence 4566654 3454 667888999999999 87754321 1111 34566777888889999998 54432 234
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
++..+.+.|.
T Consensus 70 ~~~~~~~~~i 79 (259)
T cd01542 70 HREAIKKLNV 79 (259)
T ss_pred HHHHHhcCCC
Confidence 5666666653
No 491
>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=33.45 E-value=1.2e+02 Score=30.24 Aligned_cols=76 Identities=21% Similarity=0.172 Sum_probs=49.0
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|+++..+ ++|. ....+.+.+.+++.| ..+..... ... .+..++++++.+.++|.|++ ...... ..
T Consensus 2 I~~i~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~--~~~------~~~~~~i~~~~~~~vdgiii-~~~~~~-~~ 68 (266)
T cd06278 2 IGVVVADLDNPFY--SELLEALSRALQARG-YQPLLINT--DDD------EDLDAALRQLLQYRVDGVIV-TSGTLS-SE 68 (266)
T ss_pred EEEEeCCCCCchH--HHHHHHHHHHHHHCC-CeEEEEcC--CCC------HHHHHHHHHHHHcCCCEEEE-ecCCCC-HH
Confidence 4556543 4566 777888999999999 77654321 111 24566777888889999988 543222 24
Q ss_pred HHHHHHHcCCC
Q 004136 248 LFTEANRMGLV 258 (771)
Q Consensus 248 il~~a~~~g~~ 258 (771)
.++.+.+.|.+
T Consensus 69 ~~~~~~~~~ip 79 (266)
T cd06278 69 LAEECRRNGIP 79 (266)
T ss_pred HHHHHhhcCCC
Confidence 47778777753
No 492
>PF07881 Fucose_iso_N1: L-fucose isomerase, first N-terminal domain; InterPro: IPR012888 Proteins containing this domain are similar to L-fucose isomerase expressed by Escherichia coli (P11552 from SWISSPROT, 5.3.1.3 from EC). This enzyme corresponds to glucose-6-phosphate isomerase in glycolysis, and converts an aldo-hexose to a ketose to prepare it for aldol cleavage. The enzyme is a hexamer, with each subunit being wedge-shaped and composed of three domains. Both domains 1 and 2 contain central parallel beta-sheets with surrounding alpha helices. Domain 1 demonstrates the beta-alpha-beta-alpha- beta Rossman fold. The active centre is shared between pairs of subunits related along the molecular three-fold axis, with domains 2 and 3 from one subunit providing most of the substrate-contacting residues, and domain 1 from the adjacent subunit contributing some other residues []. ; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 3A9R_A 3A9T_C 3A9S_C 1FUI_E.
Probab=33.42 E-value=3.8e+02 Score=24.75 Aligned_cols=37 Identities=22% Similarity=0.211 Sum_probs=26.1
Q ss_pred CCCcEEEEEEecCC-CCHHHHHHHHHHHHhcCCeEEEEc
Q 004136 66 SRNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAG 103 (771)
Q Consensus 66 ~~g~~i~l~~~D~~-~~~~~a~~~~~~li~~~~v~aviG 103 (771)
..|.+++.++.|++ +.+.+|..++.++. .++|.+.|.
T Consensus 45 ~~G~~Ve~Viad~~Iggv~eAa~~ae~f~-~~~V~~tit 82 (171)
T PF07881_consen 45 PDGSPVECVIADTTIGGVAEAAACAEKFK-REGVGVTIT 82 (171)
T ss_dssp TTS-B--EEE-SS-B-SHHHHHHHHHHHH-CCTEEEEEE
T ss_pred CCCCeeEEEECCCcccCHHHHHHHHHHHH-HcCCCEEEE
Confidence 36889999999976 78889999999998 888987774
No 493
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=33.26 E-value=3.1e+02 Score=25.23 Aligned_cols=80 Identities=8% Similarity=0.009 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh-ccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCc
Q 004136 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ-NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (771)
Q Consensus 154 ~~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~-~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~ 232 (771)
.+..+..|.++++.+++.++-+.-.- ..+.+.+-+.+. -.| +++..... .+....+.+ ...+-
T Consensus 17 HGQV~~~W~~~~~~~~IiVvdD~vA~---D~~~k~~lkma~~P~g-vk~~i~sv-----------~~a~~~l~~-~~~~~ 80 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVDDVVAN---DDIQQKLMGITAETYG-FGIRFFTI-----------EKTINVIGK-AAPHQ 80 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEcchhcC---CHHHHHHHHhcCCCCC-CEEEEEEH-----------HHHHHHHHh-ccCCc
Confidence 46778899999999998887665442 444555555444 456 66553210 345566665 44566
Q ss_pred eEEEEEecChhHHHHHHH
Q 004136 233 RVFIVLQASLDMTIHLFT 250 (771)
Q Consensus 233 ~vIv~~~~~~~~~~~il~ 250 (771)
+++++ +-++.++..+++
T Consensus 81 ~vlvl-~~~~~da~~l~~ 97 (158)
T PRK09756 81 KIFLI-CRTPQTVRKLVE 97 (158)
T ss_pred eEEEE-ECCHHHHHHHHH
Confidence 78888 999999887755
No 494
>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=33.14 E-value=1.7e+02 Score=29.05 Aligned_cols=77 Identities=19% Similarity=0.225 Sum_probs=45.9
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChhHHHH
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~~~~~ 247 (771)
|++|..+ +++. ....+.+++.+++.| +.+..... ... + .....+.++.+.+.++|.|++ ........
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~~-~~~~~~~~--~~~---~-~~~~~~~~~~l~~~~vdgiii-~~~~~~~~- 70 (264)
T cd01574 2 IGVVTTDLALHGP--SSTLAAIESAAREAG-YAVTLSML--AEA---D-EEALRAAVRRLLAQRVDGVIV-NAPLDDAD- 70 (264)
T ss_pred EEEEeCCCCcccH--HHHHHHHHHHHHHCC-CeEEEEeC--CCC---c-hHHHHHHHHHHHhcCCCEEEE-eCCCCChH-
Confidence 5566643 3455 677888999999999 77654321 111 0 134556677787788999988 44332222
Q ss_pred HHHHHHHcCC
Q 004136 248 LFTEANRMGL 257 (771)
Q Consensus 248 il~~a~~~g~ 257 (771)
.+.++.+.|.
T Consensus 71 ~~~~~~~~~i 80 (264)
T cd01574 71 AALAAAPADV 80 (264)
T ss_pred HHHHHHhcCC
Confidence 2344455554
No 495
>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=33.09 E-value=1.2e+02 Score=31.11 Aligned_cols=114 Identities=18% Similarity=0.169 Sum_probs=56.6
Q ss_pred cEEEEEEEeCCCcCchHHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcCCchHh---H
Q 004136 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE---T 110 (771)
Q Consensus 34 ~I~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~s~~---~ 110 (771)
.=+||+++..+...+......++-+.+ +. |.++.....++..+...+ ...+ .+++.+++-+.++.. .
T Consensus 131 ~k~igvl~~~~~~~~~~~~~~~~~~a~---~~--g~~l~~~~v~~~~~~~~~---~~~l--~~~~da~~~~~~~~~~~~~ 200 (294)
T PF04392_consen 131 AKRIGVLYDPSEPNSVAQIEQLRKAAK---KL--GIELVEIPVPSSEDLEQA---LEAL--AEKVDALYLLPDNLVDSNF 200 (294)
T ss_dssp --EEEEEEETT-HHHHHHHHHHHHHHH---HT--T-EEEEEEESSGGGHHHH---HHHH--CTT-SEEEE-S-HHHHHTH
T ss_pred CCEEEEEecCCCccHHHHHHHHHHHHH---Hc--CCEEEEEecCcHhHHHHH---HHHh--hccCCEEEEECCcchHhHH
Confidence 357888887663222222223332222 22 566665555554444333 3344 344555554444332 2
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHHHHHHHHHHHH
Q 004136 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (771)
Q Consensus 111 ~~v~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~~~a~~~~l~~ 164 (771)
..+...+...++|+++... .+... .-+....++...+++..++++.+
T Consensus 201 ~~i~~~~~~~~iPv~~~~~-----~~v~~--Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 201 EAILQLANEAKIPVFGSSD-----FYVKA--GALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHHHHHCCCTT--EEESSH-----HHHCT--T-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCEEECCH-----HHhcC--CcEEEEccCHHHHHHHHHHHHHH
Confidence 2467788999999997542 22222 24577889999999988888855
No 496
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=32.96 E-value=3.9e+02 Score=24.46 Aligned_cols=70 Identities=19% Similarity=0.122 Sum_probs=45.6
Q ss_pred ccchHHHHHHHHHHC-CCcccEEEecCCCChHHHHHHHhcccccEEEeeEeeeccceeeeecccceeeccEEEEEecCC
Q 004136 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (771)
Q Consensus 488 ~G~~~~l~~~~a~~l-~f~~~~~~~~~~~~~~~~i~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (771)
..+-.+++..+.+.. +.+ +.+.. +....+...+.+|++|+++.... .....+ .+.++....+.++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--v~~~~--~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~ 82 (198)
T cd08447 12 YSFLPRLLAAARAALPDVD--LVLRE--MVTTDQIEALESGRIDLGLLRPP---FARPGL-ETRPLVREPLVAAVPAGH 82 (198)
T ss_pred HHHHHHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHcCCceEEEecCC---CCCCCe-eEEEeecCceEEEecCCC
Confidence 456678888888876 444 44333 35678999999999999986322 112222 235677777877776654
No 497
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=32.85 E-value=2.5e+02 Score=27.66 Aligned_cols=64 Identities=11% Similarity=0.156 Sum_probs=41.0
Q ss_pred CCChhHhhhCCceEEEecC-hHHHHH---HHHhcCCCCCCcccCCCCHHHHHHHHHcCCceEEEecchhHH
Q 004136 673 VTDIQSLKSGNLKVGCVDD-SFVKKY---LEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK 739 (771)
Q Consensus 673 i~~~~dL~~~~~~~g~~~~-s~~~~~---l~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~a~i~~~~~~~ 739 (771)
|+..+||. |.++++.=- +..... |+. .+.+...+..++-...+...+-.+|.+|+...-.+-+.
T Consensus 122 I~kpeDL~--GK~iavPFvSTtHysLLaaLkh-w~idp~~V~IlNl~Pp~IaAAwqRGDIDgAyVW~PAl~ 189 (334)
T COG4521 122 IEKPEDLI--GKRIAVPFVSTTHYSLLAALKH-WGIDPGQVEILNLQPPAIAAAWQRGDIDGAYVWAPALS 189 (334)
T ss_pred cCChHHhc--cCeeccceeehhHHHHHHHHHH-cCCCccceeEeccCCHHHHHHHHcCCCCceeeccHhHH
Confidence 89999999 888887222 222222 333 44444444444433667888888999998777666654
No 498
>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=32.77 E-value=1.6e+02 Score=29.37 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=49.8
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEec-Chh---
Q 004136 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLD--- 243 (771)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~-~~~--- 243 (771)
|+++..+ ++|. ..+.+.+.+.+++.| ..+...... .+. +...+.++.+.+.++|.|++ .. ...
T Consensus 2 Igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~-~~~------~~~~~~i~~l~~~~vdgiIi-~~~~~~~~~ 70 (273)
T cd06292 2 VGLLVPELSNPIF--PAFAEAIEAALAQYG-YTVLLCNTY-RGG------VSEADYVEDLLARGVRGVVF-ISSLHADTH 70 (273)
T ss_pred EEEEeCCCcCchH--HHHHHHHHHHHHHCC-CEEEEEeCC-CCh------HHHHHHHHHHHHcCCCEEEE-eCCCCCccc
Confidence 4566653 4565 778899999999999 877543211 111 34566778888889999888 43 222
Q ss_pred HHHHHHHHHHHcCCC
Q 004136 244 MTIHLFTEANRMGLV 258 (771)
Q Consensus 244 ~~~~il~~a~~~g~~ 258 (771)
.....+.++.+.|++
T Consensus 71 ~~~~~i~~~~~~~ip 85 (273)
T cd06292 71 ADHSHYERLAERGLP 85 (273)
T ss_pred chhHHHHHHHhCCCC
Confidence 233456777777653
No 499
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=32.74 E-value=2.4e+02 Score=29.38 Aligned_cols=81 Identities=10% Similarity=-0.002 Sum_probs=51.6
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCeEEEEeeecCCCCCCCCchHHHHHHHHHhhhCCceEEEEEecChh
Q 004136 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (771)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~~~~~g~~~i~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vIv~~~~~~~ 243 (771)
.-+.|+++..+ ++|. ....+.+.+.+++.| ..+..... ..+. ......+..+.+.+.|.|++ .....
T Consensus 62 ~~~~Igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~~~~~~vdgiI~-~~~~~ 130 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVF--AEVLRGIESVTDAHG-YQTMLAHY-GYKP------EMEQERLESMLSWNIDGLIL-TERTH 130 (331)
T ss_pred CCCEEEEEeCCCcchhH--HHHHHHHHHHHHHCC-CEEEEecC-CCCH------HHHHHHHHHHHhcCCCEEEE-cCCCC
Confidence 44578888864 4465 677888999999999 77654321 1111 22345667777789999998 54221
Q ss_pred HHHHHHHHHHHcCCC
Q 004136 244 MTIHLFTEANRMGLV 258 (771)
Q Consensus 244 ~~~~il~~a~~~g~~ 258 (771)
....++.+.+.|++
T Consensus 131 -~~~~~~~l~~~~iP 144 (331)
T PRK14987 131 -TPRTLKMIEVAGIP 144 (331)
T ss_pred -CHHHHHHHHhCCCC
Confidence 23456677776653
No 500
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=32.64 E-value=3.8e+02 Score=27.84 Aligned_cols=147 Identities=15% Similarity=0.148 Sum_probs=73.2
Q ss_pred CcchhHHHHHHHHHHHhhCcccccccCCCCCCCcEEEEEEEeCCCcC--chHHHHHHHHHHHHHhcCCCCcEEEEEEecC
Q 004136 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQM--GKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (771)
Q Consensus 1 m~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~I~IG~i~p~s~~~--g~~~~~a~~~Av~~iN~~~~g~~i~l~~~D~ 78 (771)
|+|+ +..++++++++.+|++++.. ..+++|+.-=...+.. |.....+++ .-+ +.+++++...+
T Consensus 1 m~~~--l~~~~~~all~~~~~~a~~~-----t~~LtVytydSF~~ewg~Gp~vk~~FE----~~~----~~~v~fV~~~d 65 (336)
T COG4143 1 MRRL--LRALIGLALLVSAALGAQAA-----TPTLTVYTYDSFASEWGPGPKVKKAFE----AEY----GCKVNFVALGD 65 (336)
T ss_pred Chhh--HHHHHHHHHHHHHhhHHhhc-----CceEEEEEEeeeecccCCcHHHHHHHH----HHh----CceEEEEEcCc
Confidence 6663 33333333444444433322 2568888876655433 444444443 333 45888876544
Q ss_pred CCCHHHHHHHHHHHHh---cCCeEEEEcCCchHhHHHH-HHhhccCCccEEeecCCCCCCCccCCCCceEEEeecCcHHH
Q 004136 79 NRDPFQAATAAQELIN---KEKVKVIAGMETWEETAVV-AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQ 154 (771)
Q Consensus 79 ~~~~~~a~~~~~~li~---~~~v~aviGp~~s~~~~~v-~~~~~~~~iP~Is~~a~~~~~~l~~~~~p~~fr~~p~~~~~ 154 (771)
. .+...+++. +.+.++++|-.....+.+. +.+...++++.-. + + -|.-++.-+-
T Consensus 66 ~------v~llnRl~leg~~~~ADvvvGldn~~l~~A~~~glf~~~~~d~~~---------~-~--vp~~~~~d~f---- 123 (336)
T COG4143 66 G------VELLNRLILEGKNPKADVVVGLDNNLLARARETGLFAPYGVDASD---------V-P--VPEGWKIDTF---- 123 (336)
T ss_pred H------HHHHHHHHHcCCCCCCcEEEecChHHHHHHHhcCCcccCCCCccc---------C-C--CCcccccCcc----
Confidence 3 334444443 4577899997766555443 1233333333210 1 1 0111111000
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 004136 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (771)
Q Consensus 155 ~~a~~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~~~ 194 (771)
+--|++-.++++|+.+.. ...-+.|++..+
T Consensus 124 -------~~P~DyGy~a~vYd~~~~---~~ppksL~dL~~ 153 (336)
T COG4143 124 -------ALPYDYGYFAFVYDKTKL---KNPPKSLKDLVE 153 (336)
T ss_pred -------ccccccceEEEEEchHHh---cCCcccHHHhcC
Confidence 344677899999987654 333356666665
Done!