Query 002505
Match_columns 914
No_of_seqs 433 out of 4005
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 01:19:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002505.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002505hhsearch_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 1.7E-87 3.7E-92 690.3 48.9 782 28-865 22-846 (897)
2 KOG4440 NMDA selective glutama 100.0 4.6E-80 1E-84 638.2 38.2 748 27-864 30-857 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 3.9E-74 8.5E-79 616.5 59.2 706 81-863 83-856 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 1.6E-63 3.6E-68 588.8 53.0 597 214-865 5-625 (656)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.4E-46 3.1E-51 406.9 39.9 367 34-426 1-399 (400)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1E-45 2.3E-50 409.7 38.9 370 32-426 2-382 (384)
7 cd06374 PBP1_mGluR_groupI Liga 100.0 1.4E-45 3E-50 419.2 39.3 380 27-427 4-469 (472)
8 cd06362 PBP1_mGluR Ligand bind 100.0 1.6E-45 3.5E-50 418.7 39.9 375 31-425 1-450 (452)
9 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 3.4E-45 7.3E-50 397.3 38.9 360 34-425 1-363 (364)
10 cd06375 PBP1_mGluR_groupII Lig 100.0 5.3E-45 1.1E-49 410.2 41.1 369 31-421 1-454 (458)
11 cd06364 PBP1_CaSR Ligand-bindi 100.0 6.7E-45 1.4E-49 413.4 41.9 379 27-422 7-494 (510)
12 cd06361 PBP1_GPC6A_like Ligand 100.0 6.9E-45 1.5E-49 402.2 39.7 334 46-424 34-396 (403)
13 cd06376 PBP1_mGluR_groupIII Li 100.0 2E-44 4.3E-49 409.1 40.8 371 31-421 1-452 (463)
14 cd06365 PBP1_Pheromone_recepto 100.0 1.3E-44 2.9E-49 408.8 38.2 371 31-422 1-453 (469)
15 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.2E-43 2.6E-48 383.5 40.0 366 34-425 1-371 (372)
16 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.4E-43 5.2E-48 386.8 39.5 368 34-425 1-398 (400)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 3E-43 6.4E-48 391.5 40.8 375 34-425 1-381 (382)
18 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.7E-43 5.9E-48 390.4 40.4 336 30-422 17-364 (377)
19 cd06386 PBP1_NPR_C_like Ligand 100.0 3.9E-43 8.6E-48 388.7 40.2 358 35-423 2-380 (387)
20 cd06366 PBP1_GABAb_receptor Li 100.0 2.7E-43 5.9E-48 387.6 36.7 343 34-427 1-348 (350)
21 cd06367 PBP1_iGluR_NMDA N-term 100.0 5.5E-43 1.2E-47 386.3 36.2 339 32-421 2-351 (362)
22 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 2.4E-42 5.3E-47 377.0 40.1 366 34-426 1-370 (371)
23 cd06363 PBP1_Taste_receptor Li 100.0 2.4E-42 5.2E-47 386.4 38.8 351 29-422 3-396 (410)
24 cd06370 PBP1_Speract_GC_like L 100.0 2.6E-42 5.5E-47 385.4 38.0 352 33-413 1-386 (404)
25 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 8.1E-42 1.8E-46 374.2 39.3 363 34-426 1-369 (370)
26 cd06373 PBP1_NPR_like Ligand b 100.0 4.7E-42 1E-46 383.5 37.2 363 34-423 1-390 (396)
27 cd06385 PBP1_NPR_A Ligand-bind 100.0 7.2E-42 1.6E-46 382.9 38.7 362 34-423 1-392 (405)
28 cd06372 PBP1_GC_G_like Ligand- 100.0 1.2E-41 2.6E-46 379.5 38.6 362 34-423 1-387 (391)
29 cd06352 PBP1_NPR_GC_like Ligan 100.0 3.5E-41 7.6E-46 376.6 38.5 365 34-424 1-384 (389)
30 cd06371 PBP1_sensory_GC_DEF_li 100.0 3.5E-41 7.6E-46 372.1 37.8 352 34-419 1-369 (382)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.6E-40 5.7E-45 368.8 38.7 362 34-423 1-393 (399)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 6.3E-41 1.4E-45 364.8 31.6 321 34-425 1-326 (327)
33 cd06394 PBP1_iGluR_Kainate_KA1 100.0 9.8E-41 2.1E-45 355.2 27.9 326 34-426 1-332 (333)
34 KOG1056 Glutamate-gated metabo 100.0 1.3E-39 2.7E-44 365.3 37.1 398 26-464 25-494 (878)
35 PRK15404 leucine ABC transport 100.0 1.3E-38 2.7E-43 350.0 37.2 338 29-413 22-364 (369)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 4.1E-37 8.8E-42 337.0 35.0 328 34-408 1-334 (334)
37 PF01094 ANF_receptor: Recepto 100.0 2.5E-37 5.4E-42 341.2 32.9 339 49-409 2-348 (348)
38 cd06368 PBP1_iGluR_non_NMDA_li 100.0 3E-37 6.5E-42 336.0 32.6 321 34-425 1-323 (324)
39 cd06381 PBP1_iGluR_delta_like 100.0 5E-36 1.1E-40 325.5 36.6 336 34-425 1-362 (363)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 4.1E-36 8.8E-41 330.2 33.2 328 34-407 1-344 (345)
41 cd06345 PBP1_ABC_ligand_bindin 100.0 5.3E-36 1.2E-40 328.6 33.5 320 34-399 1-337 (344)
42 cd06346 PBP1_ABC_ligand_bindin 100.0 3E-36 6.6E-41 325.3 30.5 304 34-405 1-310 (312)
43 cd06348 PBP1_ABC_ligand_bindin 100.0 1.1E-35 2.3E-40 326.4 34.5 334 34-405 1-343 (344)
44 cd06350 PBP1_GPCR_family_C_lik 100.0 1.8E-35 3.9E-40 325.7 31.5 308 34-422 1-340 (348)
45 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 2.4E-35 5.2E-40 319.6 31.0 302 79-426 43-354 (362)
46 cd06355 PBP1_FmdD_like Peripla 100.0 9.1E-35 2E-39 318.2 34.5 337 34-416 1-345 (348)
47 TIGR03669 urea_ABC_arch urea A 100.0 1.5E-34 3.2E-39 316.5 34.7 341 33-420 1-349 (374)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 5.5E-35 1.2E-39 320.3 31.2 324 34-401 1-342 (347)
49 COG0683 LivK ABC-type branched 100.0 1.9E-34 4.2E-39 316.1 33.8 339 30-412 8-356 (366)
50 cd06344 PBP1_ABC_ligand_bindin 100.0 1.1E-34 2.4E-39 316.3 30.8 319 34-400 1-326 (332)
51 cd06329 PBP1_SBP_like_3 Peripl 100.0 1.7E-34 3.8E-39 315.9 31.7 316 34-397 1-334 (342)
52 TIGR03407 urea_ABC_UrtA urea A 100.0 9.8E-34 2.1E-38 311.2 36.2 330 33-408 1-337 (359)
53 cd06343 PBP1_ABC_ligand_bindin 100.0 1.5E-33 3.3E-38 311.7 35.7 341 30-413 4-362 (362)
54 cd06349 PBP1_ABC_ligand_bindin 100.0 1.3E-33 2.7E-38 309.5 34.3 329 34-412 1-339 (340)
55 cd06331 PBP1_AmiC_like Type I 100.0 8.5E-34 1.8E-38 309.6 32.5 320 34-399 1-326 (333)
56 cd06347 PBP1_ABC_ligand_bindin 100.0 1.6E-33 3.5E-38 308.6 34.2 321 34-402 1-330 (334)
57 PF13433 Peripla_BP_5: Peripla 100.0 1.4E-33 2.9E-38 291.4 28.1 352 33-464 1-359 (363)
58 cd06357 PBP1_AmiC Periplasmic 100.0 8E-33 1.7E-37 304.1 36.1 339 34-417 1-347 (360)
59 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.9E-33 4.1E-38 307.1 30.2 320 34-401 1-330 (334)
60 cd06336 PBP1_ABC_ligand_bindin 100.0 2.9E-33 6.3E-38 306.7 30.8 323 34-402 1-343 (347)
61 cd06359 PBP1_Nba_like Type I p 100.0 6.8E-33 1.5E-37 302.4 32.7 324 34-406 1-331 (333)
62 cd06330 PBP1_Arsenic_SBP_like 100.0 9.9E-33 2.1E-37 303.3 32.4 321 34-396 1-334 (346)
63 cd06328 PBP1_SBP_like_2 Peripl 100.0 1.9E-32 4.2E-37 298.1 32.5 318 34-399 1-327 (333)
64 cd06360 PBP1_alkylbenzenes_lik 100.0 4.7E-32 1E-36 297.0 33.8 325 34-403 1-332 (336)
65 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4.3E-33 9.3E-38 303.1 25.3 334 42-403 7-355 (368)
66 PF13458 Peripla_BP_6: Peripla 100.0 1.9E-32 4.1E-37 301.4 30.4 333 32-410 1-340 (343)
67 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 4E-31 8.7E-36 280.5 37.7 337 28-425 14-374 (382)
68 cd06356 PBP1_Amide_Urea_BP_lik 100.0 6.9E-32 1.5E-36 293.9 32.5 317 34-397 1-325 (334)
69 cd06334 PBP1_ABC_ligand_bindin 100.0 5.3E-32 1.1E-36 295.4 31.5 329 34-397 1-347 (351)
70 cd06358 PBP1_NHase Type I peri 100.0 1E-31 2.2E-36 293.1 33.7 316 34-397 1-324 (333)
71 cd06335 PBP1_ABC_ligand_bindin 100.0 8.7E-32 1.9E-36 295.0 32.8 323 34-397 1-337 (347)
72 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 4.8E-31 1E-35 288.4 32.2 317 34-421 1-322 (328)
73 cd06332 PBP1_aromatic_compound 100.0 1.1E-30 2.4E-35 286.0 33.1 320 34-401 1-327 (333)
74 KOG1055 GABA-B ion channel rec 100.0 4.2E-32 9.1E-37 293.7 20.4 375 27-424 36-432 (865)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 3.9E-30 8.5E-35 282.7 28.5 330 34-412 1-356 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 2.9E-28 6.2E-33 267.1 32.7 318 33-395 1-327 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 1.4E-28 3.1E-33 267.5 25.3 302 34-398 1-329 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 5.1E-28 1.1E-32 260.8 26.1 298 46-408 10-315 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 5.3E-27 1.2E-31 257.3 30.4 317 34-397 1-330 (341)
80 cd06333 PBP1_ABC-type_HAAT_lik 100.0 3.6E-26 7.9E-31 247.3 29.8 279 34-331 1-293 (312)
81 cd06269 PBP1_glutamate_recepto 99.9 2.9E-26 6.2E-31 247.0 27.0 224 34-263 1-235 (298)
82 cd04509 PBP1_ABC_transporter_G 99.9 6.1E-26 1.3E-30 244.5 27.5 280 34-329 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 2.1E-24 4.5E-29 232.4 28.6 280 34-331 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 7.4E-23 1.6E-27 210.8 30.0 323 47-423 18-366 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 3E-21 6.5E-26 200.7 20.5 218 469-813 24-243 (247)
86 PRK10797 glutamate and asparta 99.9 1.3E-20 2.8E-25 200.2 21.4 223 469-814 39-272 (302)
87 PRK11260 cystine transporter s 99.8 4.7E-20 1E-24 193.9 20.3 221 468-813 39-261 (266)
88 PF00497 SBP_bac_3: Bacterial 99.8 1.7E-20 3.7E-25 192.7 16.0 221 472-813 1-224 (225)
89 PRK15010 ABC transporter lysin 99.8 9.6E-20 2.1E-24 190.8 21.5 222 468-813 24-254 (260)
90 PRK11917 bifunctional adhesin/ 99.8 2.3E-19 4.9E-24 186.8 20.9 218 469-812 37-258 (259)
91 PRK15007 putative ABC transpor 99.8 1.9E-19 4.2E-24 187.0 20.3 217 469-813 20-242 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.8 2.3E-19 5E-24 187.5 19.7 218 470-812 24-250 (250)
93 PRK15437 histidine ABC transpo 99.8 5.9E-19 1.3E-23 184.7 20.2 221 469-813 25-254 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 9.5E-19 2.1E-23 184.7 18.7 222 469-813 32-261 (275)
95 PRK10859 membrane-bound lytic 99.8 1.3E-17 2.8E-22 188.9 18.9 221 468-813 41-266 (482)
96 PRK09959 hybrid sensory histid 99.7 1.4E-16 3E-21 203.9 22.3 215 470-813 302-520 (1197)
97 TIGR03870 ABC_MoxJ methanol ox 99.7 2.8E-16 6E-21 162.7 16.7 208 471-811 1-241 (246)
98 TIGR02285 conserved hypothetic 99.7 3.1E-16 6.6E-21 165.0 16.0 229 469-813 17-261 (268)
99 PF00060 Lig_chan: Ligand-gate 99.7 1.8E-18 4E-23 164.2 -1.7 107 591-697 1-115 (148)
100 COG0834 HisJ ABC-type amino ac 99.7 2.1E-15 4.6E-20 160.1 18.9 224 469-813 33-264 (275)
101 cd00134 PBPb Bacterial peripla 99.7 3.4E-15 7.4E-20 152.0 19.4 214 472-812 1-218 (218)
102 PRK09959 hybrid sensory histid 99.6 1.4E-15 3E-20 194.8 17.6 221 468-814 54-278 (1197)
103 smart00062 PBPb Bacterial peri 99.6 7.3E-15 1.6E-19 149.5 18.6 215 471-812 1-219 (219)
104 cd01391 Periplasmic_Binding_Pr 99.6 3.4E-14 7.3E-19 149.9 22.4 217 34-262 1-221 (269)
105 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 2E-14 4.3E-19 148.2 18.6 210 472-812 2-228 (232)
106 PF04348 LppC: LppC putative l 99.4 4.2E-11 9.1E-16 135.7 21.3 234 30-286 217-456 (536)
107 smart00079 PBPe Eukaryotic hom 99.3 7.4E-12 1.6E-16 116.5 11.7 123 686-813 1-133 (134)
108 COG4623 Predicted soluble lyti 99.2 6.6E-11 1.4E-15 119.4 13.2 220 469-813 22-247 (473)
109 cd01537 PBP1_Repressors_Sugar_ 98.9 1.3E-07 2.7E-12 99.5 19.7 202 34-253 1-208 (264)
110 TIGR01098 3A0109s03R phosphate 98.8 3.3E-08 7.2E-13 103.3 13.8 198 470-798 32-254 (254)
111 cd01536 PBP1_ABC_sugar_binding 98.8 6E-07 1.3E-11 94.6 22.4 207 34-258 1-215 (267)
112 cd06267 PBP1_LacI_sugar_bindin 98.7 5.8E-07 1.2E-11 94.5 19.5 202 34-253 1-207 (264)
113 cd06300 PBP1_ABC_sugar_binding 98.7 1.6E-06 3.4E-11 91.8 22.3 202 34-250 1-211 (272)
114 PRK00489 hisG ATP phosphoribos 98.7 5.2E-08 1.1E-12 102.6 10.1 164 528-813 51-219 (287)
115 cd06325 PBP1_ABC_uncharacteriz 98.7 1.3E-06 2.8E-11 92.9 20.5 201 34-247 1-208 (281)
116 PF10613 Lig_chan-Glu_bd: Liga 98.7 5.2E-09 1.1E-13 80.0 1.4 49 491-539 14-65 (65)
117 COG2984 ABC-type uncharacteriz 98.6 1E-05 2.2E-10 82.2 23.3 204 28-247 26-240 (322)
118 COG3107 LppC Putative lipoprot 98.6 4.2E-06 9.1E-11 89.3 19.4 316 30-416 255-603 (604)
119 cd06320 PBP1_allose_binding Pe 98.5 1.4E-05 3E-10 84.6 23.1 208 34-258 1-216 (275)
120 cd06282 PBP1_GntR_like_2 Ligan 98.4 2E-05 4.3E-10 83.0 19.7 198 34-251 1-204 (266)
121 PRK10653 D-ribose transporter 98.3 0.00017 3.7E-09 77.1 25.4 209 31-258 25-240 (295)
122 cd06323 PBP1_ribose_binding Pe 98.3 9.1E-05 2E-09 78.0 21.8 205 34-258 1-214 (268)
123 cd06319 PBP1_ABC_sugar_binding 98.3 9.4E-05 2E-09 78.3 21.5 207 34-258 1-219 (277)
124 cd06273 PBP1_GntR_like_1 This 98.3 5.9E-05 1.3E-09 79.4 19.7 200 34-251 1-206 (268)
125 cd06317 PBP1_ABC_sugar_binding 98.3 9.6E-05 2.1E-09 78.2 21.3 210 34-258 1-221 (275)
126 cd06312 PBP1_ABC_sugar_binding 98.2 0.00021 4.7E-09 75.3 22.7 209 34-258 1-217 (271)
127 cd06310 PBP1_ABC_sugar_binding 98.2 0.00034 7.3E-09 73.9 23.5 210 34-259 1-218 (273)
128 cd06301 PBP1_rhizopine_binding 98.2 0.00039 8.4E-09 73.4 22.9 210 34-259 1-219 (272)
129 cd06305 PBP1_methylthioribose_ 98.2 0.00026 5.7E-09 74.7 21.5 208 34-258 1-217 (273)
130 PF13407 Peripla_BP_4: Peripla 98.1 0.00039 8.4E-09 72.7 21.8 202 35-250 1-209 (257)
131 PRK10936 TMAO reductase system 98.1 0.0014 3E-08 71.7 25.4 208 30-256 44-262 (343)
132 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00039 8.4E-09 73.3 19.9 208 34-258 1-215 (270)
133 TIGR03431 PhnD phosphonate ABC 98.0 7.7E-05 1.7E-09 79.4 14.3 117 685-807 125-258 (288)
134 PRK09701 D-allose transporter 98.0 0.003 6.5E-08 68.1 26.2 213 34-258 26-250 (311)
135 PRK15395 methyl-galactoside AB 98.0 0.002 4.3E-08 70.0 24.9 209 29-247 21-249 (330)
136 cd06309 PBP1_YtfQ_like Peripla 98.0 0.0012 2.6E-08 69.7 22.4 210 34-258 1-221 (273)
137 cd06298 PBP1_CcpA_like Ligand- 98.0 0.00057 1.2E-08 71.9 19.8 207 34-258 1-213 (268)
138 cd06289 PBP1_MalI_like Ligand- 97.9 0.00082 1.8E-08 70.7 19.4 208 34-258 1-214 (268)
139 cd06303 PBP1_LuxPQ_Quorum_Sens 97.9 0.002 4.4E-08 68.2 22.5 212 34-258 1-224 (280)
140 cd01539 PBP1_GGBP Periplasmic 97.9 0.0025 5.3E-08 68.5 22.7 216 34-258 1-240 (303)
141 COG1879 RbsB ABC-type sugar tr 97.9 0.0028 6.1E-08 68.7 23.4 205 31-249 32-245 (322)
142 cd06308 PBP1_sensor_kinase_lik 97.9 0.0028 6.1E-08 66.7 22.7 208 34-259 1-217 (270)
143 cd06284 PBP1_LacI_like_6 Ligan 97.8 0.0016 3.5E-08 68.4 20.4 197 35-250 2-203 (267)
144 cd06311 PBP1_ABC_sugar_binding 97.8 0.0038 8.3E-08 65.9 23.2 211 35-258 2-219 (274)
145 cd06321 PBP1_ABC_sugar_binding 97.8 0.0031 6.7E-08 66.4 22.0 206 34-258 1-214 (271)
146 cd06322 PBP1_ABC_sugar_binding 97.8 0.0045 9.8E-08 65.0 22.9 203 35-258 2-212 (267)
147 cd01540 PBP1_arabinose_binding 97.8 0.0042 9E-08 66.2 22.3 215 34-259 1-230 (289)
148 PRK10355 xylF D-xylose transpo 97.8 0.0078 1.7E-07 65.3 24.4 202 30-248 23-236 (330)
149 TIGR01481 ccpA catabolite cont 97.8 0.0025 5.4E-08 69.4 20.8 203 31-251 58-264 (329)
150 cd06275 PBP1_PurR Ligand-bindi 97.7 0.003 6.5E-08 66.5 20.2 202 34-252 1-207 (269)
151 cd06288 PBP1_sucrose_transcrip 97.7 0.0021 4.5E-08 67.7 19.0 203 34-255 1-209 (269)
152 cd01542 PBP1_TreR_like Ligand- 97.7 0.0028 6.2E-08 66.2 19.8 199 35-256 2-206 (259)
153 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0034 7.3E-08 66.0 20.3 206 34-257 1-212 (268)
154 cd01538 PBP1_ABC_xylose_bindin 97.7 0.0063 1.4E-07 64.7 22.5 205 34-256 1-222 (288)
155 cd06306 PBP1_TorT-like TorT-li 97.7 0.0059 1.3E-07 64.2 21.8 202 34-256 1-215 (268)
156 PF00532 Peripla_BP_1: Peripla 97.7 0.0034 7.3E-08 66.2 19.8 203 34-253 3-211 (279)
157 cd06283 PBP1_RegR_EndR_KdgR_li 97.7 0.0051 1.1E-07 64.5 21.2 202 34-253 1-208 (267)
158 cd06324 PBP1_ABC_sugar_binding 97.6 0.0068 1.5E-07 65.1 21.8 211 35-258 2-238 (305)
159 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0032 6.8E-08 66.3 18.8 206 34-258 1-212 (269)
160 cd06295 PBP1_CelR Ligand bindi 97.6 0.0044 9.5E-08 65.4 19.6 204 33-258 4-222 (275)
161 PRK10703 DNA-binding transcrip 97.6 0.0046 1E-07 67.7 20.4 206 32-254 59-270 (341)
162 cd06293 PBP1_LacI_like_11 Liga 97.6 0.0074 1.6E-07 63.5 21.2 204 34-255 1-209 (269)
163 cd06316 PBP1_ABC_sugar_binding 97.6 0.01 2.3E-07 63.3 22.5 211 34-258 1-219 (294)
164 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0044 9.6E-08 65.1 19.3 200 35-253 2-211 (268)
165 PRK15408 autoinducer 2-binding 97.6 0.021 4.6E-07 61.9 24.7 199 33-248 24-234 (336)
166 cd06285 PBP1_LacI_like_7 Ligan 97.6 0.0061 1.3E-07 63.9 19.9 204 34-258 1-211 (265)
167 cd06270 PBP1_GalS_like Ligand 97.6 0.0086 1.9E-07 62.9 21.1 207 34-258 1-213 (268)
168 cd01574 PBP1_LacI Ligand-bindi 97.6 0.011 2.3E-07 62.0 21.6 204 34-258 1-210 (264)
169 cd06274 PBP1_FruR Ligand bindi 97.6 0.0093 2E-07 62.5 21.0 204 34-255 1-210 (264)
170 cd06299 PBP1_LacI_like_13 Liga 97.5 0.0079 1.7E-07 63.1 19.8 200 34-251 1-203 (265)
171 cd06318 PBP1_ABC_sugar_binding 97.5 0.02 4.3E-07 60.7 22.9 207 34-256 1-222 (282)
172 cd06278 PBP1_LacI_like_2 Ligan 97.5 0.008 1.7E-07 63.0 19.7 190 35-245 2-196 (266)
173 cd06313 PBP1_ABC_sugar_binding 97.5 0.021 4.5E-07 60.2 22.5 180 69-258 29-216 (272)
174 cd06314 PBP1_tmGBP Periplasmic 97.5 0.026 5.7E-07 59.3 23.3 205 34-258 1-213 (271)
175 cd06296 PBP1_CatR_like Ligand- 97.5 0.0086 1.9E-07 63.0 19.5 207 34-258 1-214 (270)
176 cd06307 PBP1_uncharacterized_s 97.5 0.021 4.5E-07 60.3 22.3 210 34-258 1-219 (275)
177 cd06292 PBP1_LacI_like_10 Liga 97.5 0.014 3.1E-07 61.4 21.0 202 35-252 2-210 (273)
178 PRK10014 DNA-binding transcrip 97.5 0.015 3.3E-07 63.6 21.7 203 31-250 63-270 (342)
179 PRK11303 DNA-binding transcrip 97.5 0.022 4.9E-07 61.8 22.8 203 31-253 60-268 (328)
180 TIGR02955 TMAO_TorT TMAO reduc 97.4 0.028 6E-07 60.0 22.4 195 34-247 1-207 (295)
181 cd06286 PBP1_CcpB_like Ligand- 97.4 0.014 3E-07 61.0 19.3 198 34-251 1-203 (260)
182 cd06294 PBP1_ycjW_transcriptio 97.4 0.014 3E-07 61.4 19.3 206 34-257 1-218 (270)
183 cd06354 PBP1_BmpA_PnrA_like Pe 97.4 0.018 4E-07 60.3 20.0 195 34-246 1-206 (265)
184 PRK10423 transcriptional repre 97.4 0.025 5.5E-07 61.4 21.8 205 31-254 55-266 (327)
185 COG1609 PurR Transcriptional r 97.4 0.025 5.5E-07 61.2 21.3 201 31-251 57-265 (333)
186 PF04392 ABC_sub_bind: ABC tra 97.3 0.0099 2.1E-07 63.3 17.8 185 34-232 1-194 (294)
187 TIGR02417 fruct_sucro_rep D-fr 97.3 0.029 6.3E-07 60.9 21.7 207 31-258 59-273 (327)
188 cd06290 PBP1_LacI_like_9 Ligan 97.3 0.023 5E-07 59.5 20.1 206 34-258 1-212 (265)
189 cd06291 PBP1_Qymf_like Ligand 97.3 0.024 5.2E-07 59.4 20.1 194 34-251 1-201 (265)
190 cd06302 PBP1_LsrB_Quorum_Sensi 97.3 0.046 1E-06 58.4 22.6 210 34-258 1-219 (298)
191 cd06280 PBP1_LacI_like_4 Ligan 97.3 0.026 5.7E-07 59.0 19.9 198 34-254 1-203 (263)
192 cd06304 PBP1_BmpA_like Peripla 97.3 0.031 6.6E-07 58.4 20.2 198 34-246 1-202 (260)
193 PRK10727 DNA-binding transcrip 97.2 0.028 6.1E-07 61.5 20.7 204 31-253 58-267 (343)
194 cd06277 PBP1_LacI_like_1 Ligan 97.2 0.032 6.9E-07 58.6 20.1 204 34-257 1-212 (268)
195 cd06272 PBP1_hexuronate_repres 97.2 0.019 4.2E-07 60.0 18.1 195 34-251 1-200 (261)
196 cd06297 PBP1_LacI_like_12 Liga 97.2 0.033 7.1E-07 58.6 19.8 203 34-258 1-216 (269)
197 PRK09492 treR trehalose repres 97.1 0.056 1.2E-06 58.3 21.3 191 31-247 61-256 (315)
198 cd01541 PBP1_AraR Ligand-bindi 97.1 0.037 8.1E-07 58.2 19.5 201 35-252 2-212 (273)
199 PRK09526 lacI lac repressor; R 97.1 0.074 1.6E-06 58.2 22.3 200 32-253 63-270 (342)
200 cd06279 PBP1_LacI_like_3 Ligan 97.1 0.038 8.2E-07 58.6 19.3 201 35-258 2-231 (283)
201 PRK11553 alkanesulfonate trans 96.9 0.0069 1.5E-07 65.3 11.7 112 685-802 119-237 (314)
202 PF12974 Phosphonate-bd: ABC t 96.9 0.0073 1.6E-07 62.4 11.2 121 685-811 95-230 (243)
203 TIGR02634 xylF D-xylose ABC tr 96.9 0.14 2.9E-06 54.9 21.4 197 35-248 1-209 (302)
204 PRK11041 DNA-binding transcrip 96.9 0.11 2.4E-06 55.7 20.9 208 30-255 33-245 (309)
205 PRK14987 gluconate operon tran 96.9 0.14 3E-06 55.7 21.8 205 32-255 63-271 (331)
206 cd01543 PBP1_XylR Ligand-bindi 96.9 0.053 1.1E-06 56.8 17.6 201 34-258 1-207 (265)
207 PRK10401 DNA-binding transcrip 96.8 0.14 3E-06 56.1 21.5 204 31-253 58-267 (346)
208 TIGR01729 taurine_ABC_bnd taur 96.7 0.0086 1.9E-07 64.1 10.3 107 685-798 90-209 (300)
209 TIGR02405 trehalos_R_Ecol treh 96.7 0.23 5E-06 53.4 21.2 190 32-247 59-253 (311)
210 TIGR02637 RhaS rhamnose ABC tr 96.6 0.5 1.1E-05 50.5 23.6 198 35-248 1-210 (302)
211 cd06353 PBP1_BmpA_Med_like Per 96.4 0.15 3.2E-06 53.0 16.8 193 34-247 1-201 (258)
212 cd01544 PBP1_GalR Ligand-bindi 96.2 0.27 5.8E-06 51.6 18.2 199 34-257 1-214 (270)
213 cd06315 PBP1_ABC_sugar_binding 96.2 0.75 1.6E-05 48.5 21.3 203 34-250 2-216 (280)
214 PF13379 NMT1_2: NMT1-like fam 96.1 0.02 4.3E-07 59.5 8.4 74 685-763 104-189 (252)
215 COG3221 PhnD ABC-type phosphat 95.9 0.29 6.3E-06 51.3 16.0 119 685-809 134-269 (299)
216 TIGR03427 ABC_peri_uca ABC tra 95.6 0.055 1.2E-06 58.1 9.4 68 687-761 98-170 (328)
217 COG1744 Med Uncharacterized AB 95.4 1.2 2.5E-05 48.3 18.8 205 30-248 33-245 (345)
218 COG4213 XylF ABC-type xylose t 95.1 4.6 9.9E-05 41.6 20.0 206 27-250 20-244 (341)
219 PF03466 LysR_substrate: LysR 94.8 1.2 2.6E-05 44.0 16.0 197 470-800 6-206 (209)
220 cd05466 PBP2_LTTR_substrate Th 94.3 2.2 4.8E-05 41.1 16.6 70 497-578 13-82 (197)
221 TIGR02122 TRAP_TAXI TRAP trans 94.3 0.15 3.3E-06 55.0 8.8 61 685-751 131-197 (320)
222 TIGR01728 SsuA_fam ABC transpo 94.2 0.44 9.6E-06 50.4 11.9 71 685-761 91-165 (288)
223 cd06287 PBP1_LacI_like_8 Ligan 94.2 4.6 0.0001 42.2 19.4 155 93-255 52-210 (269)
224 cd08442 PBP2_YofA_SoxR_like Th 94.2 3.5 7.7E-05 39.8 17.6 70 497-578 13-82 (193)
225 cd08468 PBP2_Pa0477 The C-term 94.1 2.7 5.8E-05 41.3 16.7 73 497-578 13-85 (202)
226 TIGR02990 ectoine_eutA ectoine 93.9 0.96 2.1E-05 45.9 12.6 95 150-247 105-207 (239)
227 PRK11151 DNA-binding transcrip 93.8 2.7 5.9E-05 44.9 17.1 83 470-578 91-173 (305)
228 CHL00180 rbcR LysR transcripti 93.7 3.8 8.2E-05 43.8 17.9 86 470-578 95-180 (305)
229 cd08420 PBP2_CysL_like C-termi 93.6 4.1 8.9E-05 39.5 16.9 70 497-578 13-82 (201)
230 cd08440 PBP2_LTTR_like_4 TThe 93.5 4.8 0.0001 38.9 17.3 70 497-578 13-82 (197)
231 cd08459 PBP2_DntR_NahR_LinR_li 93.4 2.8 6.2E-05 41.0 15.5 70 497-578 13-82 (201)
232 cd08438 PBP2_CidR The C-termin 93.4 5.6 0.00012 38.5 17.5 70 497-578 13-82 (197)
233 cd08433 PBP2_Nac The C-teminal 93.3 5.6 0.00012 38.6 17.3 70 497-578 13-82 (198)
234 cd08421 PBP2_LTTR_like_1 The C 93.2 5 0.00011 39.0 16.8 70 497-578 13-82 (198)
235 PRK10339 DNA-binding transcrip 93.2 4.7 0.0001 43.6 17.8 152 96-258 113-270 (327)
236 PF09084 NMT1: NMT1/THI5 like; 93.2 0.41 8.9E-06 48.2 8.9 60 685-750 83-146 (216)
237 cd08412 PBP2_PAO1_like The C-t 93.1 5.2 0.00011 38.8 16.8 71 496-578 12-82 (198)
238 cd06276 PBP1_FucR_like Ligand- 92.7 6.8 0.00015 40.3 17.4 143 90-251 45-190 (247)
239 cd08462 PBP2_NodD The C-termin 92.6 3.9 8.4E-05 40.1 15.0 69 497-578 13-81 (200)
240 cd08463 PBP2_DntR_like_4 The C 92.5 7 0.00015 38.5 16.7 71 497-578 13-83 (203)
241 PRK12684 transcriptional regul 92.4 4.6 9.9E-05 43.4 16.2 84 470-578 93-176 (313)
242 cd08418 PBP2_TdcA The C-termin 92.3 8.5 0.00018 37.4 17.1 72 497-578 13-84 (201)
243 PRK11242 DNA-binding transcrip 92.3 6.6 0.00014 41.6 17.2 83 470-578 91-173 (296)
244 cd08417 PBP2_Nitroaromatics_li 92.3 4.7 0.0001 39.2 15.1 70 497-578 13-82 (200)
245 cd08434 PBP2_GltC_like The sub 92.3 9.4 0.0002 36.7 17.2 70 497-578 13-82 (195)
246 cd08444 PBP2_Cbl The C-termina 92.1 9 0.0002 37.3 16.9 71 497-578 13-83 (198)
247 PRK10837 putative DNA-binding 91.9 10 0.00023 39.9 18.2 83 470-578 89-171 (290)
248 TIGR00363 lipoprotein, YaeC fa 91.7 5.5 0.00012 41.1 14.9 119 685-811 106-250 (258)
249 cd08419 PBP2_CbbR_RubisCO_like 91.7 13 0.00027 35.9 17.5 70 497-578 12-81 (197)
250 PRK11233 nitrogen assimilation 91.7 5.9 0.00013 42.3 16.1 83 470-577 91-173 (305)
251 cd08426 PBP2_LTTR_like_5 The C 91.6 12 0.00026 36.2 17.2 70 497-578 13-82 (199)
252 cd08415 PBP2_LysR_opines_like 91.6 10 0.00022 36.7 16.6 70 497-578 13-82 (196)
253 PF02608 Bmp: Basic membrane p 91.5 12 0.00025 40.0 17.8 199 33-248 2-213 (306)
254 PRK12679 cbl transcriptional r 91.5 10 0.00023 40.7 17.7 207 470-813 93-306 (316)
255 TIGR00787 dctP tripartite ATP- 91.4 1.1 2.5E-05 46.4 9.7 102 685-798 126-230 (257)
256 cd08460 PBP2_DntR_like_1 The C 91.3 3.1 6.7E-05 40.7 12.6 70 496-578 12-81 (200)
257 PF12683 DUF3798: Protein of u 91.2 14 0.0003 37.6 16.1 206 32-247 2-224 (275)
258 cd08461 PBP2_DntR_like_3 The C 91.1 8.4 0.00018 37.4 15.5 70 497-578 13-82 (198)
259 cd06353 PBP1_BmpA_Med_like Per 91.1 0.98 2.1E-05 46.9 8.8 87 34-129 122-208 (258)
260 PRK12681 cysB transcriptional 90.8 7.3 0.00016 42.0 15.6 84 470-578 93-176 (324)
261 cd08466 PBP2_LeuO The C-termin 90.6 8.6 0.00019 37.4 15.1 70 497-578 13-82 (200)
262 cd08467 PBP2_SyrM The C-termin 90.4 14 0.0003 36.0 16.4 70 497-578 13-82 (200)
263 PRK12683 transcriptional regul 90.3 9.1 0.0002 40.9 15.9 84 470-578 93-176 (309)
264 cd08436 PBP2_LTTR_like_3 The C 90.0 17 0.00037 34.8 16.5 71 497-578 13-83 (194)
265 PF13377 Peripla_BP_3: Peripla 89.8 1.1 2.3E-05 42.5 7.3 100 157-258 1-104 (160)
266 cd08411 PBP2_OxyR The C-termin 89.8 14 0.00031 35.8 15.8 70 497-578 14-83 (200)
267 cd08413 PBP2_CysB_like The C-t 89.7 13 0.00028 36.3 15.4 71 497-578 13-83 (198)
268 cd08429 PBP2_NhaR The C-termin 89.4 20 0.00044 35.2 16.6 71 497-576 13-83 (204)
269 PF07885 Ion_trans_2: Ion chan 89.4 0.49 1.1E-05 38.7 3.9 55 625-679 22-78 (79)
270 cd08425 PBP2_CynR The C-termin 89.3 16 0.00035 35.2 15.8 70 497-578 14-83 (197)
271 PRK12682 transcriptional regul 89.1 19 0.00041 38.4 17.2 84 470-578 93-176 (309)
272 cd08427 PBP2_LTTR_like_2 The C 89.1 18 0.00039 34.8 15.9 72 497-578 13-84 (195)
273 cd08465 PBP2_ToxR The C-termin 88.7 9.9 0.00022 37.2 13.8 70 497-578 13-82 (200)
274 cd08469 PBP2_PnbR The C-termin 88.5 18 0.00039 35.9 15.8 70 497-578 13-82 (221)
275 cd08441 PBP2_MetR The C-termin 88.5 22 0.00049 34.3 16.1 69 498-578 14-82 (198)
276 PRK12680 transcriptional regul 88.3 22 0.00048 38.4 17.0 84 470-578 93-176 (327)
277 TIGR01256 modA molybdenum ABC 88.2 5.8 0.00013 39.8 11.8 73 724-801 133-206 (216)
278 cd08449 PBP2_XapR The C-termin 87.9 26 0.00057 33.6 17.2 72 497-578 13-84 (197)
279 cd08423 PBP2_LTTR_like_6 The C 87.9 19 0.00042 34.7 15.3 73 497-578 13-87 (200)
280 cd08464 PBP2_DntR_like_2 The C 87.7 22 0.00047 34.4 15.5 70 497-578 13-82 (200)
281 PRK11480 tauA taurine transpor 87.7 2.8 6.1E-05 45.1 9.6 68 685-759 112-184 (320)
282 PRK10341 DNA-binding transcrip 87.1 21 0.00046 38.2 16.0 85 470-578 97-181 (312)
283 COG1454 EutG Alcohol dehydroge 87.0 5.7 0.00012 43.1 11.1 93 153-245 17-111 (377)
284 PF03480 SBP_bac_7: Bacterial 86.9 1.2 2.5E-05 47.2 6.0 102 668-784 112-214 (286)
285 PRK09791 putative DNA-binding 86.9 25 0.00053 37.4 16.3 85 470-578 95-179 (302)
286 cd08486 PBP2_CbnR The C-termin 86.7 26 0.00056 34.1 15.4 70 497-578 14-83 (198)
287 cd08451 PBP2_BudR The C-termin 86.6 31 0.00068 33.2 18.4 70 498-578 15-84 (199)
288 cd08456 PBP2_LysR The C-termin 86.6 25 0.00054 33.8 15.1 70 497-578 13-82 (196)
289 TIGR02424 TF_pcaQ pca operon t 86.6 27 0.00058 37.0 16.4 85 470-578 93-177 (300)
290 cd08448 PBP2_LTTR_aromatics_li 86.4 32 0.00069 33.0 16.7 70 497-578 13-82 (197)
291 cd08435 PBP2_GbpR The C-termin 86.1 33 0.00072 33.0 17.7 72 497-578 13-84 (201)
292 cd08457 PBP2_OccR The C-termin 86.1 34 0.00073 33.0 17.3 70 497-578 13-82 (196)
293 PRK09860 putative alcohol dehy 86.0 5.7 0.00012 43.9 10.9 88 154-241 20-109 (383)
294 PRK11482 putative DNA-binding 86.0 27 0.00058 37.5 16.0 81 470-578 117-197 (317)
295 cd08443 PBP2_CysB The C-termin 86.0 35 0.00075 33.1 17.3 72 496-578 12-83 (198)
296 PF13531 SBP_bac_11: Bacterial 85.9 7.9 0.00017 39.3 11.4 194 496-810 10-226 (230)
297 PRK11074 putative DNA-binding 85.7 32 0.0007 36.5 16.4 85 470-578 92-176 (300)
298 COG1794 RacX Aspartate racemas 85.6 22 0.00048 35.1 13.1 128 82-247 59-189 (230)
299 cd08414 PBP2_LTTR_aromatics_li 85.5 35 0.00076 32.7 17.0 70 497-578 13-82 (197)
300 PRK11063 metQ DL-methionine tr 85.5 17 0.00036 37.9 13.5 120 685-811 119-263 (271)
301 PRK09508 leuO leucine transcri 85.2 14 0.00031 39.6 13.4 84 469-578 111-194 (314)
302 COG1638 DctP TRAP-type C4-dica 84.9 3.1 6.7E-05 44.7 7.9 65 500-567 47-112 (332)
303 cd08445 PBP2_BenM_CatM_CatR Th 84.6 41 0.00088 32.7 16.7 70 497-578 14-83 (203)
304 PF03808 Glyco_tran_WecB: Glyc 84.4 15 0.00033 35.3 11.7 99 151-259 35-135 (172)
305 PRK15454 ethanol dehydrogenase 84.4 7.1 0.00015 43.3 10.7 89 154-242 38-128 (395)
306 PF12727 PBP_like: PBP superfa 84.1 18 0.0004 35.4 12.4 103 685-797 81-191 (193)
307 PRK10094 DNA-binding transcrip 83.9 48 0.0011 35.3 16.8 71 498-578 107-177 (308)
308 PF06506 PrpR_N: Propionate ca 83.7 17 0.00038 35.0 11.9 127 82-248 18-145 (176)
309 cd08430 PBP2_IlvY The C-termin 83.6 43 0.00093 32.1 17.6 71 497-578 13-83 (199)
310 cd08437 PBP2_MleR The substrat 83.3 45 0.00097 32.1 16.4 72 497-578 13-84 (198)
311 PRK15421 DNA-binding transcrip 82.8 43 0.00092 35.9 15.8 83 470-578 89-171 (317)
312 cd08192 Fe-ADH7 Iron-containin 82.4 10 0.00023 41.7 11.1 90 154-243 13-104 (370)
313 cd08453 PBP2_IlvR The C-termin 82.3 49 0.0011 31.9 17.2 73 497-578 13-85 (200)
314 PRK11062 nhaR transcriptional 81.7 43 0.00094 35.4 15.3 85 470-577 93-177 (296)
315 cd08190 HOT Hydroxyacid-oxoaci 81.6 11 0.00024 42.1 11.0 87 154-240 12-100 (414)
316 PRK11013 DNA-binding transcrip 81.3 70 0.0015 34.0 16.9 70 497-578 107-176 (309)
317 cd08189 Fe-ADH5 Iron-containin 81.3 12 0.00026 41.2 11.0 92 153-244 14-107 (374)
318 COG0715 TauA ABC-type nitrate/ 81.0 8.9 0.00019 41.6 9.9 72 685-763 126-203 (335)
319 cd08458 PBP2_NocR The C-termin 80.8 55 0.0012 31.5 16.4 70 497-578 13-82 (196)
320 cd06533 Glyco_transf_WecG_TagA 80.5 24 0.00053 33.8 11.5 100 150-259 32-133 (171)
321 COG3473 Maleate cis-trans isom 80.4 33 0.00072 33.3 11.7 91 154-247 107-205 (238)
322 cd08193 HVD 5-hydroxyvalerate 80.2 13 0.00029 40.9 11.0 89 154-242 15-105 (376)
323 PF14503 YhfZ_C: YhfZ C-termin 80.0 4.9 0.00011 40.2 6.5 104 696-812 113-224 (232)
324 PRK10624 L-1,2-propanediol oxi 79.8 8.2 0.00018 42.7 9.1 89 153-241 18-108 (382)
325 cd08416 PBP2_MdcR The C-termin 79.3 61 0.0013 31.1 16.1 72 497-578 13-84 (199)
326 PF02608 Bmp: Basic membrane p 79.2 8.4 0.00018 41.1 8.7 89 34-129 128-221 (306)
327 KOG3857 Alcohol dehydrogenase, 79.1 12 0.00027 38.9 9.1 95 138-232 39-137 (465)
328 cd08551 Fe-ADH iron-containing 79.1 15 0.00033 40.4 10.9 90 154-243 12-103 (370)
329 cd08194 Fe-ADH6 Iron-containin 78.5 17 0.00037 40.1 11.1 88 154-241 12-101 (375)
330 TIGR00035 asp_race aspartate r 78.5 6.7 0.00015 39.8 7.3 87 82-197 59-146 (229)
331 COG1744 Med Uncharacterized AB 77.4 39 0.00085 36.6 13.1 74 32-111 161-234 (345)
332 TIGR02638 lactal_redase lactal 77.2 10 0.00022 41.9 8.9 89 153-241 17-107 (379)
333 PRK09861 cytoplasmic membrane 76.5 48 0.001 34.6 13.0 121 685-811 120-264 (272)
334 PRK10200 putative racemase; Pr 76.5 25 0.00054 35.6 10.7 86 82-196 59-146 (230)
335 PF00465 Fe-ADH: Iron-containi 76.0 11 0.00025 41.3 8.8 89 154-244 12-102 (366)
336 TIGR03339 phn_lysR aminoethylp 75.9 1E+02 0.0022 31.9 17.1 69 498-578 98-166 (279)
337 PRK09906 DNA-binding transcrip 74.9 98 0.0021 32.6 15.6 81 472-578 92-172 (296)
338 cd08185 Fe-ADH1 Iron-containin 74.5 24 0.00053 38.9 11.0 88 154-242 15-105 (380)
339 cd08485 PBP2_ClcR The C-termin 73.1 92 0.002 30.0 16.3 70 497-578 14-83 (198)
340 cd08181 PPD-like 1,3-propanedi 73.1 29 0.00064 37.9 11.0 87 154-241 15-104 (357)
341 PF13407 Peripla_BP_4: Peripla 72.7 8.2 0.00018 39.8 6.5 78 168-247 1-81 (257)
342 cd08188 Fe-ADH4 Iron-containin 72.4 18 0.00038 40.0 9.2 89 153-241 16-106 (377)
343 cd08191 HHD 6-hydroxyhexanoate 72.4 32 0.00069 38.1 11.2 89 154-243 12-102 (386)
344 cd08176 LPO Lactadehyde:propan 71.8 16 0.00034 40.4 8.6 88 154-241 17-106 (377)
345 COG0725 ModA ABC-type molybdat 71.5 72 0.0016 32.9 12.7 69 501-578 46-120 (258)
346 cd08182 HEPD Hydroxyethylphosp 70.9 32 0.0007 37.8 10.8 86 154-242 12-99 (367)
347 PRK11716 DNA-binding transcrip 70.4 1.3E+02 0.0027 31.0 15.0 70 497-577 80-149 (269)
348 cd08450 PBP2_HcaR The C-termin 70.2 1E+02 0.0022 29.3 16.0 70 497-578 13-82 (196)
349 COG0078 ArgF Ornithine carbamo 69.6 1.5E+02 0.0032 31.0 15.9 152 32-218 44-201 (310)
350 TIGR00696 wecB_tagA_cpsF bacte 69.4 76 0.0016 30.6 11.6 87 150-244 34-122 (177)
351 cd08446 PBP2_Chlorocatechol Th 69.2 1.1E+02 0.0024 29.3 16.7 70 497-578 14-83 (198)
352 COG1910 Periplasmic molybdate- 68.7 1.2E+02 0.0026 29.9 12.5 107 685-802 87-201 (223)
353 PRK05452 anaerobic nitric oxid 68.4 1.2E+02 0.0026 34.6 14.9 141 101-260 198-348 (479)
354 PRK03692 putative UDP-N-acetyl 68.0 52 0.0011 33.6 10.6 88 150-244 91-179 (243)
355 PRK13348 chromosome replicatio 67.4 1.2E+02 0.0026 31.8 14.2 65 501-578 107-171 (294)
356 cd07766 DHQ_Fe-ADH Dehydroquin 67.3 41 0.00089 36.3 10.6 88 155-244 13-102 (332)
357 cd08170 GlyDH Glycerol dehydro 67.1 17 0.00038 39.6 7.7 85 154-241 12-98 (351)
358 cd08431 PBP2_HupR The C-termin 67.0 1.2E+02 0.0026 28.9 15.5 71 497-578 13-83 (195)
359 cd08186 Fe-ADH8 Iron-containin 66.3 45 0.00098 36.9 10.8 89 154-242 12-106 (383)
360 PF04273 DUF442: Putative phos 65.4 95 0.0021 27.2 10.5 85 159-243 22-107 (110)
361 PRK07475 hypothetical protein; 65.2 30 0.00064 35.5 8.4 83 81-195 61-146 (245)
362 PF13685 Fe-ADH_2: Iron-contai 64.5 46 0.00099 34.1 9.5 99 155-258 9-108 (250)
363 cd08187 BDH Butanol dehydrogen 64.4 28 0.00061 38.5 8.7 87 154-241 18-107 (382)
364 PRK03635 chromosome replicatio 63.9 1.7E+02 0.0037 30.8 14.5 81 470-577 90-170 (294)
365 cd08428 PBP2_IciA_ArgP The C-t 63.9 1.4E+02 0.003 28.5 15.3 66 499-577 15-80 (195)
366 PRK00945 acetyl-CoA decarbonyl 63.1 47 0.001 31.7 8.5 91 90-187 27-131 (171)
367 cd08171 GlyDH-like2 Glycerol d 62.4 29 0.00064 37.7 8.3 87 154-242 12-100 (345)
368 PRK10677 modA molybdate transp 61.9 76 0.0017 32.8 10.9 71 499-578 41-117 (257)
369 cd06305 PBP1_methylthioribose_ 61.7 31 0.00068 35.7 8.3 77 168-247 2-81 (273)
370 cd08452 PBP2_AlsR The C-termin 61.7 1.5E+02 0.0033 28.3 17.6 70 497-578 13-82 (197)
371 PF01177 Asp_Glu_race: Asp/Glu 61.3 1.4E+02 0.0031 29.6 12.6 124 91-244 59-198 (216)
372 PRK09986 DNA-binding transcrip 60.8 2.2E+02 0.0047 29.8 17.2 85 470-578 97-181 (294)
373 cd08183 Fe-ADH2 Iron-containin 60.4 62 0.0014 35.6 10.5 84 154-242 12-97 (374)
374 PRK00865 glutamate racemase; P 60.3 1.2E+02 0.0025 31.5 11.9 35 92-126 62-96 (261)
375 PRK09423 gldA glycerol dehydro 59.9 31 0.00067 37.9 8.0 84 154-240 19-104 (366)
376 PLN02245 ATP phosphoribosyl tr 59.7 54 0.0012 35.8 9.3 105 686-799 178-295 (403)
377 PRK15408 autoinducer 2-binding 59.1 40 0.00087 36.5 8.6 82 164-247 22-106 (336)
378 cd08432 PBP2_GcdR_TrpI_HvrB_Am 59.0 1E+02 0.0023 29.2 11.1 66 497-577 13-78 (194)
379 cd06301 PBP1_rhizopine_binding 58.4 32 0.0007 35.7 7.6 78 167-247 1-82 (272)
380 cd06267 PBP1_LacI_sugar_bindin 58.2 31 0.00068 35.3 7.5 76 168-247 2-79 (264)
381 cd06304 PBP1_BmpA_like Peripla 57.9 1.4E+02 0.003 30.7 12.2 128 32-168 120-247 (260)
382 cd01537 PBP1_Repressors_Sugar_ 57.5 31 0.00067 35.3 7.3 77 168-247 2-80 (264)
383 TIGR02329 propionate_PrpR prop 57.5 1.8E+02 0.0038 33.7 13.7 129 81-249 37-166 (526)
384 PRK13583 hisG ATP phosphoribos 57.3 74 0.0016 31.9 9.2 93 685-786 109-212 (228)
385 cd02071 MM_CoA_mut_B12_BD meth 56.8 78 0.0017 28.3 8.7 72 170-247 4-79 (122)
386 PRK15424 propionate catabolism 56.4 1.6E+02 0.0034 34.2 13.0 128 82-249 48-176 (538)
387 cd08422 PBP2_CrgA_like The C-t 56.4 86 0.0019 29.8 10.0 66 497-577 14-79 (197)
388 COG1880 CdhB CO dehydrogenase/ 55.9 1.4E+02 0.0031 27.7 9.7 121 89-218 27-167 (170)
389 PF03401 TctC: Tripartite tric 55.5 1.1E+02 0.0025 31.9 11.0 121 685-810 88-241 (274)
390 PRK11139 DNA-binding transcrip 55.3 2.5E+02 0.0054 29.5 14.0 62 500-576 110-171 (297)
391 cd06312 PBP1_ABC_sugar_binding 54.8 43 0.00093 34.7 7.9 79 167-247 1-83 (271)
392 PRK15116 sulfur acceptor prote 54.8 1.1E+02 0.0024 31.8 10.4 88 44-147 80-168 (268)
393 PRK10537 voltage-gated potassi 54.5 11 0.00024 41.5 3.4 54 623-676 164-219 (393)
394 cd06167 LabA_like LabA_like pr 54.3 1.8E+02 0.0039 26.8 11.6 91 156-247 29-124 (149)
395 TIGR00315 cdhB CO dehydrogenas 53.5 1.3E+02 0.0028 28.5 9.6 33 97-129 29-63 (162)
396 cd06289 PBP1_MalI_like Ligand- 52.8 49 0.0011 34.1 7.9 77 168-247 2-80 (268)
397 PRK14498 putative molybdopteri 52.7 1.1E+02 0.0024 36.6 11.5 66 163-231 184-261 (633)
398 cd06306 PBP1_TorT-like TorT-li 52.3 47 0.001 34.5 7.6 80 167-247 1-82 (268)
399 cd08178 AAD_C C-terminal alcoh 51.8 74 0.0016 35.4 9.4 79 163-241 19-99 (398)
400 cd01538 PBP1_ABC_xylose_bindin 51.4 64 0.0014 33.9 8.6 77 168-247 2-81 (288)
401 cd00755 YgdL_like Family of ac 51.4 1.3E+02 0.0029 30.4 10.2 117 43-175 60-182 (231)
402 cd08550 GlyDH-like Glycerol_de 51.2 55 0.0012 35.7 8.1 84 154-240 12-97 (349)
403 cd01536 PBP1_ABC_sugar_binding 50.8 56 0.0012 33.5 7.9 78 167-247 1-81 (267)
404 PRK11063 metQ DL-methionine tr 50.7 40 0.00086 35.2 6.5 66 18-102 20-85 (271)
405 cd08175 G1PDH Glycerol-1-phosp 49.7 79 0.0017 34.4 9.0 85 154-240 12-100 (348)
406 PRK10991 fucI L-fucose isomera 49.6 4E+02 0.0086 30.8 14.2 62 68-132 47-111 (588)
407 cd01391 Periplasmic_Binding_Pr 49.5 56 0.0012 33.1 7.7 78 167-247 1-83 (269)
408 COG1464 NlpA ABC-type metal io 49.2 80 0.0017 32.3 8.0 46 31-87 29-74 (268)
409 TIGR02370 pyl_corrinoid methyl 49.0 1.3E+02 0.0027 29.7 9.5 87 166-258 85-175 (197)
410 cd06282 PBP1_GntR_like_2 Ligan 49.0 63 0.0014 33.2 8.0 77 168-247 2-80 (266)
411 cd06354 PBP1_BmpA_PnrA_like Pe 48.9 3.2E+02 0.0069 28.1 13.3 116 32-153 121-236 (265)
412 TIGR03298 argP transcriptional 48.5 3.4E+02 0.0074 28.3 16.1 64 501-577 107-170 (292)
413 TIGR01098 3A0109s03R phosphate 48.5 78 0.0017 32.4 8.5 19 211-229 183-201 (254)
414 cd06277 PBP1_LacI_like_1 Ligan 48.4 83 0.0018 32.4 8.8 75 168-247 2-81 (268)
415 PLN03192 Voltage-dependent pot 48.1 14 0.0003 45.7 3.2 53 628-680 251-305 (823)
416 cd06322 PBP1_ABC_sugar_binding 47.9 67 0.0015 33.1 8.0 77 168-247 2-81 (267)
417 KOG3713 Voltage-gated K+ chann 47.7 15 0.00032 40.6 2.8 60 604-667 358-419 (477)
418 PRK15395 methyl-galactoside AB 47.7 1.8E+02 0.0039 31.2 11.5 124 30-162 160-293 (330)
419 cd06303 PBP1_LuxPQ_Quorum_Sens 47.7 50 0.0011 34.5 7.0 79 168-246 2-84 (280)
420 PRK11921 metallo-beta-lactamas 47.7 2.7E+02 0.0058 30.9 13.0 139 101-258 194-342 (394)
421 COG0426 FpaA Uncharacterized f 47.6 3.7E+02 0.0081 29.4 13.2 141 101-261 195-342 (388)
422 PF08374 Protocadherin: Protoc 47.3 19 0.00041 35.0 3.1 58 803-861 7-64 (221)
423 PRK03601 transcriptional regul 47.1 3.5E+02 0.0075 28.0 14.5 83 470-578 89-171 (275)
424 COG2247 LytB Putative cell wal 47.1 3.4E+02 0.0074 28.6 12.1 78 97-199 77-160 (337)
425 cd06318 PBP1_ABC_sugar_binding 47.1 63 0.0014 33.7 7.7 77 168-247 2-81 (282)
426 TIGR00288 conserved hypothetic 46.7 2.6E+02 0.0056 26.4 10.4 85 153-247 43-130 (160)
427 cd00423 Pterin_binding Pterin 46.7 2E+02 0.0043 29.7 11.0 26 82-107 22-48 (258)
428 cd06299 PBP1_LacI_like_13 Liga 46.5 82 0.0018 32.4 8.4 76 168-247 2-79 (265)
429 cd06310 PBP1_ABC_sugar_binding 46.1 67 0.0014 33.2 7.7 80 167-247 1-83 (273)
430 cd01545 PBP1_SalR Ligand-bindi 46.1 75 0.0016 32.7 8.0 78 168-247 2-81 (270)
431 PF07302 AroM: AroM protein; 45.5 1.6E+02 0.0034 29.5 9.3 74 166-243 126-201 (221)
432 cd06302 PBP1_LsrB_Quorum_Sensi 45.1 79 0.0017 33.4 8.1 78 168-247 2-82 (298)
433 cd08179 NADPH_BDH NADPH-depend 45.1 88 0.0019 34.5 8.6 79 163-241 21-102 (375)
434 PF00448 SRP54: SRP54-type pro 45.0 2.1E+02 0.0046 28.1 10.3 65 165-232 29-93 (196)
435 cd08481 PBP2_GcdR_like The C-t 45.0 2.2E+02 0.0047 26.9 10.8 64 499-577 15-78 (194)
436 KOG1419 Voltage-gated K+ chann 44.1 38 0.00083 37.9 5.2 89 592-680 234-324 (654)
437 cd01324 cbb3_Oxidase_CcoQ Cyto 44.1 22 0.00047 25.7 2.3 26 593-618 12-37 (48)
438 PRK10014 DNA-binding transcrip 43.6 1.1E+02 0.0023 33.1 9.1 80 165-247 64-145 (342)
439 PRK00002 aroB 3-dehydroquinate 43.6 1.6E+02 0.0035 32.1 10.3 103 140-246 9-118 (358)
440 PF02310 B12-binding: B12 bind 43.1 2.3E+02 0.005 24.8 10.4 70 170-245 5-78 (121)
441 PRK11303 DNA-binding transcrip 42.6 1.1E+02 0.0025 32.6 9.0 80 165-247 61-142 (328)
442 cd08177 MAR Maleylacetate redu 42.4 1E+02 0.0022 33.4 8.4 85 154-241 12-98 (337)
443 KOG0025 Zn2+-binding dehydroge 42.3 1.7E+02 0.0037 30.3 9.0 97 140-247 162-258 (354)
444 TIGR01744 XPRTase xanthine pho 42.3 61 0.0013 31.7 5.9 70 57-127 5-79 (191)
445 PRK07377 hypothetical protein; 42.2 64 0.0014 30.7 5.7 61 470-547 75-135 (184)
446 PF02602 HEM4: Uroporphyrinoge 41.9 44 0.00096 33.8 5.3 106 146-258 97-203 (231)
447 cd06315 PBP1_ABC_sugar_binding 41.4 1.2E+02 0.0027 31.5 8.8 79 166-247 1-82 (280)
448 cd01994 Alpha_ANH_like_IV This 41.3 3.5E+02 0.0077 26.5 11.8 102 109-232 46-147 (194)
449 cd08549 G1PDH_related Glycerol 41.2 1.3E+02 0.0029 32.4 9.0 85 154-240 12-100 (332)
450 cd06281 PBP1_LacI_like_5 Ligan 41.1 1.1E+02 0.0023 31.7 8.2 77 168-247 2-80 (269)
451 cd01539 PBP1_GGBP Periplasmic 41.1 1E+02 0.0022 32.7 8.1 78 167-247 1-83 (303)
452 COG2358 Imp TRAP-type uncharac 41.1 2.2E+02 0.0048 30.3 10.1 80 685-770 127-215 (321)
453 PRK11119 proX glycine betaine 41.0 69 0.0015 34.5 6.7 62 466-550 25-87 (331)
454 PRK09189 uroporphyrinogen-III 40.8 1.1E+02 0.0024 31.1 8.1 88 151-244 102-191 (240)
455 PF13380 CoA_binding_2: CoA bi 40.5 44 0.00096 29.6 4.4 86 166-258 1-88 (116)
456 cd06317 PBP1_ABC_sugar_binding 40.5 96 0.0021 32.0 7.8 77 168-247 2-82 (275)
457 cd06287 PBP1_LacI_like_8 Ligan 40.2 3E+02 0.0065 28.4 11.4 118 34-160 120-244 (269)
458 cd06316 PBP1_ABC_sugar_binding 40.2 84 0.0018 33.0 7.4 79 167-247 1-82 (294)
459 TIGR03850 bind_CPR_0540 carboh 40.1 74 0.0016 35.9 7.3 24 51-77 48-71 (437)
460 PRK09756 PTS system N-acetylga 40.0 1.8E+02 0.0039 27.4 8.5 81 151-240 16-97 (158)
461 PRK10355 xylF D-xylose transpo 39.8 1.2E+02 0.0027 32.6 8.6 81 164-247 24-107 (330)
462 cd06271 PBP1_AglR_RafR_like Li 39.6 2.2E+02 0.0049 29.0 10.5 69 175-247 15-83 (268)
463 COG3221 PhnD ABC-type phosphat 39.3 4.9E+02 0.011 27.5 13.6 171 29-231 33-206 (299)
464 cd02070 corrinoid_protein_B12- 39.1 2.6E+02 0.0056 27.6 10.0 86 166-257 83-172 (201)
465 COG0563 Adk Adenylate kinase a 39.0 67 0.0015 31.0 5.7 29 99-127 3-31 (178)
466 TIGR00854 pts-sorbose PTS syst 38.9 1.7E+02 0.0036 27.4 8.0 81 152-240 13-93 (151)
467 PRK09701 D-allose transporter 38.8 1.2E+02 0.0027 32.2 8.4 85 162-247 21-108 (311)
468 PF14981 FAM165: FAM165 family 38.7 83 0.0018 22.1 4.2 34 831-864 3-36 (51)
469 cd06296 PBP1_CatR_like Ligand- 38.3 1.2E+02 0.0026 31.2 8.1 76 168-247 2-79 (270)
470 cd00578 L-fuc_L-ara-isomerases 38.2 4.5E+02 0.0098 29.8 13.2 77 48-131 20-98 (452)
471 PF06305 DUF1049: Protein of u 38.1 75 0.0016 24.8 4.9 26 839-864 26-51 (68)
472 cd08180 PDD 1,3-propanediol de 38.1 76 0.0016 34.3 6.6 79 161-240 18-98 (332)
473 cd08184 Fe-ADH3 Iron-containin 38.0 2.5E+02 0.0055 30.5 10.5 85 154-242 12-103 (347)
474 PF00625 Guanylate_kin: Guanyl 37.9 2.9E+02 0.0062 26.6 10.1 92 97-197 3-98 (183)
475 PRK09219 xanthine phosphoribos 37.8 73 0.0016 31.1 5.7 71 56-127 4-79 (189)
476 cd06270 PBP1_GalS_like Ligand 37.8 1.4E+02 0.003 30.7 8.5 76 168-247 2-79 (268)
477 TIGR02637 RhaS rhamnose ABC tr 37.2 1.1E+02 0.0025 32.2 7.9 71 175-247 10-82 (302)
478 PRK05723 flavodoxin; Provision 37.1 2.1E+02 0.0045 26.8 8.4 67 167-244 2-76 (151)
479 cd01542 PBP1_TreR_like Ligand- 37.1 1.3E+02 0.0028 30.7 8.1 75 168-246 2-78 (259)
480 cd06295 PBP1_CelR Ligand bindi 37.1 1.5E+02 0.0031 30.7 8.5 77 165-247 3-88 (275)
481 TIGR02417 fruct_sucro_rep D-fr 36.9 1.8E+02 0.0039 31.1 9.4 81 164-247 59-141 (327)
482 TIGR00249 sixA phosphohistidin 36.5 1.8E+02 0.004 27.1 8.1 97 145-244 23-121 (152)
483 TIGR02667 moaB_proteo molybden 36.4 2E+02 0.0042 27.3 8.3 65 165-231 4-72 (163)
484 cd06300 PBP1_ABC_sugar_binding 36.3 1.3E+02 0.0029 30.9 8.1 80 167-247 1-86 (272)
485 cd08173 Gro1PDH Sn-glycerol-1- 35.9 1.8E+02 0.0038 31.6 9.0 82 155-240 14-98 (339)
486 cd01540 PBP1_arabinose_binding 35.9 1.1E+02 0.0023 32.1 7.3 76 168-247 2-80 (289)
487 PRK10936 TMAO reductase system 35.9 1.5E+02 0.0032 32.2 8.5 81 165-247 46-129 (343)
488 cd02067 B12-binding B12 bindin 35.7 2E+02 0.0044 25.3 8.0 69 172-246 6-78 (119)
489 PRK10653 D-ribose transporter 35.6 1.8E+02 0.004 30.5 9.1 80 165-247 26-108 (295)
490 PRK11425 PTS system N-acetylga 35.5 2.1E+02 0.0045 26.9 8.2 81 151-240 14-94 (157)
491 PRK10481 hypothetical protein; 35.4 3.1E+02 0.0068 27.6 9.7 82 157-243 120-202 (224)
492 TIGR02122 TRAP_TAXI TRAP trans 35.3 5.6E+02 0.012 27.0 13.5 40 1-42 1-41 (320)
493 cd06321 PBP1_ABC_sugar_binding 35.2 1.2E+02 0.0027 31.1 7.6 77 168-247 2-83 (271)
494 cd08197 DOIS 2-deoxy-scyllo-in 35.2 3.2E+02 0.0069 29.8 10.8 99 155-257 13-118 (355)
495 PF12273 RCR: Chitin synthesis 35.1 37 0.00081 30.8 3.1 24 839-863 3-26 (130)
496 cd00001 PTS_IIB_man PTS_IIB, P 35.0 2.2E+02 0.0048 26.6 8.2 82 152-241 12-93 (151)
497 cd08470 PBP2_CrgA_like_1 The C 34.9 3E+02 0.0065 26.0 10.0 69 724-798 123-193 (197)
498 PF01102 Glycophorin_A: Glycop 34.8 72 0.0016 28.4 4.6 23 835-857 65-87 (122)
499 PRK01686 hisG ATP phosphoribos 34.8 4.7E+02 0.01 26.1 10.8 93 696-799 114-208 (215)
500 cd06323 PBP1_ribose_binding Pe 34.7 1.2E+02 0.0027 30.9 7.5 78 168-248 2-82 (268)
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=1.7e-87 Score=690.28 Aligned_cols=782 Identities=19% Similarity=0.317 Sum_probs=637.4
Q ss_pred CCCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcC
Q 002505 28 TIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGG--TKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGP 104 (914)
Q Consensus 28 ~~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g--~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp 104 (914)
.-+..|.||.+||.... +...|+++|+...|.+..-- . .++..++..-. .++.....+.|...+.+|.||+|.
T Consensus 22 ~f~~tiqigglF~~n~~---qe~~Afr~~~~~~~~~~~~~-~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~ 97 (897)
T KOG1054|consen 22 AFPNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTT-EKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGF 97 (897)
T ss_pred cCCCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCC-CCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheec
Confidence 35778999999998763 56789999998887754321 2 34444443222 578888899999999999999999
Q ss_pred CCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHH
Q 002505 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (914)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 184 (914)
.+-.....+..+|...++|+|+|+.. .+...++.+++.|+- ..++++++.|++|.+++.+| |.+.|....++
T Consensus 98 yd~ks~~~ltsfc~aLh~~~vtpsfp----~~~~~~Fviq~RP~l---~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqa 169 (897)
T KOG1054|consen 98 YDKKSVNTLTSFCGALHVSFVTPSFP----TDGDNQFVIQMRPAL---KGALLSLIDHYKWEKFVYLY-DTDRGLSILQA 169 (897)
T ss_pred ccccchhhhhhhccceeeeeecccCC----cCCCceEEEEeCchH---HHHHHHHHHhcccceEEEEE-cccchHHHHHH
Confidence 99999999999999999999997652 223457888888874 48899999999999999999 77789999999
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccc
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (914)
+.+.+.++++.|.....-.+ .+..++..+++.+...+.+.|++.|..+...+++.++-+.+-...+|++|+.+..-...
T Consensus 170 i~~~a~~~nw~VtA~~v~~~-~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~ 248 (897)
T KOG1054|consen 170 IMEAAAQNNWQVTAINVGNI-NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDI 248 (897)
T ss_pred HHHHHHhcCceEEEEEcCCc-ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchh
Confidence 99999999999887654432 45566999999999999999999999999999999998888888999999987544444
Q ss_pred cCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhc-cCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCC
Q 002505 265 DTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTR-RNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (914)
Q Consensus 265 ~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~ 343 (914)
++ +.+.....++.++...+.+++..++|.++|++.-. ..++..+.++...++.+|||+.+.++|++.++++..+
T Consensus 249 dl-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~ 323 (897)
T KOG1054|consen 249 DL-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRID 323 (897)
T ss_pred hH-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhc
Confidence 43 45566677899999999999999999999987653 3455555677788999999999999999998876543
Q ss_pred ccccCCccccccCCCCcccc--cccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecC
Q 002505 344 ISFSEDSKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSN 421 (914)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~ 421 (914)
.. ..|...+|. +..+|.+|..+.++|+++.++|+||+|+||..|.|.|.+.+|+.++.++.+++|+|+.
T Consensus 324 ~~---------rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e 394 (897)
T KOG1054|consen 324 IS---------RRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNE 394 (897)
T ss_pred hh---------ccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecc
Confidence 22 122222343 4679999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccCCccccCCCCCCCCcccccceeeeCCCccccCCceeecCCCceEEEEeccccCccccEEe---cCCCceeeee
Q 002505 422 HSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWVFPNNGRHLRIGVPSQVIYPEFVAQ---GKGTDKFSGY 498 (914)
Q Consensus 422 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~g~~lrv~~~~~~~~~~~~~~---~~~~~~~~G~ 498 (914)
.+|+.....+. ..++... ..+.++..|...-..||.-+... -.|+.++.||
T Consensus 395 ~~~fv~~~t~a----~~~~d~~----------------------~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGy 448 (897)
T KOG1054|consen 395 GEGFVPGSTVA----QSRNDQA----------------------SKENRTVVVTTILESPYVMLKKNHEQLEGNERYEGY 448 (897)
T ss_pred cCceeeccccc----ccccccc----------------------ccccceEEEEEecCCchhHHHhhHHHhcCCccccee
Confidence 99875431110 0000000 01122233333322233322221 1368899999
Q ss_pred eHHHHHHHHHHCCCcccEEEee---CCCCCCCCC-hHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEE
Q 002505 499 CIDVFTAVLELLPYAVPYKLVP---FGDGHNSPK-RFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVA 574 (914)
Q Consensus 499 ~~dl~~~l~~~l~~~~~~~~~~---~~~~~~n~~-~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv 574 (914)
|+||+.+||+..++++++..+. +|..+..++ |+||+++|..|++|+++++++||.+|++.+|||.|++..+++++.
T Consensus 449 CvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMI 528 (897)
T KOG1054|consen 449 CVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMI 528 (897)
T ss_pred HHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEE
Confidence 9999999999999876666654 233335666 999999999999999999999999999999999999999999999
Q ss_pred eccC-CCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCC-------------CCCchhhHHHHHHHHhh
Q 002505 575 PIKK-LNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGP-------------PRRQIGTILWFSFSTLF 640 (914)
Q Consensus 575 ~~~~-~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~l~ 640 (914)
++|. ..+..++|+.|+..++|+|++..++.+++++++..|.++.+|+-. ..+++.|++||++++++
T Consensus 529 KKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFM 608 (897)
T KOG1054|consen 529 KKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFM 608 (897)
T ss_pred eCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHH
Confidence 9988 678999999999999999999999999999999999887765421 22468899999999999
Q ss_pred hcCcc-ccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCC-CeEEEeCchhhhhhhhhcCC
Q 002505 641 FSHKE-RTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSD-PIGYQRGSFAENYLTDELNI 718 (914)
Q Consensus 641 ~~~~~-~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~-~i~~~~~s~~~~~l~~~~~~ 718 (914)
+|+.+ .|||.++|++..+||||.||++++|||||++|||+.++.+||.|.+||.++.+ ..|+..+....+||++..-.
T Consensus 609 QQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skia 688 (897)
T KOG1054|consen 609 QQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIA 688 (897)
T ss_pred hcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHH
Confidence 99987 89999999999999999999999999999999999999999999999998776 46677776677777542111
Q ss_pred CCCCc----------ccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhc-CceEEEeccccccccceeeecCCCCC
Q 002505 719 DKSRL----------VPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLST-RCEFSIIGQEFTRIGWGFAFPRDSPL 787 (914)
Q Consensus 719 ~~~~~----------~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~spl 787 (914)
-..+| +-..+..|.+.++++. ++.+||+.|....+|..++ +|+..-++..+.+.+|+++.||||.|
T Consensus 689 vy~kMW~yM~SaepsVFv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gssl 765 (897)
T KOG1054|consen 689 VYEKMWTYMKSAEPSVFVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSL 765 (897)
T ss_pred HHHHHHHHHhcCCcceeeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCccc
Confidence 11122 2346778888888774 8899999999999998765 79999999999999999999999999
Q ss_pred hhhHHHHHHhhhccCchHHHHHHHcC-CCCCCCCCCCC--ccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002505 788 AVDMSIAILELSENGDLQRIHDKWLT-RSACSSQGAKQ--EADQLHLKSFWGLFVLCGVACLLALLIYLIQIVRQFARHY 864 (914)
Q Consensus 788 ~~~~~~~i~~l~e~G~~~~i~~~~~~-~~~c~~~~~~~--~~~~L~~~~~~g~f~il~~g~~ls~~vf~~e~~~~~~~~~ 864 (914)
+..+|.++++|.|.|+++++++|||. .+.|.....+. ..+.|++.+.+|+||||..|+++|.++.++|++++.+...
T Consensus 766 r~~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Ea 845 (897)
T KOG1054|consen 766 RNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEA 845 (897)
T ss_pred ccchhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999998 89999876554 4478999999999999999999999999999998776554
Q ss_pred c
Q 002505 865 L 865 (914)
Q Consensus 865 ~ 865 (914)
+
T Consensus 846 k 846 (897)
T KOG1054|consen 846 K 846 (897)
T ss_pred H
Confidence 3
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=4.6e-80 Score=638.20 Aligned_cols=748 Identities=23% Similarity=0.394 Sum_probs=608.0
Q ss_pred CCCCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC--CCChHHHH-HHHHHHHhcCcEEEEc
Q 002505 27 STIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT--NYSRFLGM-VEALTLLENETVAIIG 103 (914)
Q Consensus 27 ~~~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~--~~~~~~a~-~~a~~li~~~v~aiiG 103 (914)
+..+..++||.++.-. ....-+.-++..+|++.+ ..++.+..... ..++.+.+ ....+|++..|.+|+-
T Consensus 30 ~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 30 ACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred CCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 3467899999998753 346677788999997764 35666633322 22444444 4455788889988874
Q ss_pred --CCCch---HHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 002505 104 --PQFSV---IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH 177 (914)
Q Consensus 104 --p~~s~---~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~ 177 (914)
|.+|. ...+++--+..+.+|++.....+..+++ .-++.|+|+.|+.++|+....+.+..|.|++|.++.+||.-
T Consensus 102 Sh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~ 181 (993)
T KOG4440|consen 102 SHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHE 181 (993)
T ss_pred cCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEccccc
Confidence 22332 2334556677889999999999999998 45899999999999999999999999999999999999998
Q ss_pred ccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEe
Q 002505 178 GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (914)
Q Consensus 178 g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (914)
|+.....++..+++...++.....+. ++..++++.|-++|..++||+++....++|..++++|-+++|++.+|+||.+
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~--p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWiV~ 259 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFD--PGTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWIVG 259 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecC--cccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEEEe
Confidence 98888888888876665555555565 4668899999999999999999999999999999999999999999999998
Q ss_pred CcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHh
Q 002505 258 DWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (914)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~ 337 (914)
...... .....|++|++.-...+ ...+.-|+|.++|.|++.+
T Consensus 260 E~a~~~-----------nn~PdG~LGlqL~~~~~---------------------------~~~hirDsv~vlasAv~e~ 301 (993)
T KOG4440|consen 260 ERAISG-----------NNLPDGILGLQLINGKN---------------------------ESAHIRDSVGVLASAVHEL 301 (993)
T ss_pred cccccc-----------CCCCCceeeeEeecCcc---------------------------ccceehhhHHHHHHHHHHH
Confidence 642221 13467899987754211 1234679999999999999
Q ss_pred hhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcc-cCCcccceEEccCCCCCCCceEEEEec-ccceEE
Q 002505 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVN-MTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRR 415 (914)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~ 415 (914)
++... ++ .....||++...|..|..|.+.+...+ .+|.||.|+||++|+|+...|+|+|+. +...+.
T Consensus 302 ~~~e~-I~----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg 370 (993)
T KOG4440|consen 302 LEKEN-IT----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVG 370 (993)
T ss_pred Hhhcc-CC----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhh
Confidence 86532 11 111247888999999999999988755 589999999999999999999999996 344555
Q ss_pred EEEecCCCCccccCCccccCCCCCCCCcccccceeeeCCCccccCCceeecCCCceEEEEeccccCccccEEecC-----
Q 002505 416 IGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWVFPNNGRHLRIGVPSQVIYPEFVAQGK----- 490 (914)
Q Consensus 416 vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~g~~lrv~~~~~~~~~~~~~~~~----- 490 (914)
+|.++.. .+. .+...|+|||+.+..|++..+|. +|||.+.+. +||++..+
T Consensus 371 ~~~yd~~---r~~----------------~nd~~IiWpGg~~~KP~gi~~pt---hLrivTi~~---~PFVYv~p~~sd~ 425 (993)
T KOG4440|consen 371 VGIYDGT---RVI----------------PNDRKIIWPGGETEKPRGIQMPT---HLRIVTIHQ---EPFVYVKPTLSDG 425 (993)
T ss_pred hccccce---eec----------------cCCceeecCCCCcCCCccccccc---eeEEEEecc---CCeEEEecCCCCc
Confidence 6655432 221 23468999999999999999885 699998876 44544320
Q ss_pred --------------------------C------CceeeeeeHHHHHHHHHHCCCcccEEEeeCCC----------CCCC-
Q 002505 491 --------------------------G------TDKFSGYCIDVFTAVLELLPYAVPYKLVPFGD----------GHNS- 527 (914)
Q Consensus 491 --------------------------~------~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~----------~~~n- 527 (914)
+ .-|+.|+|||++-.+++.+||+++..++..|. +..|
T Consensus 426 ~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~ 505 (993)
T KOG4440|consen 426 TCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNK 505 (993)
T ss_pred chhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeeccccccc
Confidence 0 12779999999999999999999888887442 1122
Q ss_pred CChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHH
Q 002505 528 PKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGV 607 (914)
Q Consensus 528 ~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~ 607 (914)
.+|+|++++|.++.+||++++++|++||.++++||.|+...++.++.++..+.+...+||+||+..+|+++.++..++++
T Consensus 506 kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal 585 (993)
T KOG4440|consen 506 KEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVAL 585 (993)
T ss_pred ceehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 36999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhheecccCCC-CCCC-------CCCchhhHHHHHHHHhhhcCcc--ccccchhhHHHHHHHHHHhhhhccccceeeee
Q 002505 608 VVWILEHRLNDD-FRGP-------PRRQIGTILWFSFSTLFFSHKE--RTVNSLSRLVLIIWLFVVLILTSSYTASLTSI 677 (914)
Q Consensus 608 ~~~~~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~l~~~~~~--~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~ 677 (914)
++++++|+++.+ |... ....++.++||+||.++..|.. .|+|.+.|++-++|.-|+||++++|||||++|
T Consensus 586 ~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAF 665 (993)
T KOG4440|consen 586 MLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAF 665 (993)
T ss_pred HHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhh
Confidence 999999987653 2221 2356899999999999998743 89999999999999999999999999999999
Q ss_pred eecccccCCCCChHHhhhCC----CCeEEEeCchhhhhhhhhcCCC--CCCc--ccCCCHHHHHHHHhcCCCCCCeEEEE
Q 002505 678 LTVEQLSSPIKDIQSLVASS----DPIGYQRGSFAENYLTDELNID--KSRL--VPLNTAEEYEKALTDGPKNGGVSAVI 749 (914)
Q Consensus 678 Lt~~~~~~~i~s~~dL~~~~----~~i~~~~~s~~~~~l~~~~~~~--~~~~--~~~~~~~~~~~~l~~~~~~g~~~a~i 749 (914)
|...+.+..++.+.|-.-.+ ...+...+|.+..||++..... ..+| ..|.+.+|.++++.+ |..+|||
T Consensus 666 LVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~AFI 741 (993)
T KOG4440|consen 666 LVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLHAFI 741 (993)
T ss_pred eeecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----CceeEEE
Confidence 99999999999999843222 2467889999999997643322 1222 236788899999999 9999999
Q ss_pred echhhHHHHHhcCceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHHcCC---CCCCCCCCCCcc
Q 002505 750 DERAYMEVFLSTRCEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKWLTR---SACSSQGAKQEA 826 (914)
Q Consensus 750 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~~~~---~~c~~~~~~~~~ 826 (914)
-|+.-++|..+++|+|...++.|...+|+++++|+||+.+.+..+|+++.|+|+|+++.++|... ..|...+ ..+
T Consensus 742 WDS~rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~--k~P 819 (993)
T KOG4440|consen 742 WDSARLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRS--KAP 819 (993)
T ss_pred eecceeeehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhc--cCc
Confidence 99999999999999999999999999999999999999999999999999999999999999972 3343332 358
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002505 827 DQLHLKSFWGLFVLCGVACLLALLIYLIQIVRQFARHY 864 (914)
Q Consensus 827 ~~L~~~~~~g~f~il~~g~~ls~~vf~~e~~~~~~~~~ 864 (914)
..|++.++.|+|++.+.|++..++..++|+.+++++..
T Consensus 820 atLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~ 857 (993)
T KOG4440|consen 820 ATLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDA 857 (993)
T ss_pred ccccccccccEEEEEecchhheeeEEEEeehhhhhhhh
Confidence 88999999999999999998888888899988776654
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=3.9e-74 Score=616.47 Aligned_cols=706 Identities=20% Similarity=0.368 Sum_probs=560.3
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEcCCCc---hHHHHHHHhhccCCccEEeeccCCC-CCccC-CCCceEeccCCcHHHHH
Q 002505 81 YSRFLGMVEALTLLEN-ETVAIIGPQFS---VIAHLVSHIANEFQVPLLSFAATDP-SLSSL-QYPFFVRTTQSDLYQMA 154 (914)
Q Consensus 81 ~~~~~a~~~a~~li~~-~v~aiiGp~~s---~~~~~v~~~~~~~~ip~is~~a~~~-~l~~~-~~~~~~r~~p~~~~~~~ 154 (914)
.||...+...|+++.. +|.+||-...| +.++.+.-+....+||+|+..+.+. .++++ ....++++.|+-++|++
T Consensus 83 tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~ 162 (1258)
T KOG1053|consen 83 TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQ 162 (1258)
T ss_pred CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHH
Confidence 7999999999999987 89888754444 3455555677788999999866544 34443 23478999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 155 a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
++.++|+.|+|..++++...-++.+.+...+++..+.. |+++.......+.. ++...-...++++-++.||++.|..
T Consensus 163 Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~-~d~~a~~q~qLkki~a~VillyC~~ 241 (1258)
T KOG1053|consen 163 VMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPST-DDLLAKLQAQLKKIQAPVILLYCSR 241 (1258)
T ss_pred HHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCCC-CchHHHHHHHHHhcCCcEEEEEecH
Confidence 99999999999999999998888888889888888763 66665555554332 2223333445555568999999999
Q ss_pred hHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCC
Q 002505 233 IWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG 312 (914)
Q Consensus 233 ~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 312 (914)
+.+..|+..|.++|+++++|+||++...... + +.-.+...|.+++.... |+
T Consensus 242 eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~----~---~~pa~~P~GLisv~~~~------------w~---------- 292 (1258)
T KOG1053|consen 242 EEAERIFEEAEQAGLTGPGYVWIVPQLVEGL----E---PRPAEFPLGLISVSYDT------------WR---------- 292 (1258)
T ss_pred HHHHHHHHHHHhcCCcCCceEEEeehhccCC----C---CCCccCccceeeeeccc------------hh----------
Confidence 9999999999999999999999996654332 0 11123345666654321 22
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCccccccc--ccCchHHHHHHHHhcccCCcccce
Q 002505 313 PIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVS--IFNGGKMLLDNILQVNMTGVTGPI 390 (914)
Q Consensus 313 ~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~g~~l~~~l~~~~f~g~~G~v 390 (914)
..+...+-|+|-++|.|+..++..-+.++.+ ..+|-... ....++.+.+.|.|++|+| +++
T Consensus 293 ----~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~-----------~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~l 355 (1258)
T KOG1053|consen 293 ----YSLEARVRDGVAIVARAASSMLRIHGFLPEP-----------KMDCREQEETRLTSGETLHRFLANVTWDG--RDL 355 (1258)
T ss_pred ----hhHHHHHhhhHHHHHHHHHHHHhhcccCCCc-----------ccccccccCccccchhhhhhhhheeeecc--cce
Confidence 2234567899999999999998765543322 22444332 3445899999999999999 889
Q ss_pred EEccCCCCCCCceEEEEecc-cceEEEEEecCCCCccccCCccccCCCCCCCCcccccceeeeCCCccccCCceeecCCC
Q 002505 391 KFTSDRDLINPAYEVINVIG-TGSRRIGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWVFPNNG 469 (914)
Q Consensus 391 ~f~~~g~~~~~~~~i~~~~~-~~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~g 469 (914)
.|+++|-.+++...++.+.+ ..|++||.|.+.+ |. +...+||- . .+...+.| ..
T Consensus 356 sf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~--------------------M~y~vWPr-~--~~~~q~~~-d~ 410 (1258)
T KOG1053|consen 356 SFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LV--------------------MKYPVWPR-Y--HKFLQPVP-DK 410 (1258)
T ss_pred eecCCceeeccceEEEecCCCcchheeceecCCe-EE--------------------Eecccccc-c--cCccCCCC-Cc
Confidence 99999998899988887764 5799999998764 33 45667772 1 11222222 23
Q ss_pred ceEEEEeccccCccccEEecC-----------------------------CCceeeeeeHHHHHHHHHHCCCcccEEEee
Q 002505 470 RHLRIGVPSQVIYPEFVAQGK-----------------------------GTDKFSGYCIDVFTAVLELLPYAVPYKLVP 520 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~-----------------------------~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~ 520 (914)
.+|+|.+.+.+||......|. -+.|++||||||++.|++..||+++...+.
T Consensus 411 ~HL~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVt 490 (1258)
T KOG1053|consen 411 LHLTVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVT 490 (1258)
T ss_pred ceeEEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEec
Confidence 467777776654432211111 135899999999999999999997777776
Q ss_pred CC--CCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHH
Q 002505 521 FG--DGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVT 598 (914)
Q Consensus 521 ~~--~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~i 598 (914)
.| ..+.||.|+||+++|..+++||+++.++|+++|.+.+|||.||.+++++++|.+.....+..+||.||++.+|+++
T Consensus 491 nGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmm 570 (1258)
T KOG1053|consen 491 NGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMM 570 (1258)
T ss_pred CCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHH
Confidence 54 2348999999999999999999999999999999999999999999999999999988899999999999999999
Q ss_pred HHHHHHH-HHhhhheecccCCCC-----C----CCCCCchhhHHHHHHHHhhhcCc--cccccchhhHHHHHHHHHHhhh
Q 002505 599 GIFFLVV-GVVVWILEHRLNDDF-----R----GPPRRQIGTILWFSFSTLFFSHK--ERTVNSLSRLVLIIWLFVVLIL 666 (914)
Q Consensus 599 l~~~~~~-~~~~~~~~~~~~~~~-----~----~~~~~~~~~~~~~~~~~l~~~~~--~~~~s~~~R~~~~~w~~~~lil 666 (914)
+++++++ ++.++++|+.++-.| . +-+.++++.++|..|+.+|+... ++|++..+|+++.+|.||++|+
T Consensus 571 FVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavif 650 (1258)
T KOG1053|consen 571 FVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIF 650 (1258)
T ss_pred HHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHH
Confidence 9888766 666778888765433 2 22467899999999999999964 5899999999999999999999
Q ss_pred hccccceeeeeeecccccCCCCChHHhhhC-------CCCeEEEeCchhhhhhhhhcCCCCCCcccC--CCHHHHHHHHh
Q 002505 667 TSSYTASLTSILTVEQLSSPIKDIQSLVAS-------SDPIGYQRGSFAENYLTDELNIDKSRLVPL--NTAEEYEKALT 737 (914)
Q Consensus 667 ~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~-------~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~l~ 737 (914)
.++|||||++||....+..++..+.|=.-+ ..++|.+.++..++++++++......|+.| ...++.++.|+
T Consensus 651 LAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK 730 (1258)
T KOG1053|consen 651 LASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLK 730 (1258)
T ss_pred HHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHh
Confidence 999999999999999999999999885422 346888877778888877554434556666 46789999999
Q ss_pred cCCCCCCeEEEEechhhHHHHHhc--CceEEEec--cccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 738 DGPKNGGVSAVIDERAYMEVFLST--RCEFSIIG--QEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 738 ~~~~~g~~~a~i~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+ |+.||||.|...++|...+ .|+|..++ +.|...+|++++|||||++..||.+|+++...|.++.+++.|+.
T Consensus 731 ~----gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt 806 (1258)
T KOG1053|consen 731 N----GKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT 806 (1258)
T ss_pred c----ccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh
Confidence 9 9999999999999999876 59999998 89999999999999999999999999999999999999999997
Q ss_pred CCCCCCCCCCCccccccccchhHHHHHHHHHHHHHHHHHHHHHH-HHHHhh
Q 002505 814 RSACSSQGAKQEADQLHLKSFWGLFVLCGVACLLALLIYLIQIV-RQFARH 863 (914)
Q Consensus 814 ~~~c~~~~~~~~~~~L~~~~~~g~f~il~~g~~ls~~vf~~e~~-~~~~~~ 863 (914)
..|.+...+..+.+|++++|.|+||+|++|++||+++|++|-+ +.+.|.
T Consensus 807 -gic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~Lr~ 856 (1258)
T KOG1053|consen 807 -GICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWKLRH 856 (1258)
T ss_pred -cccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 7788766677899999999999999999999999999999954 344444
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.6e-63 Score=588.83 Aligned_cols=597 Identities=35% Similarity=0.628 Sum_probs=506.4
Q ss_pred HHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHH
Q 002505 214 TLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEE 293 (914)
Q Consensus 214 ~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 293 (914)
.+..++....+++++++.+..+..++.++.+.||+..+|+|+.++......+.... ....+...|.+....+.|.+..
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSEL 82 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHH
Confidence 34455567899999999999999999999999999999999999987766655432 3445677888888888888989
Q ss_pred HHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHH
Q 002505 294 KRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKM 373 (914)
Q Consensus 294 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 373 (914)
.++|..+|+.. ....+.++.++||++++++.|++.+.. .. ....+|...+.|.++..
T Consensus 83 ~~~~~~~~~~~--------~~~~~~~~~~~~D~~~~~a~~~~~~~~-~~--------------~~~~~~~~~~~~~~~~~ 139 (656)
T KOG1052|consen 83 LQNFVTRWQTS--------NVELLVYALWAYDAIQALARAVESLLN-IG--------------NLSLSCGRNNSWLDALG 139 (656)
T ss_pred HHHHHHHHhhc--------cccccchhhHHHHHHHHHHHHHHHhhc-CC--------------CCceecCCCCcccchhH
Confidence 99999988764 134577899999999999999998754 11 12345665666777889
Q ss_pred HHHHHHhcccCC---cccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCccccCCccccCCCCCCCCccccccee
Q 002505 374 LLDNILQVNMTG---VTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSA 450 (914)
Q Consensus 374 l~~~l~~~~f~g---~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 450 (914)
+.+.+.+....+ .+|.+.++.++.+....|+++|..+.+.+.||.|++..| .+|
T Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i 196 (656)
T KOG1052|consen 140 VFNFGKKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENI 196 (656)
T ss_pred HHHHHHhhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------cee
Confidence 999998876544 567788887888899999999999999888999999864 478
Q ss_pred eeCCCccccCCceeecCCCceEEEEeccccCccccEEec---CCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCC--
Q 002505 451 VWPGQTTQKPRGWVFPNNGRHLRIGVPSQVIYPEFVAQG---KGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGH-- 525 (914)
Q Consensus 451 ~w~~~~~~~p~~~~~~~~g~~lrv~~~~~~~~~~~~~~~---~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~-- 525 (914)
.||+.....|++|.++.+|+++||++....||.-+.... .++..+.|+|+||++++++.+||++++..++.+.+.
T Consensus 197 ~~~~~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~ 276 (656)
T KOG1052|consen 197 SWPGKDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRD 276 (656)
T ss_pred eccCCcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCC
Confidence 999999999999999989999999999887766555541 245689999999999999999999999988876544
Q ss_pred CCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHH
Q 002505 526 NSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVV 605 (914)
Q Consensus 526 ~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~ 605 (914)
++|+|+|++++|.+|++|++ ++++++++|.+++|||.||++.++++++++++..+..|.|+.||++++|++++++++++
T Consensus 277 ~~g~~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~ 355 (656)
T KOG1052|consen 277 PNGNWDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLV 355 (656)
T ss_pred CCCChhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHH
Confidence 55799999999999999999 99999999999999999999999999999998665599999999999999999999999
Q ss_pred HHhhhheecccCCCCCCC----CCCchhhHHHHHHHHhhhcCc-cccccchhhHHHHHHHHHHhhhhccccceeeeeeec
Q 002505 606 GVVVWILEHRLNDDFRGP----PRRQIGTILWFSFSTLFFSHK-ERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTV 680 (914)
Q Consensus 606 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~-~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 680 (914)
++++|+++|..+.+++.+ ......+++|+++++++.|+. +.|++.++|+++++||++++|++++|||+|+|+||+
T Consensus 356 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~ 435 (656)
T KOG1052|consen 356 GLLLWILERLSPYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTV 435 (656)
T ss_pred HHHHHHHhccccccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 999999999888887111 112245688999999999974 589999999999999999999999999999999999
Q ss_pred ccccCCCCChHHhhh-CCCCeEEEeCchhhhhhhhh---cCCCCC-CcccCCCHHHHHHHHhcCCCCCCeEEEEechhhH
Q 002505 681 EQLSSPIKDIQSLVA-SSDPIGYQRGSFAENYLTDE---LNIDKS-RLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYM 755 (914)
Q Consensus 681 ~~~~~~i~s~~dL~~-~~~~i~~~~~s~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 755 (914)
+++.++|++++||.+ ++..+|...+++...++.+. ...... +.+.+.+.+|+.++++++.. + .++++.+....
T Consensus 436 ~~~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~-~~~~~~~~~~~ 513 (656)
T KOG1052|consen 436 PRLRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS-G-GYAFASDELYL 513 (656)
T ss_pred cccCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC-C-ceEEEeccHHH
Confidence 999999999999995 77889999999999999765 333444 77888999999999999433 2 34555555544
Q ss_pred HHHHhcC--ceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHHcCC----CCCCCCCCCCccccc
Q 002505 756 EVFLSTR--CEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKWLTR----SACSSQGAKQEADQL 829 (914)
Q Consensus 756 ~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~~~~----~~c~~~~~~~~~~~L 829 (914)
.+....+ |+++.+++.+...+++ ++||||||++.++.+|+++.|.|.++++.++|+.. ..|...+ +...|
T Consensus 514 ~~~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l 589 (656)
T KOG1052|consen 514 AYLFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKAL 589 (656)
T ss_pred HHHHhhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---ccccc
Confidence 4444443 9999999999999999 99999999999999999999999999999999994 4444433 47789
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002505 830 HLKSFWGLFVLCGVACLLALLIYLIQIVRQFARHYL 865 (914)
Q Consensus 830 ~~~~~~g~f~il~~g~~ls~~vf~~e~~~~~~~~~~ 865 (914)
++++++|+|+++++|+++|+++|++|++|++++...
T Consensus 590 ~~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~~ 625 (656)
T KOG1052|consen 590 DLESFWGLFLILLVGYLLALLVFILELLYSRRRTLL 625 (656)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999888863
No 5
>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=1.4e-46 Score=406.88 Aligned_cols=367 Identities=20% Similarity=0.286 Sum_probs=294.0
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTV-HDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~-~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+||+..+ ...+.|+++|++++|.+..++++.++.+.+ +++.+|++.+..++|+|++++|.|||||.++..+..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 3899999766 346899999999999999898999999999 999999999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeecc-----------CCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccch
Q 002505 113 VSHIANEFQVPLLSFAA-----------TDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG 181 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a-----------~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~ 181 (914)
++.+|+..+||+|++++ ++|.++..+|+++.|+ + ..+..|+++++++|+|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp--~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARP--P-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecC--c-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999866 3344444555555554 4 46788999999999999999999 89999999
Q ss_pred HHHHHHHHhhcccEEEEeeccCCCCChhHHHHHH--------HHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 182 IAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTL--------LTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 182 ~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l--------~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
++.+.+.+++.+.+|.....-. ....++.+.+ .+++... ++||++|.+..+..++++|+++||+..+|+
T Consensus 154 lq~L~~~~~~~~~~I~~~~v~~--~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~ 230 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQKVDR--NISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSH 230 (400)
T ss_pred HHHHHHHHhhcCceEEEEEccc--CcchhhhhHHHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeE
Confidence 9999999999999998765211 1111333334 4444334 899999999999999999999999999999
Q ss_pred EEEeCcccccccCCCcCChhhhhhcc-ceeEEEEecCCcHHHHHHH----HHHHHhhccCCCCCCCCCChhHHHHHHHHH
Q 002505 254 WIVTDWLSSILDTDSQLHSEKMDDIQ-GVLTLRMYTQSSEEKRKFV----TRWRHLTRRNTLNGPIGLNSFGLYAYDTLW 328 (914)
Q Consensus 254 ~i~~~~~~~~~~~~~~~~~~~~~~~~-G~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~YDav~ 328 (914)
||++++.....+. .+...... ++.+++.+.|.+....+|. .+|++...+........++.+++++||||+
T Consensus 231 wI~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~ 305 (400)
T cd06392 231 WVFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVL 305 (400)
T ss_pred EEEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHH
Confidence 9999987765444 33334343 4666998888777555554 566644432111111257889999999999
Q ss_pred HHHHHHHHhhhcCCCccccCCccccccCCCCccc--ccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEE
Q 002505 329 LLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRF--SSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (914)
Q Consensus 329 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~ 406 (914)
++|+|+++++++.... .....+| +...+|+.|..|+++|++++|+|+||+|+|+++|+|.++.|+|+
T Consensus 306 ~~A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi 374 (400)
T cd06392 306 MLANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEIL 374 (400)
T ss_pred HHHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEE
Confidence 9999999875432211 1223466 56889999999999999999999999999999999999999999
Q ss_pred Eec-----ccceEEEEEecCCCCcc
Q 002505 407 NVI-----GTGSRRIGYWSNHSGLS 426 (914)
Q Consensus 407 ~~~-----~~~~~~vg~w~~~~~~~ 426 (914)
|++ +.|+++||+|++.+||+
T Consensus 375 ~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 375 GTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred eccccccCCCCceEeEEecCCCCCC
Confidence 955 66799999999998863
No 6
>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=1e-45 Score=409.70 Aligned_cols=370 Identities=19% Similarity=0.271 Sum_probs=309.7
Q ss_pred eEEEEEEec-CC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 002505 32 VLNIGAVFA-LN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQF 106 (914)
Q Consensus 32 ~i~IG~i~~-~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~ 106 (914)
.|+||+++| ++ +..|...+.|+++|+++||+++++||+..+.+.+.+.++ ++..+...+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 55 556788899999999999999999999999999999665 7767888888887789999999999
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
|..+.+++++++.++||+|+++++++.+++. .+|++|+.|++..++.++++++++++|++|++||.++. |....+.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 9999999999999999999999999888764 35788888988889999999999999999999997654 666566788
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (914)
+.+++.|++|+.. .++ .+..|++.+|++|++.++++||+.+...++..+++||+++||+.+.|+|+.++......+.
T Consensus 160 ~~~~~~g~~v~~~-~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~~~ 236 (384)
T cd06393 160 MAPSRYNIRLKIR-QLP--TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDL 236 (384)
T ss_pred HhhhccCceEEEE-ECC--CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccccc
Confidence 8888899999874 455 4568999999999999999999999999999999999999999999999987754333332
Q ss_pred CCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHh-hccCCCCC----CCCCChhHHHHHHHHHHHHHHHHHhhhcC
Q 002505 267 DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHL-TRRNTLNG----PIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (914)
Q Consensus 267 ~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~----~~~~~~~~~~~YDav~~~a~Al~~~~~~~ 341 (914)
+.+......+.++....++++.+++|.++|+++ ++..+... +..++.+++++||||+++++|++++.+.
T Consensus 237 -----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~- 310 (384)
T cd06393 237 -----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM- 310 (384)
T ss_pred -----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc-
Confidence 122112233577778888899999999999854 54321111 1123678999999999999999975321
Q ss_pred CCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEcc-CCCCCCCceEEEEecccceEEEEEec
Q 002505 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRDLINPAYEVINVIGTGSRRIGYWS 420 (914)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~-~g~~~~~~~~i~~~~~~~~~~vg~w~ 420 (914)
..+.++|+...+|+.|..|.++|++++|+|+||+++||+ +|+|.++.|+|+|++++++++||+|+
T Consensus 311 --------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~ 376 (384)
T cd06393 311 --------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWN 376 (384)
T ss_pred --------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEc
Confidence 123457888889999999999999999999999999996 68889999999999999999999999
Q ss_pred CCCCcc
Q 002505 421 NHSGLS 426 (914)
Q Consensus 421 ~~~~~~ 426 (914)
+..||+
T Consensus 377 ~~~g~~ 382 (384)
T cd06393 377 PNTGLN 382 (384)
T ss_pred CCCCcC
Confidence 999875
No 7
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1.4e-45 Score=419.18 Aligned_cols=380 Identities=19% Similarity=0.330 Sum_probs=311.1
Q ss_pred CCCCCeEEEEEEecCCC-----------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHH
Q 002505 27 STIPPVLNIGAVFALNS-----------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVE 89 (914)
Q Consensus 27 ~~~~~~i~IG~i~~~s~-----------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~ 89 (914)
...+|+|.||++||.+. ..|.....|+.+|+|+||+++++|||++|++.++|+|+++..|++.
T Consensus 4 ~~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~ 83 (472)
T cd06374 4 ARMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQ 83 (472)
T ss_pred EEecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHH
Confidence 34688999999999983 1356778999999999999999999999999999999999999999
Q ss_pred HHHHHhc--------------------------CcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCce
Q 002505 90 ALTLLEN--------------------------ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFF 142 (914)
Q Consensus 90 a~~li~~--------------------------~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~ 142 (914)
+.+++.+ +|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+
T Consensus 84 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~ 163 (472)
T cd06374 84 SIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYF 163 (472)
T ss_pred HHHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCce
Confidence 9999852 7999999999999999999999999999999999999987 579999
Q ss_pred EeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC-
Q 002505 143 VRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM- 221 (914)
Q Consensus 143 ~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~- 221 (914)
||+.|++..++.++++++++++|++|++|++|++||....+.+++.+++.|+||+..+.++...+..++..++.+|++.
T Consensus 164 fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~ 243 (472)
T cd06374 164 LRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRL 243 (472)
T ss_pred EEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999888776445678999999999975
Q ss_pred -CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHH---
Q 002505 222 -MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKF--- 297 (914)
Q Consensus 222 -~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f--- 297 (914)
+++||++++....+..++++|+++|+. .+++||++++|....... ....+..+|.+++.+..+..+.+++|
T Consensus 244 ~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~~ 318 (472)
T cd06374 244 PKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYLK 318 (472)
T ss_pred CCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHHh
Confidence 455666667788899999999999996 568999999876532111 23446789999998887766666554
Q ss_pred ------------HHHHHHhhccC---------------CCCCCC----CCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 298 ------------VTRWRHLTRRN---------------TLNGPI----GLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 298 ------------~~~~~~~~~~~---------------~~~~~~----~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
.+.|++.|... .+.... ..+.++.++||||+++|+||++++.+.+..
T Consensus 319 l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~-- 396 (472)
T cd06374 319 LRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG-- 396 (472)
T ss_pred CCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC--
Confidence 44566655311 000000 112456689999999999999998654311
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCCCCCceEEEEecc-----cceEEEEEec
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG-----TGSRRIGYWS 420 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~~~~~~~i~~~~~-----~~~~~vg~w~ 420 (914)
....|...... +|..|+++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||.|+
T Consensus 397 -----------~~~~c~~~~~~-~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~ 463 (472)
T cd06374 397 -----------HVGLCDAMKPI-DGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWH 463 (472)
T ss_pred -----------CCCCCcCCCCC-CHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEe
Confidence 11235543333 4999999999999999999 79999999975 5899999994 2479999997
Q ss_pred CCCCccc
Q 002505 421 NHSGLSV 427 (914)
Q Consensus 421 ~~~~~~~ 427 (914)
+ .+|.+
T Consensus 464 ~-~~l~~ 469 (472)
T cd06374 464 E-GDLGI 469 (472)
T ss_pred C-Ccccc
Confidence 5 35543
No 8
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=1.6e-45 Score=418.73 Aligned_cols=375 Identities=22% Similarity=0.350 Sum_probs=310.9
Q ss_pred CeEEEEEEecCCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002505 31 PVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-- 95 (914)
Q Consensus 31 ~~i~IG~i~~~s~-------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 95 (914)
+++.||++||.+. ..|.....|+++|+|+||+++++|||++|+++++|+|+++..|+..+.+++.
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 4689999999983 3566779999999999999999999999999999999999999999999885
Q ss_pred ---------------------cCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHH
Q 002505 96 ---------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (914)
Q Consensus 96 ---------------------~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 153 (914)
.+|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc-CCCeEEEEEeCh
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTYD 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viil~~~~ 232 (914)
.++++++++++|++|++|+.|++||....+.+++.+++.|++|+..+.++...+..|+.+++.+|++ .++|+||+.+..
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~ 240 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCRE 240 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcCh
Confidence 9999999999999999999999999999999999999999999998888754577999999999987 579999999999
Q ss_pred hHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHH---------------H
Q 002505 233 IWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRK---------------F 297 (914)
Q Consensus 233 ~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~---------------f 297 (914)
.++..++++|+++|++ .+++||+++++....... ....+..+|++++.++....+.++. |
T Consensus 241 ~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~ 315 (452)
T cd06362 241 DDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWF 315 (452)
T ss_pred HHHHHHHHHHHHcCCc-CceEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHH
Confidence 9999999999999997 568999998876532211 2334678888888877655444433 3
Q ss_pred HHHHHHhhccC-------------CCCC----CCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCc
Q 002505 298 VTRWRHLTRRN-------------TLNG----PIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDM 360 (914)
Q Consensus 298 ~~~~~~~~~~~-------------~~~~----~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (914)
.+.|+..+... .... ....+.++.++||||+++|+||++++.++++.. ..
T Consensus 316 ~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------------~~ 382 (452)
T cd06362 316 REFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------------TG 382 (452)
T ss_pred HHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------CC
Confidence 33344444210 0000 012345789999999999999999986643211 12
Q ss_pred ccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCCCCCceEEEEecc----cceEEEEEecCCCCc
Q 002505 361 RFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG----TGSRRIGYWSNHSGL 425 (914)
Q Consensus 361 ~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~~~~~~~i~~~~~----~~~~~vg~w~~~~~~ 425 (914)
.|.... |.+|..|.++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||+|+++.|+
T Consensus 383 ~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 383 LCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 355433 445999999999999999998 79999999974 6999999983 358999999887764
No 9
>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=3.4e-45 Score=397.32 Aligned_cols=360 Identities=16% Similarity=0.236 Sum_probs=301.9
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
+||+||+.++ ...+.|+++|++++|.+..++| . +.+-+..|++.+.+.+|+++++||.||+||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~--~---~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLP--Q---IDIVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCccccc--c---eEEeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 3568999999999998764443 1 112244689999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcc
Q 002505 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKR 193 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g 193 (914)
+.+|+..+||+|+++. |.. ....|++++.|+ ++.|+++++++|||++|++||+ ++||...++.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd-~d~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYD-ADRGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEe-CCccHHHHHHHHHhhhccC
Confidence 9999999999999754 322 233568999987 7999999999999999999995 4499999999999999999
Q ss_pred cEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChh
Q 002505 194 CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSE 273 (914)
Q Consensus 194 ~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~ 273 (914)
++|.....++ .+..++..+|.+++.+++++||++|....+..+++++.+.+|+..+|+||+++......+. ++
T Consensus 145 ~~I~~~~~~~--~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~-----~~ 217 (364)
T cd06390 145 WQVTAVNILT--TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL-----TK 217 (364)
T ss_pred ceeeEEEeec--CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH-----HH
Confidence 9999877766 4567999999999999999999999999999999999999999999999999843322222 45
Q ss_pred hhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccc
Q 002505 274 KMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKL 352 (914)
Q Consensus 274 ~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~ 352 (914)
+.....|+++++.+.|+++.+++|..+|++.... .++.+...++.+++++||||+++|+|++++..++.+.++
T Consensus 218 ~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~------ 291 (364)
T cd06390 218 FRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISR------ 291 (364)
T ss_pred HhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc------
Confidence 6678899999999999999999999999886643 233334467889999999999999999998655433221
Q ss_pred cccCCCCccccc--ccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 353 SELSRGDMRFSS--VSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 353 ~~~~~~~~~~~~--~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
.+++..|.. ..+|+.|..|+++|++++|+|+||+++|+++|+|.++.|+|+|+++.++++||+|++.+|+
T Consensus 292 ---~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 292 ---RGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred ---CCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 122234543 4589999999999999999999999999999999999999999999999999999999875
No 10
>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=5.3e-45 Score=410.20 Aligned_cols=369 Identities=22% Similarity=0.373 Sum_probs=309.7
Q ss_pred CeEEEEEEecCCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002505 31 PVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-- 95 (914)
Q Consensus 31 ~~i~IG~i~~~s~-------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 95 (914)
++|.||++||.+. ..|.+...|+.+|||+||+++++|||.+|++.++|+|+++..|++.+.+++.
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 4689999999972 3577889999999999999999999999999999999999999999988883
Q ss_pred -----------------------cCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHH
Q 002505 96 -----------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLY 151 (914)
Q Consensus 96 -----------------------~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~ 151 (914)
.+|.|||||.+|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|+|..
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~ 160 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFY 160 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHH
Confidence 27999999999999999999999999999999999999987 579999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc-CCCeEEEEEe
Q 002505 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHT 230 (914)
Q Consensus 152 ~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viil~~ 230 (914)
++.+++++++++||++|++|+.|++||....+.+++++++.|+||+..+.++...+..|+..+++++++ .++||||+++
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~ 240 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFT 240 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEec
Confidence 999999999999999999999999999999999999999999999998888755567899999999875 6899999999
Q ss_pred ChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHH------------
Q 002505 231 YDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV------------ 298 (914)
Q Consensus 231 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~------------ 298 (914)
...++..++++|+++|+. ++||++++|....... ....+.++|++++.+.....+.+++|+
T Consensus 241 ~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~ 313 (458)
T cd06375 241 RSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNP 313 (458)
T ss_pred ChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCc
Confidence 999999999999999985 7899999886432111 123357889999998876666665554
Q ss_pred ---HHHHHhhcc-----------CCCCCC------CCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCC
Q 002505 299 ---TRWRHLTRR-----------NTLNGP------IGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRG 358 (914)
Q Consensus 299 ---~~~~~~~~~-----------~~~~~~------~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~ 358 (914)
+.|+..|+. |.+... ......+.++||||+++||||++++.+.++..
T Consensus 314 w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~------------- 380 (458)
T cd06375 314 WFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT------------- 380 (458)
T ss_pred HHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC-------------
Confidence 446665531 111111 12345788999999999999999997654321
Q ss_pred CcccccccccCchHHHH-HHHHhcccC-----Cccc-ceEEccCCCCCCCceEEEEecc--cc----eEEEEEecC
Q 002505 359 DMRFSSVSIFNGGKMLL-DNILQVNMT-----GVTG-PIKFTSDRDLINPAYEVINVIG--TG----SRRIGYWSN 421 (914)
Q Consensus 359 ~~~~~~~~~~~~g~~l~-~~l~~~~f~-----g~~G-~v~f~~~g~~~~~~~~i~~~~~--~~----~~~vg~w~~ 421 (914)
...|.....++ +.+|+ ++|++++|. |.+| +|.||+||+. ...|+|+|++. ++ +++||.|+.
T Consensus 381 ~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 381 TKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 12466655665 88999 599999999 9988 6999999995 67999999993 32 689999954
No 11
>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=6.7e-45 Score=413.41 Aligned_cols=379 Identities=20% Similarity=0.314 Sum_probs=312.1
Q ss_pred CCCCCeEEEEEEecCCC----------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH
Q 002505 27 STIPPVLNIGAVFALNS----------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRF 84 (914)
Q Consensus 27 ~~~~~~i~IG~i~~~s~----------------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~ 84 (914)
...+++|.||++||.+. ..|.....|+.+|+|+||+++++||+.+|+++++|+|+++.
T Consensus 7 ~~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~ 86 (510)
T cd06364 7 AQKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVS 86 (510)
T ss_pred eeecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchH
Confidence 35688999999999983 33667789999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhc-C------------------cEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEe
Q 002505 85 LGMVEALTLLEN-E------------------TVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVR 144 (914)
Q Consensus 85 ~a~~~a~~li~~-~------------------v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r 144 (914)
.|++.+.+|+.+ + |.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||++||
T Consensus 87 ~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffR 166 (510)
T cd06364 87 KALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeE
Confidence 999999999864 2 469999999999999999999999999999999999987 67999999
Q ss_pred ccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCe
Q 002505 145 TTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSR 224 (914)
Q Consensus 145 ~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 224 (914)
+.|+|..++.++++++++++|++|++|+.|++||+...+.+++.+++.|+||+..+.++......|+.+++.+++++++|
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~ 246 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAK 246 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCe
Confidence 99999999999999999999999999999999999999999999999999999988777544678999999999999999
Q ss_pred EEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHH-------
Q 002505 225 ILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKF------- 297 (914)
Q Consensus 225 viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f------- 297 (914)
+||+.+...++..++++|+++|+. +.+||++++|........ ....+.+.|++++.+.....+.+++|
T Consensus 247 vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~---~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~ 321 (510)
T cd06364 247 VIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAM---PEYFDVMGGTIGFALKAGQIPGFREFLQKVHPK 321 (510)
T ss_pred EEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccccc---CCccceeeEEEEEEECCCcCccHHHHHHhCCcc
Confidence 999999999999999999999985 479999988764433221 34457788999998876554444333
Q ss_pred --------HHHHHHhhcc-----------------------------------CCCCCCC----------CCChhHHHHH
Q 002505 298 --------VTRWRHLTRR-----------------------------------NTLNGPI----------GLNSFGLYAY 324 (914)
Q Consensus 298 --------~~~~~~~~~~-----------------------------------~~~~~~~----------~~~~~~~~~Y 324 (914)
.+.|++.|+. |.+.... ....++..+|
T Consensus 322 ~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~ 401 (510)
T cd06364 322 KSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVY 401 (510)
T ss_pred cCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHH
Confidence 3345555531 1111110 0234567899
Q ss_pred HHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCCCCCce
Q 002505 325 DTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAY 403 (914)
Q Consensus 325 Dav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~~~~~~ 403 (914)
|||+++||||++++.|..... ......|......+ +.+|+++|++++|.|.+| +|.||+||+. ...|
T Consensus 402 ~AVyAvAhaLh~~~~c~~~~~----------~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Y 469 (510)
T cd06364 402 LAVYSIAHALQDIYTCTPGKG----------LFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNY 469 (510)
T ss_pred HHHHHHHHHHHHHhcCCCCCC----------CccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccce
Confidence 999999999999987642110 00112466655554 889999999999999988 6999999995 5799
Q ss_pred EEEEecc---cc---eEEEEEecCC
Q 002505 404 EVINVIG---TG---SRRIGYWSNH 422 (914)
Q Consensus 404 ~i~~~~~---~~---~~~vg~w~~~ 422 (914)
+|+|++. ++ +++||.|++.
T Consensus 470 dI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 470 SIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eEEEeeecCCCCcEEEEEEEEEcCC
Confidence 9999993 22 6899999764
No 12
>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=6.9e-45 Score=402.22 Aligned_cols=334 Identities=23% Similarity=0.305 Sum_probs=285.4
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-------------------CcEEEEcCCC
Q 002505 46 GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-------------------ETVAIIGPQF 106 (914)
Q Consensus 46 g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-------------------~v~aiiGp~~ 106 (914)
|.+...|+.+|+|+||+++ +|||++|+++++|+|++|..|+.++.+|+++ +|.|||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 5677899999999999999 5589999999999999999999999999974 7999999999
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (914)
|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|+|..|+.+++++++++||++|++|+.|++||+...+.+
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f 192 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETF 192 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHH
Confidence 999999999999999999999999999997 6789999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccEEEEeeccCCCCCh-----hHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcc
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSR-----NQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWL 260 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~-----~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 260 (914)
++++++.|+||+..+.++..... .++..+++.++.+++|+||+.+...++..++++|+++|+ +++||++++|
T Consensus 193 ~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w 269 (403)
T cd06361 193 IIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNW 269 (403)
T ss_pred HHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcc
Confidence 99999999999999988753221 566677777888999999999999999999999999998 6899999998
Q ss_pred cccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhc
Q 002505 261 SSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (914)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 340 (914)
........ ....+...|.+++.+..+.. +.|.+.|++.+ ..++||||+++|+||++++.+
T Consensus 270 ~~~~~~~~---~~~~~~~~g~ig~~~~~~~~---~~F~~~~~~~~--------------~~~v~~AVyaiA~Al~~~~~~ 329 (403)
T cd06361 270 STAKKILT---DPNVKKIGKVVGFTFKSGNI---SSFHQFLKNLL--------------IHSIQLAVFALAHAIRDLCQE 329 (403)
T ss_pred cCcccccc---CCcccccceEEEEEecCCcc---chHHHHHHHhh--------------HHHHHHHHHHHHHHHHHhccC
Confidence 75433221 22235677889888866444 45555565543 345899999999999996432
Q ss_pred CCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccc----eEEE
Q 002505 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTG----SRRI 416 (914)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~----~~~v 416 (914)
. .|......+ +.+|+++|++++|+|++|++.||++|+. ...|+|+|+++++ +++|
T Consensus 330 ~-------------------~c~~~~~~~-~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~v 388 (403)
T cd06361 330 R-------------------QCQNPNAFQ-PWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIM 388 (403)
T ss_pred C-------------------CCCCCCCcC-HHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEE
Confidence 1 244333344 8999999999999999889999999995 6799999999643 6999
Q ss_pred EEecCCCC
Q 002505 417 GYWSNHSG 424 (914)
Q Consensus 417 g~w~~~~~ 424 (914)
|.|++...
T Consensus 389 g~~~~~~~ 396 (403)
T cd06361 389 AEYDPQND 396 (403)
T ss_pred EEEeCCCC
Confidence 99998764
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=2e-44 Score=409.10 Aligned_cols=371 Identities=23% Similarity=0.361 Sum_probs=300.1
Q ss_pred CeEEEEEEecCC--C-----------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHH----HH
Q 002505 31 PVLNIGAVFALN--S-----------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEAL----TL 93 (914)
Q Consensus 31 ~~i~IG~i~~~s--~-----------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~----~l 93 (914)
++|+||++||.+ . ..|.....|+++|+|+||+++++|||++|+++++|+|+++..+...+. ++
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 479999999998 1 256677899999999999999999999999999999998765554444 44
Q ss_pred Hh-------------------cCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHH
Q 002505 94 LE-------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (914)
Q Consensus 94 i~-------------------~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 153 (914)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|+|..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 32 27999999999999999999999999999999999999987 56899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc-ccEEEEeeccCCCCChhHHHHHHHHhcc-CCCeEEEEEeC
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTY 231 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viil~~~ 231 (914)
.++++++++++|++|++|+.+++||....+.+++.+++. |++|.....++...+..|+..++++|++ .++|+||+.+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~ 240 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFAN 240 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecC
Confidence 999999999999999999999999999999999999887 4688766666544677899999999986 79999999999
Q ss_pred hhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHH-------------
Q 002505 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV------------- 298 (914)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~------------- 298 (914)
..++..++++|+++|+++ .|+||++++|........ ...+.+.|.+++.+.....+.+++|.
T Consensus 241 ~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~ 315 (463)
T cd06376 241 EDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVW 315 (463)
T ss_pred hHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcH
Confidence 999999999999999875 599999998864432211 12346789999988766655555544
Q ss_pred --HHHHHhhccC---------------CCCCCC------CCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCcccccc
Q 002505 299 --TRWRHLTRRN---------------TLNGPI------GLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSEL 355 (914)
Q Consensus 299 --~~~~~~~~~~---------------~~~~~~------~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~ 355 (914)
+.|+..|... .+.... .....+.++||||+++|+||++++++.++.
T Consensus 316 ~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~----------- 384 (463)
T cd06376 316 FAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG----------- 384 (463)
T ss_pred HHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC-----------
Confidence 4566655311 111110 113368899999999999999998654321
Q ss_pred CCCCcccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCCCCCceEEEEecc-----cceEEEEEecC
Q 002505 356 SRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG-----TGSRRIGYWSN 421 (914)
Q Consensus 356 ~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~~~~~~~i~~~~~-----~~~~~vg~w~~ 421 (914)
....|.... |.+|..|+++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||.|++
T Consensus 385 --~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 --YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred --CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 112465443 445999999999999999999 79999999964 6899999983 35899999975
No 14
>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=1.3e-44 Score=408.76 Aligned_cols=371 Identities=18% Similarity=0.270 Sum_probs=304.0
Q ss_pred CeEEEEEEecCCC----------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 002505 31 PVLNIGAVFALNS----------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMV 88 (914)
Q Consensus 31 ~~i~IG~i~~~s~----------------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~ 88 (914)
++|.||++||.+. ..|.+...|+.+|+|+||++..+|||++|++.++|+|+++..|+.
T Consensus 1 Gdi~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~ 80 (469)
T cd06365 1 GDLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALE 80 (469)
T ss_pred CCeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHH
Confidence 4688999999861 125567899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHH
Q 002505 89 EALTLLE--------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (914)
Q Consensus 89 ~a~~li~--------------~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 153 (914)
.+.+++. .+++|||||.+|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|+|..++
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999987 57899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCCh--hHHHHHHHHhccCCCeEEEEEeC
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSR--NQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~--~d~~~~l~~i~~~~~~viil~~~ 231 (914)
.++++++++|+|++|++|+.|++||....+.+.+++++.|+||+..+.++..... .++..++++++++++|+||+++.
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~ 240 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGD 240 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcC
Confidence 9999999999999999999999999999999999999999999999888754332 47899999999999999999999
Q ss_pred hhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHH-----------
Q 002505 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTR----------- 300 (914)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~----------- 300 (914)
..++..++.++.+.+. .+++||++++|....... ....+.++|++++.++.+..+.+++|.++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 8888777666655443 569999999876543221 23446789999999998877777766544
Q ss_pred ----HHHhhc------------cCCCCCCC----------CCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccc
Q 002505 301 ----WRHLTR------------RNTLNGPI----------GLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSE 354 (914)
Q Consensus 301 ----~~~~~~------------~~~~~~~~----------~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~ 354 (914)
|+..|. .|+..... ..+..+.++||||+++|+||++++++.+..
T Consensus 315 ~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~---------- 384 (469)
T cd06365 315 LEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET---------- 384 (469)
T ss_pred HHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC----------
Confidence 444442 12211111 123467889999999999999999875421
Q ss_pred cCCCCcccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCCCCCceEEEEecc--c---ceEEEEEecCC
Q 002505 355 LSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG--T---GSRRIGYWSNH 422 (914)
Q Consensus 355 ~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~~~~~~~i~~~~~--~---~~~~vg~w~~~ 422 (914)
....+|.. .... +.+|+++|++++|+|.+| +|.||+|||. ...|+|+|++. + .+++||.|++.
T Consensus 385 --~~~~~~~~-~~~~-~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 385 --QSENNGKR-LIFL-PWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred --CCcCCCCC-CCcc-HHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 11123433 3343 889999999999999999 5999999995 67999999982 2 26999999753
No 15
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.2e-43 Score=383.51 Aligned_cols=366 Identities=15% Similarity=0.210 Sum_probs=305.0
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCC-cEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGG-TKLKLTVHDT-NYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g-~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.||+||+.++ .+.+.|+++|++++|.+..+++. .++...+... ..|++.+.+++|+++++||.||+||.++..+.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899999655 35689999999999999877654 4777755433 56999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE 191 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~ 191 (914)
.+..+|+..+||+|.++-. .+...++.+++.|+ ...|+++++++|+|++|++|| |+++|...++.+.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 9999999999999986332 12334778899998 689999999999999999999 778899999999999999
Q ss_pred cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCC
Q 002505 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLH 271 (914)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 271 (914)
.+..|......+. ....++..+++++++++.++||++|.+..+..++++|.+.||+..+|+||+++......++
T Consensus 150 ~~~~V~~~~v~~~-~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl----- 223 (372)
T cd06387 150 NNWQVTARSVGNI-KDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL----- 223 (372)
T ss_pred CCceEEEEEeccC-CchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH-----
Confidence 9999887765442 2456899999999999999999999999999999999999999999999999854444333
Q ss_pred hhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCc
Q 002505 272 SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDS 350 (914)
Q Consensus 272 ~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 350 (914)
.++.....++++++.+.|+++..++|.++|++.... .++....+++.+++++||||+++|+|++++.......+.
T Consensus 224 ~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~---- 299 (372)
T cd06387 224 ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSR---- 299 (372)
T ss_pred HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCccc----
Confidence 334444445999999999999999999999876543 233334457789999999999999999998554332211
Q ss_pred cccccCCCCccccc--ccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 351 KLSELSRGDMRFSS--VSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 351 ~~~~~~~~~~~~~~--~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
.+.+..|.. ..+|+.|..|+++|++++|+|+||+++|+++|+|.++.|+|+|+.++++++||+|++..|+
T Consensus 300 -----~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 300 -----RGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred -----CCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 122335543 5689999999999999999999999999999999999999999999999999999999885
No 16
>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=2.4e-43 Score=386.81 Aligned_cols=368 Identities=21% Similarity=0.301 Sum_probs=295.8
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEE--EEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLK--LTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~--l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
+||+||+.++..+ +.|+++|++++|++..+|||.++. +...|+ +|+..+..++|+|++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999988544 569999999999999999998555 488899 4999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEee----ccCC-----CCCcc--CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccc
Q 002505 112 LVSHIANEFQVPLLSF----AATD-----PSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRN 180 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~----~a~~-----~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~ 180 (914)
.++.+|+.++||+|++ ++++ +.+++ .+||+++| |+ ..++.++++++++|+|++++++ .|+++|..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccHH
Confidence 9999999999999985 4433 33342 45777777 44 6789999999999999999976 56778899
Q ss_pred hHHHHHHHHhhcccEEEEeeccCCCCC---hhHHHH-HHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEE
Q 002505 181 GIAALGDKLAEKRCRLSHKVPLSPKGS---RNQIID-TLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (914)
Q Consensus 181 ~~~~~~~~l~~~g~~v~~~~~~~~~~~---~~d~~~-~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (914)
.++.+.+.+++.|+||....... ... ...+.. .++++++ .+.++||++|....+..++++|+++||++.+|+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~w 231 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQKVEN-NINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHW 231 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEecCc-chhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999999754321 111 012222 4456654 5679999999999999999999999999999999
Q ss_pred EEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc--C-CCCC-CCCCChhHHHHHHHHHHH
Q 002505 255 IVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR--N-TLNG-PIGLNSFGLYAYDTLWLL 330 (914)
Q Consensus 255 i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~--~-~~~~-~~~~~~~~~~~YDav~~~ 330 (914)
|++++....+++.+ -..+.+.|+.++.++.|.+....+|..+|+.+++. + +... ...++.+++++||||+++
T Consensus 232 i~t~~~~~~~dl~~----~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~ 307 (400)
T cd06391 232 IIINEEISDMDVQE----LVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLL 307 (400)
T ss_pred EEeCccccccccch----HHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHH
Confidence 99999888877632 22345667888888888878888898888887632 1 1111 124678999999999999
Q ss_pred HHHHHHhhhcCCCccccCCccccccCCCCcccc--cccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEe
Q 002505 331 AHAIGAFFDQGGNISFSEDSKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (914)
Q Consensus 331 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~ 408 (914)
|+|++++...+... .....+|. ...+|+.|..|+++|++++|+|+||+++|+++|+|.++.|+|+|+
T Consensus 308 A~A~~~l~~~~~~~-----------~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~ 376 (400)
T cd06391 308 ANAFHKKLEDRKWH-----------SMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGT 376 (400)
T ss_pred HHHHHHHHhhcccc-----------CCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEe
Confidence 99999875332211 11222444 456899999999999999999999999999999999999999999
Q ss_pred c-----ccceEEEEEecCCCCc
Q 002505 409 I-----GTGSRRIGYWSNHSGL 425 (914)
Q Consensus 409 ~-----~~~~~~vg~w~~~~~~ 425 (914)
+ +.|+++||+|++..||
T Consensus 377 ~~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 377 NYGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred eccccCCCcceEEEEEcCCcCC
Confidence 6 8899999999999886
No 17
>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=3e-43 Score=391.47 Aligned_cols=375 Identities=19% Similarity=0.292 Sum_probs=301.3
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+||+.++ ...+.|+++|++++|++..++++.++.+.+.++. +|+..++.++|+|++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999984 6789999999999999876667788888777775 79999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~ 192 (914)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |....+.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999999988774 4679999998863 458889999999999999996664 667777888888888
Q ss_pred c--cEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcC
Q 002505 193 R--CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQL 270 (914)
Q Consensus 193 g--~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 270 (914)
| ++|.... +.......|++.+|.+|++.++|+||+.+...++..+++||+++||+.++|+||++++.....+.
T Consensus 153 g~~i~v~~~~-~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~---- 227 (382)
T cd06380 153 DNKWQVTARR-VDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL---- 227 (382)
T ss_pred CCceEEEEEE-ecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH----
Confidence 8 6666443 32212457999999999999999999999999999999999999999999999988754433222
Q ss_pred ChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccC-CCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCC
Q 002505 271 HSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRN-TLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (914)
Q Consensus 271 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 349 (914)
........++.++....++.+..++|.++|+++++.. +......++.+++++||||+++++|++++.+.+++.....
T Consensus 228 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~- 305 (382)
T cd06380 228 -SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRI- 305 (382)
T ss_pred -HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccccccc-
Confidence 1112223346666666667888999999999987431 2222335677899999999999999999876543211000
Q ss_pred ccccccCCCCcccc--cccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 350 SKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 350 ~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
.......+..|. ...+|.+|+.|.++|++++|+|++|++.||++|++.+..++|++++++++++||+|++..|+
T Consensus 306 --~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 306 --DISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred --ccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 001112233444 45679899999999999999999999999999999889999999999999999999998875
No 18
>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=2.7e-43 Score=390.38 Aligned_cols=336 Identities=22% Similarity=0.329 Sum_probs=275.1
Q ss_pred CCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH-HHHHHHHHHhcCcEEEEc-CC-C
Q 002505 30 PPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFL-GMVEALTLLENETVAIIG-PQ-F 106 (914)
Q Consensus 30 ~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~-a~~~a~~li~~~v~aiiG-p~-~ 106 (914)
+.+|+||+++|. .....|+++|++++|++.+.+++.++.-...+..+++.. +..++.+|++++|.|||| +. +
T Consensus 17 ~~~i~IG~i~~~-----~~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~s 91 (377)
T cd06379 17 PKTVNIGAVLSN-----KKHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPPT 91 (377)
T ss_pred CcEEEEeEEecc-----hhHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCCC
Confidence 578999999983 357899999999999965432332222221111345555 555556788889999974 33 3
Q ss_pred ch---HHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchH
Q 002505 107 SV---IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGI 182 (914)
Q Consensus 107 s~---~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~ 182 (914)
|. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||++++||....
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 171 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQ 171 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHH
Confidence 33 4777888999999999999999998887 4589999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccc----EEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 183 AALGDKLAEKRC----RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 183 ~~~~~~l~~~g~----~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+.+++.+++.|+ +|+..+.++ .+..|+..++.++++.++|+|++++...++..++++|+++||++++|+||.++
T Consensus 172 ~~~~~~~~~~g~~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi~t~ 249 (377)
T cd06379 172 KRFETLLEEREIEFKIKVEKVVEFE--PGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWIVSE 249 (377)
T ss_pred HHHHHHHHhcCCccceeeeEEEecC--CchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEEEec
Confidence 999999999999 888877776 46689999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhh
Q 002505 259 WLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFF 338 (914)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~ 338 (914)
.+... .+...|++++++..+ ..++.++||||+++|+|++++.
T Consensus 250 ~~~~~-----------~~~~~g~~g~~~~~~---------------------------~~~~~~~yDAV~~~A~Al~~~~ 291 (377)
T cd06379 250 QAGAA-----------RNAPDGVLGLQLING---------------------------KNESSHIRDAVAVLASAIQELF 291 (377)
T ss_pred ccccc-----------ccCCCceEEEEECCC---------------------------CCHHHHHHHHHHHHHHHHHHHH
Confidence 86321 134578888887542 1246689999999999999986
Q ss_pred hcCCCccccCCccccccCCCCcccccc-cccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEE
Q 002505 339 DQGGNISFSEDSKLSELSRGDMRFSSV-SIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIG 417 (914)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg 417 (914)
++.. . ......|... .+|.+|..++++|++++|+|++|+|.||++|++....|+|+|+++.++++||
T Consensus 292 ~~~~-~-----------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG 359 (377)
T cd06379 292 EKEN-I-----------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVG 359 (377)
T ss_pred cCCC-C-----------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEee
Confidence 5321 1 1111245443 3688899999999999999999999999999988889999999999999999
Q ss_pred EecCC
Q 002505 418 YWSNH 422 (914)
Q Consensus 418 ~w~~~ 422 (914)
.|++.
T Consensus 360 ~w~~~ 364 (377)
T cd06379 360 LYNGD 364 (377)
T ss_pred EEcCc
Confidence 99874
No 19
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=3.9e-43 Score=388.74 Aligned_cols=358 Identities=16% Similarity=0.214 Sum_probs=296.1
Q ss_pred EEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 35 IGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 35 IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
|-+|+|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.|||||.||..+.
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~ 81 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAA 81 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHH
Confidence 34677765 233567899999999999999999889999999999999988788888877777999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCcc--CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccch---HHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG---IAALG 186 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~---~~~~~ 186 (914)
+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++||++++||+.. .+.+.
T Consensus 82 ~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~ 161 (387)
T cd06386 82 PVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVH 161 (387)
T ss_pred HHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHH
Confidence 9999999999999999999998876 358899999999999999999999999999999999999999876 88999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccc-cccc
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS-SILD 265 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~-~~~~ 265 (914)
+.+++.|++|+..+.++ ....++..++.++++.+ |+||+++....+..++++|+++||+..+|+||..+... ....
T Consensus 162 ~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~ 238 (387)
T cd06386 162 HVFQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYG 238 (387)
T ss_pred HHHHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccC
Confidence 99999999998876654 34679999999999887 99999999999999999999999999999999998664 1111
Q ss_pred CC-----CcCC---hhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCC-CCCCChhHHHHHHHHHHHHHHHHH
Q 002505 266 TD-----SQLH---SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG-PIGLNSFGLYAYDTLWLLAHAIGA 336 (914)
Q Consensus 266 ~~-----~~~~---~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~~YDav~~~a~Al~~ 336 (914)
.. +..+ ....+.+.|+.++.+ .++.+++|.+++++++...+... ...++.+++++||||+++|+|+++
T Consensus 239 ~~~w~~~~~~~~~~~~a~~~~~~v~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~ 315 (387)
T cd06386 239 DGSWKRGDKHDFEAKQAYSSLNTVTLLRT---VKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHE 315 (387)
T ss_pred CCCCccCCCcCHHHHHHHHhheEEeccCC---CChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHH
Confidence 00 1111 122344555555444 45778899999986664422111 234668899999999999999999
Q ss_pred hhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecc---cce
Q 002505 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG---TGS 413 (914)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~---~~~ 413 (914)
+++.+.+ +.+|..|.++|++++|+|++|++.||++|+| ...|.|+.+++ +++
T Consensus 316 ~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r-~~~~~v~~~~~~~~~~~ 370 (387)
T cd06386 316 VLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDR-YGDFSVIAMTDVEAGTY 370 (387)
T ss_pred HhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCc-cccEEEEEccCCCCccE
Confidence 8755421 3359999999999999999999999999998 46999999974 568
Q ss_pred EEEEEecCCC
Q 002505 414 RRIGYWSNHS 423 (914)
Q Consensus 414 ~~vg~w~~~~ 423 (914)
+.||.|....
T Consensus 371 ~~~~~~~~~~ 380 (387)
T cd06386 371 EVVGNYFGKN 380 (387)
T ss_pred EEEeEEcccc
Confidence 9999997643
No 20
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=2.7e-43 Score=387.58 Aligned_cols=343 Identities=44% Similarity=0.735 Sum_probs=303.9
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~ 111 (914)
|||+++|++ +..|.....|+++|+++||++||+++|++|+++++|++|+|..+++++++|+.+ +|++||||.+|..+.
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 888999999999999999999976689999999999999999999999999988 999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~ 190 (914)
+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.|++||....+.+++.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 160 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQ 160 (350)
T ss_pred HHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHH
Confidence 9999999999999999999988855 568999999999999999999999999999999999999999999999999999
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC-CCc
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT-DSQ 269 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~-~~~ 269 (914)
+.|++|+....+++..+..|+.+++.+++++++|+|++++...++..++++++++|+..++|+|+.++++....+. ...
T Consensus 161 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 240 (350)
T cd06366 161 EAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSSDC 240 (350)
T ss_pred HcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCCCC
Confidence 9999999998888433368999999999999999999999999999999999999999889999998865543210 011
Q ss_pred CChhhhhhccceeEEEEecCC-cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccC
Q 002505 270 LHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSE 348 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 348 (914)
..+...+..+|++++.++.++ ++.+++|.++|+++++..+.. ..+++.++.++|||+++
T Consensus 241 ~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~p~~~a~~~YDav~~------------------- 300 (350)
T cd06366 241 TDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE-LTEPSIYALYAYDAVWA------------------- 300 (350)
T ss_pred ChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC-cCCCCcccchhhhheee-------------------
Confidence 224456778999999998887 788999999999998532111 22577889999999988
Q ss_pred CccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCccc
Q 002505 349 DSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLSV 427 (914)
Q Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~~~ 427 (914)
+.+|+|++|+++||++|++.+..|.++++.++++++||.|++.+|++.
T Consensus 301 -------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 -------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred -------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 126789999999999999888999999999999999999999888754
No 21
>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=5.5e-43 Score=386.26 Aligned_cols=339 Identities=19% Similarity=0.253 Sum_probs=290.1
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH-
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI- 109 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~- 109 (914)
.|+||.++|.++ ...+++.|+..+|.+..+..+.+++++..|+.+||.+++.++|+++.+ +|.+|+||.+|..
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 589999999884 247778888888777644468999999999999999999999998865 7999999999998
Q ss_pred --HHHHHHhhccCCccEEeeccCCCCC-cc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHH
Q 002505 110 --AHLVSHIANEFQVPLLSFAATDPSL-SS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (914)
Q Consensus 110 --~~~v~~~~~~~~ip~is~~a~~~~l-~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (914)
+.+++.+++.++||+|+++++++.+ ++ ..+||+||+.|++..++.++++++++++|++|++||.+++||++..+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999999888 76 6789999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccE--EEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 186 GDKLAEKRCR--LSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 186 ~~~l~~~g~~--v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
++.+++.|++ +.....++.. ...++...+.++++.++|+||++|...++..++++|+++||++++|+||+++.+...
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~-~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~ 235 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS-DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGS 235 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC-CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccc
Confidence 9999999999 7766666532 223889999999999999999999999999999999999999999999999987642
Q ss_pred ccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCC
Q 002505 264 LDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (914)
Q Consensus 264 ~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~ 343 (914)
.. ...+...|++++++..+ ..++.++||||+++|+|+++++++++.
T Consensus 236 ~~-------~~~~~~~G~~g~~~~~~---------------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~ 281 (362)
T cd06367 236 GL-------APEGLPVGLLGVGLDTW---------------------------YSLEARVRDAVAIVARAAESLLRDKGA 281 (362)
T ss_pred cC-------CccCCCCeeEEEEeccc---------------------------ccHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 11 12245678999987542 234678999999999999998775432
Q ss_pred ccccCCccccccCCCCcccccccc--cCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEec-ccceEEEEEec
Q 002505 344 ISFSEDSKLSELSRGDMRFSSVSI--FNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRIGYWS 420 (914)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~vg~w~ 420 (914)
.+ .+..+|..... |.+|..|.++|++++|+|++|+|.||+||++.++.|+|+|++ +.+|++||.|+
T Consensus 282 ~~-----------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~ 350 (362)
T cd06367 282 LP-----------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWE 350 (362)
T ss_pred CC-----------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEc
Confidence 21 12235666532 788999999999999999999999999999888999999999 78999999997
Q ss_pred C
Q 002505 421 N 421 (914)
Q Consensus 421 ~ 421 (914)
+
T Consensus 351 ~ 351 (362)
T cd06367 351 N 351 (362)
T ss_pred C
Confidence 5
No 22
>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=2.4e-42 Score=377.02 Aligned_cols=366 Identities=17% Similarity=0.234 Sum_probs=292.6
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCC-CcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILG-GTKLKLTVHDT-NYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~-g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
+||+||+.++ .+...|+++|++.+|.+...++ +.++...+... ..|++.+.+++|+++++||.||+||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999655 3467999999999998764432 25666665543 35999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE 191 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~ 191 (914)
+++++|+..+||+|+++.+ +...+.|.+++.|+ +..++++++++++|++|++||+ .++|....+.+.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997654 12334455555555 4678888999999999999994 44566778999999999
Q ss_pred cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCC
Q 002505 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLH 271 (914)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 271 (914)
.|++|+...... .++.|++++|++|+++++++||+.|.+..+..+++||+++||+.++|+||+++..-...+.
T Consensus 150 ~g~~v~~~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l----- 222 (371)
T cd06388 150 NGWQVSAICVEN--FNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL----- 222 (371)
T ss_pred cCCeeeeEEecc--CCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH-----
Confidence 999998766554 3457999999999999999999999999999999999999999999999998742222111
Q ss_pred hhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCcc
Q 002505 272 SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSK 351 (914)
Q Consensus 272 ~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 351 (914)
.++.....++.++....++.+.+++|.++|++.+.......+..++.+++++||||++++.|++++.......+
T Consensus 223 ~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~------ 296 (371)
T cd06388 223 ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS------ 296 (371)
T ss_pred HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc------
Confidence 22223334488888888888899999999988764322111235778899999999999999998753322110
Q ss_pred ccccCCCCccc--ccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCcc
Q 002505 352 LSELSRGDMRF--SSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (914)
Q Consensus 352 ~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~~ 426 (914)
..+.+..| +...+|+.|..|.++|++++|+|+||+++||++|+|.++.++|++++++|+++||+|++..||+
T Consensus 297 ---~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 297 ---RRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred ---cCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 11223355 3466899999999999999999999999999999999889999999999999999999998864
No 23
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=2.4e-42 Score=386.35 Aligned_cols=351 Identities=23% Similarity=0.331 Sum_probs=295.7
Q ss_pred CCCeEEEEEEecCCC---------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 002505 29 IPPVLNIGAVFALNS---------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGM 87 (914)
Q Consensus 29 ~~~~i~IG~i~~~s~---------------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~ 87 (914)
.++++.||++||.+. ..|.....|+++|+|+||++||+++|++|+++++|+|+ +..++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~ 81 (410)
T cd06363 3 LPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANF 81 (410)
T ss_pred CCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHH
Confidence 578999999999873 22566789999999999999999999999999999976 77799
Q ss_pred HHHHHHHh----------------cCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcH
Q 002505 88 VEALTLLE----------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDL 150 (914)
Q Consensus 88 ~~a~~li~----------------~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~ 150 (914)
+.+.+|+. ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++.
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~ 161 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDK 161 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcH
Confidence 99999984 48999999999999999999999999999999999998886 57899999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCC-CChhHHHHHHHHhccCCCeEEEEE
Q 002505 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSMMSRILILH 229 (914)
Q Consensus 151 ~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~i~~~~~~viil~ 229 (914)
.++.++++++++++|++|++|+.+++||....+.+++.+++.|++++..+.++.. .+..|+.+++.+|+++++|+|++.
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~ 241 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVF 241 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 9999999999999999999999999999999999999999999999998887642 257899999999999999999999
Q ss_pred eChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCC
Q 002505 230 TYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNT 309 (914)
Q Consensus 230 ~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (914)
+.+.++..++++|+++|+.. ..|++++++........ ....+...+++++....+..+.+++|.++
T Consensus 242 ~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~--------- 307 (410)
T cd06363 242 ASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS--------- 307 (410)
T ss_pred cChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH---------
Confidence 99999999999999999854 47888876543221111 11123445677777777777777777765
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccc
Q 002505 310 LNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGP 389 (914)
Q Consensus 310 ~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~ 389 (914)
++..+||||+++|+|++++++++.. .|...++. +++.|.++|++++|+|++|+
T Consensus 308 ---------~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~~~-~~~~l~~~L~~~~~~g~~g~ 360 (410)
T cd06363 308 ---------FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRVPV-YPWQLLEELKKVNFTLLGQT 360 (410)
T ss_pred ---------HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCCCC-CHHHHHHHHhccEEecCCcE
Confidence 3567999999999999998765321 23322223 48899999999999999999
Q ss_pred eEEccCCCCCCCceEEEEeccc----ceEEEEEecCC
Q 002505 390 IKFTSDRDLINPAYEVINVIGT----GSRRIGYWSNH 422 (914)
Q Consensus 390 v~f~~~g~~~~~~~~i~~~~~~----~~~~vg~w~~~ 422 (914)
+.||++|++ ...|.|++++.. ++++||+|++.
T Consensus 361 i~fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 361 VRFDENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred EEeCCCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 999999995 568999999643 48999999874
No 24
>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=2.6e-42 Score=385.36 Aligned_cols=352 Identities=19% Similarity=0.303 Sum_probs=294.1
Q ss_pred EEEEEEecCCC----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 002505 33 LNIGAVFALNS----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s~----~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 108 (914)
||||++.|++. ..|.....|+++|+|+||+++|+++|++|+++++|++|++..|+.++++|+.++|.+||||.+|.
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~~v~aiiGp~~S~ 80 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKRGVVAFIGPECTC 80 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhcCceEEECCCchh
Confidence 68999999985 44889999999999999999999889999999999999999999999999998999999999985
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
. +++.+++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++|+.+++||....+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4568999999999999999998887 578999999999999999999999999999999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCC-----ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCC-CCCeEEEEeCccc
Q 002505 188 KLAEKRCRLSHKVPLSPKG-----SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMM-ESGYVWIVTDWLS 261 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~-----~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~-~~~~~~i~~~~~~ 261 (914)
.+++.|++|+..+.++... ...++..++.++++. ++++|+++...++..+++||+++||+ ..+|+||+.+...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 9999999999988887431 257899999988765 77888887778999999999999999 6889999866321
Q ss_pred ccc---------------cCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCC-------CCCCCChh
Q 002505 262 SIL---------------DTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLN-------GPIGLNSF 319 (914)
Q Consensus 262 ~~~---------------~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-------~~~~~~~~ 319 (914)
... ...........++++|++.+.+..+ ++..++|.++|++++...+.. ....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 100 1011111345567889888876555 667789999998875331111 22356778
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCccc-ceEEccCCCC
Q 002505 320 GLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDL 398 (914)
Q Consensus 320 ~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G-~v~f~~~g~~ 398 (914)
++++||||+++|+|+++++++++.. .+|+.|.++|++++|+|++| +|.||++|++
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 9999999999999999987654311 24899999999999999999 8999999997
Q ss_pred CCCceEEEEecccce
Q 002505 399 INPAYEVINVIGTGS 413 (914)
Q Consensus 399 ~~~~~~i~~~~~~~~ 413 (914)
...|.+++++++.|
T Consensus 373 -~~~y~v~~~~~~~~ 386 (404)
T cd06370 373 -EGNYSVLALQPIPP 386 (404)
T ss_pred -ccceEEEEeccccc
Confidence 58999999987644
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=8.1e-42 Score=374.16 Aligned_cols=363 Identities=17% Similarity=0.249 Sum_probs=295.0
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D-~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+||+..+ ...+.|+++|++.+|.. +.+|...+.. ...|++.+.+++|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899999765 34689999999999986 3577764443 4569999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~ 192 (914)
++++|+..+||+|+++++. +..++|.+++.|+ ...++++++++++|++|++||+ ++||...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 9999999999999986552 2356788888887 5789999999999999999996 569999999999999999
Q ss_pred ccEEEEee--ccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcC
Q 002505 193 RCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQL 270 (914)
Q Consensus 193 g~~v~~~~--~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 270 (914)
|++|+... .+....+..|++++|++|++.++++||+.|+..++..+++||+++||+.+.|+||+++......+.
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l---- 220 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDL---- 220 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccch----
Confidence 98877443 112113567999999999999999999999999999999999999999999999987743222222
Q ss_pred ChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhc-cCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCC
Q 002505 271 HSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTR-RNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (914)
Q Consensus 271 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 349 (914)
........++.+++...++.+..++|.++|++... ..++.....++.+++.+||||++++.|++++........
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~---- 295 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS---- 295 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc----
Confidence 11112234678888888888999999999987332 122222346788999999999999999999854432211
Q ss_pred ccccccCCCCcccc--cccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCcc
Q 002505 350 SKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (914)
Q Consensus 350 ~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~~ 426 (914)
..+.+.+|. ...+|++|..|.++|++++|+|+||+++||++|+|.++.++|++++++++++||+|++..|+.
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 012223454 366899999999999999999999999999999999889999999999999999999998864
No 26
>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=4.7e-42 Score=383.48 Aligned_cols=363 Identities=20% Similarity=0.276 Sum_probs=300.4
Q ss_pred EEEEEecCCC----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC----ChHHHHHHHHHHHh-cCcEEEEcC
Q 002505 34 NIGAVFALNS----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY----SRFLGMVEALTLLE-NETVAIIGP 104 (914)
Q Consensus 34 ~IG~i~~~s~----~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~----~~~~a~~~a~~li~-~~v~aiiGp 104 (914)
+||+++|.+. ..|.....|+++|+|+||+++|+++|++|+++++|+++ ++..++..+.+++. ++|.+||||
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 5899999984 33677889999999999999998889999999999999 89999999998874 489999999
Q ss_pred CCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCc----c
Q 002505 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHG----R 179 (914)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g----~ 179 (914)
.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|+++++|+.+++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999999987 678999999999999999999999999999999999887764 4
Q ss_pred chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 180 ~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
...+.+.+.+++.|++|+... +.+.....|+.++|+++++.. |+||+++...++..++++|+++|++..+|+||..+.
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~~~ 238 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDFP-FDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNIDL 238 (396)
T ss_pred HHHHHHHHHHhhcCceeeEEe-ecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEEcc
Confidence 567889999999999988553 442211489999999999865 999999999999999999999999999999998775
Q ss_pred ccccccC--------CCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCC--CCCCCCCChhHHHHHHHHHH
Q 002505 260 LSSILDT--------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNT--LNGPIGLNSFGLYAYDTLWL 329 (914)
Q Consensus 260 ~~~~~~~--------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~~~~~~~~~~~YDav~~ 329 (914)
....... .....+...++.+|++++..+.++++.+++|.++|+++..... ...+..++.++.++||||++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 318 (396)
T cd06373 239 FGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLL 318 (396)
T ss_pred chhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHH
Confidence 4322111 0111133445677888888888888889999999987632111 11122466789999999999
Q ss_pred HHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEe-
Q 002505 330 LAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV- 408 (914)
Q Consensus 330 ~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~- 408 (914)
+++|++++.++++. +.+|+.|.++|++++|+|++|++.||++|++ ...|.|+++
T Consensus 319 ~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~~~ 373 (396)
T cd06373 319 YALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWDMT 373 (396)
T ss_pred HHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeeecc
Confidence 99999998654321 1248999999999999999999999999996 477888765
Q ss_pred --cccceEEEEEecCCC
Q 002505 409 --IGTGSRRIGYWSNHS 423 (914)
Q Consensus 409 --~~~~~~~vg~w~~~~ 423 (914)
+++.++.||.+++.+
T Consensus 374 ~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 374 DTETGTFEVVANYNGSN 390 (396)
T ss_pred CCCCceEEEEeeccccc
Confidence 567899999998864
No 27
>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=7.2e-42 Score=382.92 Aligned_cols=362 Identities=18% Similarity=0.247 Sum_probs=293.0
Q ss_pred EEEEEecCCCc---cc-hhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHH-----HHHHHHH-HhcCcEEEEc
Q 002505 34 NIGAVFALNST---IG-KVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLG-----MVEALTL-LENETVAIIG 103 (914)
Q Consensus 34 ~IG~i~~~s~~---~g-~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a-----~~~a~~l-i~~~v~aiiG 103 (914)
+||+++|++.. .| .....|+++|+|+||+++|+|+|++|++++.|+++++..+ ...+.++ ..++|.+|||
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 58999999844 44 7788999999999999999999999999999997665533 3333333 3459999999
Q ss_pred CCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEE-EEEeCC-Cccc
Q 002505 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIA-LYVDDD-HGRN 180 (914)
Q Consensus 104 p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~i-i~~d~~-~g~~ 180 (914)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|+++++ +|.++. +++.
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999999987 6799999999999999999999999999999984 565443 3333
Q ss_pred ---hHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEe
Q 002505 181 ---GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (914)
Q Consensus 181 ---~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (914)
..+.+.+.+++.|++|+..+..+ .+..|+..+|+++++. .|+||+++....+..++++|+++||++++|+||++
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 237 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEE--DDLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFFYI 237 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccC--CchhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 46889999999999999876443 3478999999999875 49999999999999999999999999999999998
Q ss_pred CcccccccC---------CCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCC--CCCCChhHHHHHHH
Q 002505 258 DWLSSILDT---------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG--PIGLNSFGLYAYDT 326 (914)
Q Consensus 258 ~~~~~~~~~---------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~YDa 326 (914)
+++...... .+..+....+++++++....+.+.++.+++|.++|+++.+...+.. ...++.+++++|||
T Consensus 238 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDa 317 (405)
T cd06385 238 DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDG 317 (405)
T ss_pred ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHH
Confidence 765432221 0111123456778888887777778889999999988632111111 11256889999999
Q ss_pred HHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEE
Q 002505 327 LWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (914)
Q Consensus 327 v~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~ 406 (914)
|+++|.|++++++.+++ +.+|+.|.++|++++|+|++|++.||++|+| ...|.++
T Consensus 318 v~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~~~ 372 (405)
T cd06385 318 VMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFALW 372 (405)
T ss_pred HHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeEEE
Confidence 99999999998665332 3359999999999999999999999999997 4788887
Q ss_pred Ee---cccceEEEEEecCCC
Q 002505 407 NV---IGTGSRRIGYWSNHS 423 (914)
Q Consensus 407 ~~---~~~~~~~vg~w~~~~ 423 (914)
++ ++++++.||+|+..+
T Consensus 373 ~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 373 DMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EccCCCCCcEEEEEEEcccC
Confidence 55 677899999998754
No 28
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.2e-41 Score=379.50 Aligned_cols=362 Identities=17% Similarity=0.276 Sum_probs=290.6
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||++.|++ ...+.....|+++|+++||+++++++|++|++++.|++|++..++.++++++.+ +|.+||||.||..
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 589999976 334667779999999999999999988999999999999999999999999876 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC---CCcc--chHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGR--NGIA 183 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~---~~g~--~~~~ 183 (914)
+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++++|++|++||.++ .++. ...+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 568999999999999999999999999999999998543 3332 2344
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
.+.+.++ .+++++..+.++ .+..++...+.+.+++++|+||+++...++..++++|+++||+.++|+||.+++....
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~--~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~ 237 (391)
T cd06372 161 AVENQLK-FHFNITATVRYS--SSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFEDN 237 (391)
T ss_pred HHHHHHh-hCEEEEEEEecC--CCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhcCc
Confidence 4555553 578888887776 3456777666666678899999999999999999999999999888999996432211
Q ss_pred ccCCCc---CChhhhhhccceeEEEEecCC-cHHHHHHHHHHHHhhccCCC----CCCCCCChhHHHHHHHHHHHHHHHH
Q 002505 264 LDTDSQ---LHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTL----NGPIGLNSFGLYAYDTLWLLAHAIG 335 (914)
Q Consensus 264 ~~~~~~---~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~----~~~~~~~~~~~~~YDav~~~a~Al~ 335 (914)
...... ......+..+|++++.+..+. .+...+|.++|++++...+- ......+.++.++||||+++|+|++
T Consensus 238 ~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~ 317 (391)
T cd06372 238 FWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVK 317 (391)
T ss_pred cccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 100000 012244567888888776543 35567898888887743221 1112456789999999999999999
Q ss_pred HhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHH---hcccCCcccceEEccCCCCCCCceEEEEecc--
Q 002505 336 AFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNIL---QVNMTGVTGPIKFTSDRDLINPAYEVINVIG-- 410 (914)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~---~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~-- 410 (914)
++++++.. |.+|.++.++|+ +++|+|++|+|.||++|+| .+.|.|+++++
T Consensus 318 ~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~ 372 (391)
T cd06372 318 EMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSG 372 (391)
T ss_pred HHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccC
Confidence 98765321 445899999999 6899999999999999997 68999999985
Q ss_pred c--ceEEEEEecCCC
Q 002505 411 T--GSRRIGYWSNHS 423 (914)
Q Consensus 411 ~--~~~~vg~w~~~~ 423 (914)
+ .+++||.|+..+
T Consensus 373 ~~~~~~~vg~~~~~~ 387 (391)
T cd06372 373 NSSLFLPFLHYDSHQ 387 (391)
T ss_pred CccceeeEEEecchh
Confidence 2 379999998754
No 29
>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=3.5e-41 Score=376.58 Aligned_cols=365 Identities=24% Similarity=0.403 Sum_probs=313.7
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||+++|++ +..|.....|+++|+|+||++|++++|++|++++.|+++++..+++.+.+|+.+ +|.+||||.+|..
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 699999998 456888999999999999999976679999999999999999999999999876 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-~g~~~~~~~~~ 187 (914)
+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|+++++++.++. ||....+.+++
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~ 160 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEA 160 (389)
T ss_pred HHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHH
Confidence 999999999999999999999988876 5789999999999999999999999999999999998887 99999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC-
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT- 266 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~- 266 (914)
.+++.|++|+....++......|+..+++++++.+ |+|++++.+.++..++++++++|+...+++|+.++.+......
T Consensus 161 ~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~~~ 239 (389)
T cd06352 161 ALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLPYQ 239 (389)
T ss_pred HHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccccC
Confidence 99999999999888873212689999999999887 9999999999999999999999998888999998776554211
Q ss_pred -------CCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCC---CCCCCChhHHHHHHHHHHHHHHHHH
Q 002505 267 -------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLN---GPIGLNSFGLYAYDTLWLLAHAIGA 336 (914)
Q Consensus 267 -------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~~~YDav~~~a~Al~~ 336 (914)
.....+...+.++|++++.++.+.++.+++|.++|+++++..+.. ....++.++.++||||+++++|+++
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 319 (389)
T cd06352 240 NSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNE 319 (389)
T ss_pred CCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHH
Confidence 011123455678899998888887888999999999988532211 1235678999999999999999999
Q ss_pred hhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecc--cceE
Q 002505 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG--TGSR 414 (914)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~--~~~~ 414 (914)
+..++++ +.++..+.++|++++|+|++|++.||++|++ ...|.|+++++ +.+.
T Consensus 320 ~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~~~ 374 (389)
T cd06352 320 TLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQLE 374 (389)
T ss_pred HHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCceEE
Confidence 8765331 2348899999999999999999999999997 47899999996 4578
Q ss_pred EEEEecCCCC
Q 002505 415 RIGYWSNHSG 424 (914)
Q Consensus 415 ~vg~w~~~~~ 424 (914)
.++......+
T Consensus 375 ~~~~~~~~~~ 384 (389)
T cd06352 375 VVYLYDTSSG 384 (389)
T ss_pred EEEeccccce
Confidence 8887766543
No 30
>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=3.5e-41 Score=372.09 Aligned_cols=352 Identities=19% Similarity=0.232 Sum_probs=285.3
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
|||++.|++ +..|...+.|+++|+|+||+++++++|+++++++.|++|++..++.++.++ .++|.+||||.+|..+
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~-~~~V~aviGp~~S~~~ 79 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY-EGYASAFVGPVNPGYC 79 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc-cCCceEEECCCCchHH
Confidence 689999997 455778899999999999999999889999999999999988777555443 4599999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
.+++++++.++||+|+++++++.+++ ..||+++|+.|++ +.++++++++++|++|++|++++++|....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999987 6789999999886 4668889999999999999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCC-CeEEEEEeCh-----hHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYD-----IWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viil~~~~-----~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
++.|++|+....++ .+..|++++|++|++.+ +|+||++++. .++..+++||+++||+..+|+||.+++....
T Consensus 157 ~~~gi~v~~~~~~~--~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~~ 234 (382)
T cd06371 157 RAHGLPVGLVTSMG--PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLLYS 234 (382)
T ss_pred HHCCCcEEEEEEec--CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccccc
Confidence 99999999888887 46789999999999987 6999998765 6788999999999999999999999854311
Q ss_pred cc----CCCc--CChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCC-CCCCCCCChhHHHHHHHHHHHHHHHHH
Q 002505 264 LD----TDSQ--LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNT-LNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (914)
Q Consensus 264 ~~----~~~~--~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~~~~~~YDav~~~a~Al~~ 336 (914)
.. .... -+++..++.+|++.+..+.+..+..+.|.+.|+.. ..+ ..+...++.++.++|||++++|+|+++
T Consensus 235 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~--~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 235 LPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERG--EIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred CCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcC--CCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 10 0000 12344467888888776654444444455443211 111 111123456667899999999999999
Q ss_pred hhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEE
Q 002505 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRI 416 (914)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v 416 (914)
+++.+++ .+|+++.++|.+++|+|++|++.||++|++ ...|.|+++++.+++-+
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~ 366 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLY 366 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeee
Confidence 8765432 138999999999999999999999999996 69999999999887665
Q ss_pred EEe
Q 002505 417 GYW 419 (914)
Q Consensus 417 g~w 419 (914)
-.+
T Consensus 367 ~~~ 369 (382)
T cd06371 367 PTY 369 (382)
T ss_pred eeE
Confidence 444
No 31
>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=2.6e-40 Score=368.84 Aligned_cols=362 Identities=17% Similarity=0.208 Sum_probs=288.6
Q ss_pred EEEEEecCCCc----cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHH----HHHHHHH-HhcCcEEEEcC
Q 002505 34 NIGAVFALNST----IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLG----MVEALTL-LENETVAIIGP 104 (914)
Q Consensus 34 ~IG~i~~~s~~----~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a----~~~a~~l-i~~~v~aiiGp 104 (914)
+||+++|.+.. .-.....|+++|+|+||++|++++|++|+++++|+++++..+ ...+..+ +.+++.+||||
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 48999987632 124567899999999999999878999999999986654333 3222222 23588999999
Q ss_pred CCchHHHHHHHhhccCCccEEeeccCCCCCcc--CCCCceEeccCCcHHHHHHHHHHHHHcCCe-EEEEEEEeCCCcc--
Q 002505 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWR-NVIALYVDDDHGR-- 179 (914)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~-~v~ii~~d~~~g~-- 179 (914)
.||..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++..++++++|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999988886 378999999999999999988889999999 6889987543221
Q ss_pred --chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEe
Q 002505 180 --NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (914)
Q Consensus 180 --~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (914)
...+.+.+.+++.|++|+....+. .+..|+.++|.+++. ++|+|+++++..++..+++||+++||++++|+||..
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i~~ 237 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHI--EKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFFYL 237 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEec--cchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 135667888888999999866554 457899999999997 899999999999999999999999999999999988
Q ss_pred CcccccccC----------CCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCC--CCCCChhHHHHHH
Q 002505 258 DWLSSILDT----------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG--PIGLNSFGLYAYD 325 (914)
Q Consensus 258 ~~~~~~~~~----------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~YD 325 (914)
++....+.. .+...++..+++++++++..+.|.++.+++|.++|++++....+.. +...+.+++++||
T Consensus 238 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YD 317 (399)
T cd06384 238 DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYD 317 (399)
T ss_pred hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHH
Confidence 865422110 0011245566889999998888888889999999988643211111 1123667999999
Q ss_pred HHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEE
Q 002505 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (914)
Q Consensus 326 av~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i 405 (914)
||+++|.|+++++++++ +|.+|..|.++|++++|+|++|++.||++|+| ...|.+
T Consensus 318 av~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~~~ 372 (399)
T cd06384 318 GVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDFDL 372 (399)
T ss_pred HHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccceEE
Confidence 99999999999865432 24458999999999999999999999999997 466777
Q ss_pred ---EEecccceEEEEEecCCC
Q 002505 406 ---INVIGTGSRRIGYWSNHS 423 (914)
Q Consensus 406 ---~~~~~~~~~~vg~w~~~~ 423 (914)
.++++++++.||+|+..+
T Consensus 373 ~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 373 WAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEeecCCCCeEEEEEEEcCCC
Confidence 466788999999998754
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=6.3e-41 Score=364.84 Aligned_cols=321 Identities=21% Similarity=0.309 Sum_probs=274.9
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||++|++ ..|.....|+++|+|+||+++|+++|++|++++.|++ +++..+++++++|++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999998 5578899999999999999999999999999999999 89999999999999889999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~ 192 (914)
++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|+++++++++++++ ..+++.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHhh
Confidence 99999999999999988887776 45889999999999999999999999999999999988754 4455555555
Q ss_pred cc---EEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 193 RC---RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 193 g~---~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
|. .+.. ..+++ .. |++++|.+|+++++|+|++++...++..+++||+++||+.+.|+|+.++......+.
T Consensus 153 ~~~g~~v~~-~~~~~--~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l--- 225 (327)
T cd06382 153 GISGITITV-RQLDD--DL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDL--- 225 (327)
T ss_pred ccCCCeEEE-EEccC--Cc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccch---
Confidence 54 4554 45552 34 999999999999999999999999999999999999999999999998765544333
Q ss_pred CChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccC
Q 002505 270 LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSE 348 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 348 (914)
........++.++..+.++++.+++|.++|+++++. +++.+...|+.++..+|||++++
T Consensus 226 --~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~------------------ 285 (327)
T cd06382 226 --EDYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF------------------ 285 (327)
T ss_pred --hhhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe------------------
Confidence 122233457788888888889999999999999864 22223335778889999988665
Q ss_pred CccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 349 DSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
|+||+++||++|+|.++.|+|+|++++++++||+|++..||
T Consensus 286 ------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 79999999999999999999999999999999999998775
No 33
>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=9.8e-41 Score=355.15 Aligned_cols=326 Identities=21% Similarity=0.312 Sum_probs=263.6
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEcCCCchH-HH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRF-LGMVEALTLLENETVAIIGPQFSVI-AH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~-~a~~~a~~li~~~v~aiiGp~~s~~-~~ 111 (914)
+||+||+..+..|+....|+++|++++|++++++++.++++++.|+.+++. .+..++|++++++|.|||||.+|.. +.
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~ 80 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPKGVVSVLGPSSSPASSS 80 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhcCeEEEECCCCchHHHH
Confidence 589999999999999999999999999999999866799999999999775 7788889999889999999999975 67
Q ss_pred HHHHhhccCCccEEeeccCC-CCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHh
Q 002505 112 LVSHIANEFQVPLLSFAATD-PSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~-~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~ 190 (914)
+++++|+..+||+|+++... |.+...++++ +++.|++..++.|+++++++|+|++|++||+++++ +..+++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986443 3332233333 89999999999999999999999999999999886 566666666
Q ss_pred hcccEEEEeeccCCC--CChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 191 EKRCRLSHKVPLSPK--GSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
..+. ....++.. .+..|++++|++|+++++|+||++|..+.+..++++|+++||+.+.|+|++++.....+++
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5432 11122111 2467899999999999999999999999999999999999999999999999876654444
Q ss_pred cCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 347 (914)
.++......+.+++..+++.+..++|.+.|++++.+ +...........++.+||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 233333556888889999999999999999886632 11000011112345566655433
Q ss_pred CCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCcc
Q 002505 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (914)
Q Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~~ 426 (914)
|+||+|+||++|+|.+..++|++++.+|.++||+|++..||+
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 899999999999999999999999999999999999998874
No 34
>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=1.3e-39 Score=365.31 Aligned_cols=398 Identities=23% Similarity=0.407 Sum_probs=337.5
Q ss_pred CCCCCCeEEEEEEecCCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH
Q 002505 26 VSTIPPVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALT 92 (914)
Q Consensus 26 ~~~~~~~i~IG~i~~~s~-------------~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~ 92 (914)
++..+++|.||.+||-+. ..|.+...|+.+|+|+||+ ..+|||.++++.++|+|..+..|.++..+
T Consensus 25 ~~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~ 103 (878)
T KOG1056|consen 25 VARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLS 103 (878)
T ss_pred eccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHH
Confidence 456789999999999871 3356778999999999999 89999999999999999999999999999
Q ss_pred HHhc-----------------CcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHH
Q 002505 93 LLEN-----------------ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMA 154 (914)
Q Consensus 93 li~~-----------------~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~ 154 (914)
+++. .|.++||+..|..+.+++.+..-++||+|+++++++.+++ .+|+||.|+.|+|..|++
T Consensus 104 Fv~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~ 183 (878)
T KOG1056|consen 104 FVRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQ 183 (878)
T ss_pred HHHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHH
Confidence 8863 5899999999999999999999999999999999999999 689999999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc-CCCeEEEEEeChh
Q 002505 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTYDI 233 (914)
Q Consensus 155 a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viil~~~~~ 233 (914)
|+++++++|+|++|..++++++||+.+++++++..++.|+||...+.++....+..+...++++.. .++++||+++.+.
T Consensus 184 Am~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~ 263 (878)
T KOG1056|consen 184 AMVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGE 263 (878)
T ss_pred HHHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcc
Confidence 999999999999999999999999999999999999999999999888766778889999999988 7999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHH-------------
Q 002505 234 WGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTR------------- 300 (914)
Q Consensus 234 ~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~------------- 300 (914)
+++.++++|+.+++.+ .++||++++|........ ......+|.+++....+.-+.+++|.+.
T Consensus 264 ~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~----~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 264 DARRLLKAARRANLTG-EFLWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred hHHHHHHHHHHhCCCc-ceEEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 9999999999999865 699999999987544422 2234788999999888777766666544
Q ss_pred --HHHhhcc---------------CCCCC------CCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCC
Q 002505 301 --WRHLTRR---------------NTLNG------PIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSR 357 (914)
Q Consensus 301 --~~~~~~~---------------~~~~~------~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 357 (914)
|++.|.. |.+.+ +..-..-...++|||+++|+||+.+.++.+ ++
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc-------------~~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLC-------------PG 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhc-------------CC
Confidence 4444321 11111 001112355799999999999999987643 22
Q ss_pred CCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEeccc----ceEEEEEecCCCCccccCCccc
Q 002505 358 GDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGT----GSRRIGYWSNHSGLSVVPPEAL 433 (914)
Q Consensus 358 ~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~----~~~~vg~w~~~~~~~~~~~~~~ 433 (914)
....|......+ |..|.+++++++|.+..|.+.||++|| ....|+|++++.. .+.+||+|+....
T Consensus 406 ~~~~C~~m~~~d-g~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------- 474 (878)
T KOG1056|consen 406 TSGLCSAMKAID-GSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------- 474 (878)
T ss_pred ccccCcCccccC-HHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc---------
Confidence 344688888776 999999999999999999999999999 4799999999943 4799999988653
Q ss_pred cCCCCCCCCcccccceeeeCCCccccCCcee
Q 002505 434 YKEPSNRSASSQHLYSAVWPGQTTQKPRGWV 464 (914)
Q Consensus 434 ~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~ 464 (914)
.+...+.|.++..+.|++.|
T Consensus 475 -----------l~i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 475 -----------LNIEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred -----------ccceeeeeccCCCCCccccc
Confidence 34468899999988999988
No 35
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=1.3e-38 Score=350.03 Aligned_cols=338 Identities=15% Similarity=0.157 Sum_probs=291.7
Q ss_pred CCCeEEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCC
Q 002505 29 IPPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQ 105 (914)
Q Consensus 29 ~~~~i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~ 105 (914)
.+++|+||++.|++ +..|.....|+++|+++||+.||+. |++|+++++|++++|..+++++.+|++++|.+|||+.
T Consensus 22 ~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~-G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~ 100 (369)
T PRK15404 22 LADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIK-GDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHL 100 (369)
T ss_pred cCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCC-CeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCC
Confidence 46689999999999 4568889999999999999999995 9999999999999999999999999988999999999
Q ss_pred CchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHH
Q 002505 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAA 184 (914)
Q Consensus 106 ~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~ 184 (914)
+|..+.+++++++..++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|+++++|+.|+.||+...+.
T Consensus 101 ~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~ 180 (369)
T PRK15404 101 CSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARS 180 (369)
T ss_pred CchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHH
Confidence 9999999999999999999999999998887778999999999999999999975 567999999999999999999999
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccc
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (914)
+++.+++.|++++....++ .+.+|+++++.++++.++|+|++.....+...++++++++|+..+ |+++++.....
T Consensus 181 ~~~~~~~~G~~v~~~~~~~--~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~~---~i~~~~~~~~~ 255 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGIT--AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKTQ---FMGPEGVGNKS 255 (369)
T ss_pred HHHHHHHcCCEEEEEEeeC--CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCCe---EEecCcCCCHH
Confidence 9999999999999888888 567999999999999999999988878889999999999998654 77665433210
Q ss_pred cCCCcCChhhhhhccceeEEEEecC-CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCC
Q 002505 265 DTDSQLHSEKMDDIQGVLTLRMYTQ-SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (914)
Q Consensus 265 ~~~~~~~~~~~~~~~G~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~ 343 (914)
. .....+..+|+++..++.. .++..++|.+.|+++++ .+++.++..+||++++++.|++++...
T Consensus 256 -~----~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~Y~~~~~l~~Al~~aG~~--- 320 (369)
T PRK15404 256 -L----SNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ-------DPSGPFVWTTYAAVQSLAAGINRAGSD--- 320 (369)
T ss_pred -H----HHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC-------CCCccchHHHHHHHHHHHHHHHhhCCC---
Confidence 0 0122356788887655433 45778999999998763 244567889999999999999985211
Q ss_pred ccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccce
Q 002505 344 ISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGS 413 (914)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~ 413 (914)
+++.|.++|++.+|+|+.|++.|+++|++....|.|++|++++.
T Consensus 321 --------------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 --------------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred --------------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 37899999999999999999999999998788999999887654
No 36
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=4.1e-37 Score=336.97 Aligned_cols=328 Identities=21% Similarity=0.225 Sum_probs=286.7
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
+||++.|+| +..|.....|+++|++++|+++|+ +|++|+++++|+++++..+++++.+|++++|++|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 456888999999999999999888 5999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
.+++++++..+||+|+++++++.+.+..+|++||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999888777766678999999999999999999975 57899999999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
++.|++|+....++ .+..|++..+.++++.++++|++.+...++..+++++++.|+.. .|+.++++... ..
T Consensus 160 ~~~g~~v~~~~~~~--~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~--- 230 (334)
T cd06342 160 KAAGGKVVAREGTT--DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDP-EF--- 230 (334)
T ss_pred HHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCH-HH---
Confidence 99999999998887 45789999999999999999999999999999999999999854 47766543211 00
Q ss_pred CChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcccc
Q 002505 270 LHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 347 (914)
.....+..+|++.+.++.+ .++..++|.++|+++++ ..++.++..+||+++++++|++++.
T Consensus 231 -~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~al~~~~--------- 293 (334)
T cd06342 231 -IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG-------DPPGAYAPYAYDAANVLAEAIKKAG--------- 293 (334)
T ss_pred -HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHHHHHHHHHhC---------
Confidence 0222356788888877665 36788999999998884 3357789999999999999999851
Q ss_pred CCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEe
Q 002505 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (914)
Q Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~ 408 (914)
..+++.+.++|++.+|+|++|++.|+++|++.+..|+|+||
T Consensus 294 --------------------~~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 294 --------------------STDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred --------------------CCCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 11388999999999999999999999999999999999875
No 37
>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=2.5e-37 Score=341.24 Aligned_cols=339 Identities=30% Similarity=0.476 Sum_probs=282.8
Q ss_pred HHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH-HHHHhcCcEEEEcCCCchHHHHHHHhhccCCccEEee
Q 002505 49 AKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEA-LTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSF 127 (914)
Q Consensus 49 ~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~ 127 (914)
+..|+++|+++||++++++++.+|++.+.|+++++..+...+ +.+..++|.+||||.|+..+.+++.+++.+++|+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 578999999999999998899999999999995555555544 4555569999999999999999999999999999999
Q ss_pred ccCCCCCcc--CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEe-eccCC
Q 002505 128 AATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHK-VPLSP 204 (914)
Q Consensus 128 ~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~-~~~~~ 204 (914)
+++++.+++ ..+|+++|+.|++..++.++++++++++|++|++|++++++|......+++.+++.++.+... ...+
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 160 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVI- 160 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEE-
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceeccccccc-
Confidence 999999988 479999999999999999999999999999999999999999999999999999965444333 3333
Q ss_pred CCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhcccee
Q 002505 205 KGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVL 282 (914)
Q Consensus 205 ~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~ 282 (914)
....+....+..++. .++++||+++....+..++++|.+.||..++|+||.++.+...... ..+.......|++
T Consensus 161 -~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~~~~~~ 236 (348)
T PF01094_consen 161 -SSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ---NNEDFREAFQGVL 236 (348)
T ss_dssp -TTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS---THCHHHCCHTTEE
T ss_pred -ccccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc---cccccccccccee
Confidence 244555555555555 8999999999999999999999999999999999999987655321 1256677889999
Q ss_pred EEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcc
Q 002505 283 TLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMR 361 (914)
Q Consensus 283 ~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (914)
++....+..+.+++|.++|++.... +.......+..++.++||||+++++|++++.+++++..
T Consensus 237 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~---------------- 300 (348)
T PF01094_consen 237 GFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT---------------- 300 (348)
T ss_dssp EEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT----------------
T ss_pred eeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC----------------
Confidence 9999999999999999999876421 22233557788999999999999999999987644321
Q ss_pred cccccccCchHHHHHHHHhcccCCcccceEEcc-CCCCCCCceEEEEec
Q 002505 362 FSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRDLINPAYEVINVI 409 (914)
Q Consensus 362 ~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~-~g~~~~~~~~i~~~~ 409 (914)
.....|.+|..+.++|++++|+|++|++.||+ +|++.+..|.|+|++
T Consensus 301 -~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 301 -NGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp -SSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred -CCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 01156778999999999999999999999999 899989999999975
No 38
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=3e-37 Score=336.04 Aligned_cols=321 Identities=23% Similarity=0.348 Sum_probs=270.0
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT-NYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+|+|.++ .....|+++|+|+||+++|++++.++++.+.|+ .+++..++.++++|+.++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~~~V~aiiG~~~S~~~~a 77 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLSQGVAAIFGPSSSSSANT 77 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHhcCcEEEECCCCHHHHHH
Confidence 5999999988 778999999999999999998667999999998 599999999999999889999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~ 192 (914)
++++++.++||+|+++++++.++. ++.++..|++..++.++++++++++|++|++|+.++++ ....+.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~-~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKPR---QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEG-LLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCCC---cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHh-HHHHHHHHHhhccC
Confidence 999999999999999998887762 34455567777899999999999999999999977654 45556777778888
Q ss_pred ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCCh
Q 002505 193 RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHS 272 (914)
Q Consensus 193 g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~ 272 (914)
|++|+.....+ .. +|+++++.++++.++|+||+.+.+.++..++++|+++||+.+.|+||+++......+. .
T Consensus 154 g~~v~~~~~~~--~~-~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~-----~ 225 (324)
T cd06368 154 GIQVTVRRLDD--DT-DMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL-----E 225 (324)
T ss_pred CceEEEEEecC--Cc-hHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-----h
Confidence 99998776544 23 3899999999999999999999999999999999999999899999998754432221 1
Q ss_pred hhhhhccceeEEEEecCCcHHHHHHHHHHHHhhcc-CCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCcc
Q 002505 273 EKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSK 351 (914)
Q Consensus 273 ~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 351 (914)
.......++.++....++++..+.|.++|+++++. ++......|+.++..+||||+++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~--------------------- 284 (324)
T cd06368 226 LFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF--------------------- 284 (324)
T ss_pred hhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe---------------------
Confidence 22233445677777778889999999999999853 11122236788899999998765
Q ss_pred ccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 352 LSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 352 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
+|+++||++|+|.+..++|+++.++++++||+|++..|+
T Consensus 285 -----------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 677999999999999999999999999999999998764
No 39
>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=5e-36 Score=325.49 Aligned_cols=336 Identities=15% Similarity=0.153 Sum_probs=258.7
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
+||+||+.++.. ....-++.+|++++|+++|+ .|..++++.+|+.+||++++.++|+|++++|.|||||.+|..+.++
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 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 589999987543 34456666777788888886 4777899999999999999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeccCC---C-----CCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHH
Q 002505 114 SHIANEFQVPLLSFAATD---P-----SLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~---~-----~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 184 (914)
+++|+..+||+|++.+.. | .+.+ ...+|.|++.|++ .+..+++++++++||++|+++|++++ |....+.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999975422 1 1111 1234666666764 68899999999999999999998776 5566688
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc-------cCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEe
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS-------SMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~-------~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (914)
+.+.+++.|+.+.... ... .....+...++.++ ..+.++||++|.+..+..++++|+++||+..+|+|+++
T Consensus 157 ~~~~~~~~g~~v~~~~-~~~-~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~ 234 (363)
T cd06381 157 FLDQLSRQGIDVLLQK-VDL-NISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLI 234 (363)
T ss_pred HHHHHHhcCceEEEEe-ccc-ccchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEe
Confidence 8888998898766433 221 11223444444332 34556889999999999999999999999999999987
Q ss_pred Cccccc-ccCCCcCChhhhhhccceeEEEEecCCcHHHH----HHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHH
Q 002505 258 DWLSSI-LDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKR----KFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAH 332 (914)
Q Consensus 258 ~~~~~~-~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~ 332 (914)
+.+... .+. +.......|+++++..+|..+..+ ++.+.|++.....++ ....+...++++||||+++
T Consensus 235 ~~l~~~~~~l-----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~al~yDaV~~~-- 306 (363)
T cd06381 235 NEEISDTEID-----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDG-YLQMLEISNLYIYDSVLLL-- 306 (363)
T ss_pred ccccccchhh-----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCC-CCCChhHHHHHHHHHHHHH--
Confidence 766653 222 456678899999999988776666 455556543321111 2235667899999999998
Q ss_pred HHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccc
Q 002505 333 AIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTG 412 (914)
Q Consensus 333 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~ 412 (914)
+++|++++|+|+||+|+|+++|+|.++.++|+++.-++
T Consensus 307 ------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 307 ------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred ------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 23566678999999999999999999999999999555
Q ss_pred -----eEEEEEecCCCCc
Q 002505 413 -----SRRIGYWSNHSGL 425 (914)
Q Consensus 413 -----~~~vg~w~~~~~~ 425 (914)
.+.||.|++.+||
T Consensus 345 ~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDGRWLATWNPSKGL 362 (363)
T ss_pred ccccceEEeeeccCCCCC
Confidence 7999999998875
No 40
>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=4.1e-36 Score=330.24 Aligned_cols=328 Identities=15% Similarity=0.152 Sum_probs=279.4
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCC---CCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAIL---GGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l---~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 106 (914)
|||+++|+| +..|.....|+++|++++|++||+. .|++|+++++|++++|..+++++.+|+++ +|.+||||.+
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 5568889999999999999988763 47999999999999999999999999987 9999999999
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC--CeEEEEEEEeCCCccchHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG--WRNVIALYVDDDHGRNGIAA 184 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~--w~~v~ii~~d~~~g~~~~~~ 184 (914)
|..+.+++++++..++|+|+++++++.++...+|++||+.|++..++.++++++++++ |+++++++.+++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999999888877766789999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccc
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (914)
+++.+++.|++|+....++ .+.+|+++++.+|++.++|+|++.+.+.++..+++++++.|++.+ ..+. +.+.....
T Consensus 161 ~~~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~~~ 236 (345)
T cd06338 161 AREKAEAAGLEVVYDETYP--PGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAFPA 236 (345)
T ss_pred HHHHHHHcCCEEEEEeccC--CCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCcHH
Confidence 9999999999999888887 466899999999999999999999999999999999999999754 2222 22211110
Q ss_pred cCCCcCChhhhhhccceeEEEEecCC-------cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHh
Q 002505 265 DTDSQLHSEKMDDIQGVLTLRMYTQS-------SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (914)
Q Consensus 265 ~~~~~~~~~~~~~~~G~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~ 337 (914)
.. +...+..+|+++...+.+. .+..+.|.++|+++|+ ..|+.++..+||+++++++|++++
T Consensus 237 ~~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~a~~~~~~a~~~a 304 (345)
T cd06338 237 FV-----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG-------KAPDYHAAGAYAAGQVLQEAVERA 304 (345)
T ss_pred HH-----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC-------CCCCcccHHHHHHHHHHHHHHHHh
Confidence 00 2233456788888777654 3668999999999984 235667889999999999999985
Q ss_pred hhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEE
Q 002505 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVIN 407 (914)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~ 407 (914)
... +++.+.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 305 g~~-----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 305 GSL-----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred CCC-----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 211 3789999999999999999999999999754 555554
No 41
>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=5.3e-36 Score=328.62 Aligned_cols=320 Identities=19% Similarity=0.212 Sum_probs=274.4
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|+....|+++|++++|++||+ +|++++++++|++++|..+++++++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 689999998 567899999999999999999998 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc----CCCCceEeccCCcHHHHHHHHHHHHH-----cCCeEEEEEEEeCCCccc
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS----LQYPFFVRTTQSDLYQMAAIADIVDY-----FGWRNVIALYVDDDHGRN 180 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~----~~~~~~~r~~p~~~~~~~a~~~~l~~-----~~w~~v~ii~~d~~~g~~ 180 (914)
+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++..++.++++++.+ ++|++|++++.++.||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888888763 46899999999999999999998876 899999999999999999
Q ss_pred hHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcc
Q 002505 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWL 260 (914)
Q Consensus 181 ~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 260 (914)
....+++.+++.|++|+....++ .+..|+++++.+|++.++|+|++.+.+.++..++++++++|+..+ ++..+..
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 234 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFS--PDTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGISVE 234 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecC--CCCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEecCC
Confidence 99999999999999999988887 457899999999999999999999999999999999999998543 3333322
Q ss_pred cccccCCCcCChhhhhhccceeEEEEecC----CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q 002505 261 SSILDTDSQLHSEKMDDIQGVLTLRMYTQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (914)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 336 (914)
....... ....+..+|.+....+.| .++..++|.++|+++|+ ..++.++..+||+++++++|+++
T Consensus 235 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g-------~~p~~~~~~~yda~~~l~~A~~~ 303 (344)
T cd06345 235 GNSPAFW----KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG-------GPPNYMGASTYDSIYILAEAIER 303 (344)
T ss_pred cCCHHHH----HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC-------CCCcccchHHHHHHHHHHHHHHH
Confidence 1110000 122244666666555543 46778999999999884 35778899999999999999998
Q ss_pred hhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCC
Q 002505 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLI 399 (914)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~ 399 (914)
+... +++.+.++|++.+|+|++|++.||++|++.
T Consensus 304 ag~~-----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 304 AGST-----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred hcCC-----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 5211 378999999999999999999999999964
No 42
>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=3e-36 Score=325.28 Aligned_cols=304 Identities=21% Similarity=0.270 Sum_probs=264.5
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|++ +..|+....|+++|+++||++||+ +|++|+++++|++++|..+++++.+|+.+ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 699999999 456888999999999999999999 59999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHH
Q 002505 110 AHLV-SHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v-~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++|+.|++||+...+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999998887 457899999999999999999999999999999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
.+++.|++|+....++ .+.+|+++++.++++.++|+|++.+.+.++..++++++++|+..+ |+++++.......
T Consensus 160 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~- 233 (312)
T cd06346 160 AFEALGGTVTNVVAHE--EGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK---FLLTDGMKSDSFL- 233 (312)
T ss_pred HHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc---eEeeccccChHHH-
Confidence 9999999999988888 568999999999999999999999999999999999999998544 6766553321101
Q ss_pred CcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcccc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 347 (914)
.....+.++|+++..++.+. +..++|.++|+++|+ ..|+.++..+||+++++++|
T Consensus 234 ---~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~g-------~~p~~~~~~~Yd~~~~l~~A-------------- 288 (312)
T cd06346 234 ---PADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAYG-------ESPSAFADQSYDAAALLALA-------------- 288 (312)
T ss_pred ---HhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHhC-------CCCCccchhhHHHHHHHHHH--------------
Confidence 01122457888877665443 778999999999984 34678889999999999877
Q ss_pred CCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEE
Q 002505 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (914)
Q Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i 405 (914)
|.|++|++.|+++|++. ..|+.
T Consensus 289 -----------------------------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 -----------------------------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred -----------------------------------hCCCccceeeCCCCCcc-cceee
Confidence 35899999999999864 35554
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=1.1e-35 Score=326.45 Aligned_cols=334 Identities=18% Similarity=0.253 Sum_probs=276.7
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|+....|+++|+++||+.||+. |++|+++++|++++|..+++++++|+++ +|++|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~-G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVN-GRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcC-CcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999999 5568999999999999999999995 9999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHH-HHHHHHHc-CCeEEEEEEEeCC-CccchHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAA-IADIVDYF-GWRNVIALYVDDD-HGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a-~~~~l~~~-~w~~v~ii~~d~~-~g~~~~~~~~ 186 (914)
+.++.+++++.++|+|+++++++.+.+ .++|+||+.+++..+... +..+++++ +|+++++||.+++ ||+...+.++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIPE-IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcCC-CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 999999999999999999887766543 468999998877655544 44567777 9999999997554 9999999999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (914)
+.+++.|++++....++ .+..|+.+++.+++++++|+|++.+.+.++..+++++++.|+..+ |+.++++.... .
T Consensus 159 ~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~-~ 232 (344)
T cd06348 159 KALRDQGLNLVTVQTFQ--TGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTPN-V 232 (344)
T ss_pred HHHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCHH-H
Confidence 99999999999988888 567899999999999999999999999999999999999999654 55544432211 1
Q ss_pred CCcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCc
Q 002505 267 DSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (914)
Q Consensus 267 ~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 344 (914)
.+...+..+|++....+.+ +++..++|.++|+++++ ..++.++..+||+++++++|++++..+....
T Consensus 233 ----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~ 301 (344)
T cd06348 233 ----FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG-------KAPPQFSAQAFDAVQVVAEALKRLNQKQKLA 301 (344)
T ss_pred ----HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC-------CCccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 0233466788888777665 34678999999999884 3457788999999999999999985432110
Q ss_pred cccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEE
Q 002505 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (914)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i 405 (914)
+. ..+| .+..|.++|++.+|+|++|++.|+++|++.+..|.|
T Consensus 302 ~~------------~~~~-------~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 302 EL------------PLPE-------LRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred cc------------hhhh-------HHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 00 0011 267899999999999999999999999988777654
No 44
>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=1.8e-35 Score=325.67 Aligned_cols=308 Identities=29% Similarity=0.449 Sum_probs=264.8
Q ss_pred EEEEEecCCCc-------------cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----
Q 002505 34 NIGAVFALNST-------------IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN---- 96 (914)
Q Consensus 34 ~IG~i~~~s~~-------------~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~---- 96 (914)
.||++||++.. .|.....++.+|+++||+++++++|++|+++++|++|+|.+|++++.+|+.+
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 37999999852 2456678999999999999999899999999999999999999999999985
Q ss_pred ----------CcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCC
Q 002505 97 ----------ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGW 165 (914)
Q Consensus 97 ----------~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w 165 (914)
+|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999999876 57899999999999999999999999999
Q ss_pred eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
++|++++.+++||....+.+++.+++.|++|+....++......|+..++++++++++|+|++++.+.++..++++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~ 240 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKL 240 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999998888433368999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHH
Q 002505 246 RMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYD 325 (914)
Q Consensus 246 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YD 325 (914)
|+ .+.++| .++++....... ....+.++|++++..+.+.+...+.|.+.+++ ++.++||
T Consensus 241 g~-~~~~~i-~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~---------------~~~~~YD 299 (348)
T cd06350 241 GM-TGKYWI-ISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK---------------YAYNVYD 299 (348)
T ss_pred CC-CCeEEE-EEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH---------------HHHHHHh
Confidence 99 444444 444443321110 22336788999999888766556667766664 6788999
Q ss_pred HHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEE
Q 002505 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (914)
Q Consensus 326 av~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i 405 (914)
||++ .+.|+++|++ ...|.+
T Consensus 300 av~~-----------------------------------------------------------~v~f~~~gd~-~~~~~i 319 (348)
T cd06350 300 AVYA-----------------------------------------------------------EVKFDENGDR-LASYDI 319 (348)
T ss_pred heeE-----------------------------------------------------------EEEecCCCCc-ccceeE
Confidence 9977 4889999996 577999
Q ss_pred EEecc----cceEEEEEecCC
Q 002505 406 INVIG----TGSRRIGYWSNH 422 (914)
Q Consensus 406 ~~~~~----~~~~~vg~w~~~ 422 (914)
.+++. .++++||.|++.
T Consensus 320 ~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 320 INWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEEEEcCCcEEEEEEEEEcCC
Confidence 98876 578999999874
No 45
>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=2.4e-35 Score=319.58 Aligned_cols=302 Identities=17% Similarity=0.214 Sum_probs=239.6
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-cCCCch--HHHHHHHhhccCCccEEeeccCCC-CCcc-CCCCceEeccCCcHHH
Q 002505 79 TNYSRFLGMVEALTLLEN-ETVAII-GPQFSV--IAHLVSHIANEFQVPLLSFAATDP-SLSS-LQYPFFVRTTQSDLYQ 152 (914)
Q Consensus 79 ~~~~~~~a~~~a~~li~~-~v~aii-Gp~~s~--~~~~v~~~~~~~~ip~is~~a~~~-~l~~-~~~~~~~r~~p~~~~~ 152 (914)
...||...+.+.|+++.+ +|.|+| ||.++. .+..++.++++.+||+|++++.++ .+++ ..+|+|+|+.|++..|
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q 122 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQ 122 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHH
Confidence 447999999999999977 699766 999987 556788888889999999987665 5555 5789999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCC-ChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
+.|+++++++|+|++|++||++++.+..+.+.+++.++..++|+.....++... ...+...++.+++..++++||++|+
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s 202 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCS 202 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECC
Confidence 999999999999999999999988777788888888777666654433333222 2234788899999999999999999
Q ss_pred hhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCC
Q 002505 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLN 311 (914)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (914)
...+..++++|+++||++++|+||++++.....+.. ..+...|++++.. ++|+.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~------~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLG------PSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccc------cccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999866553210 1133466666542 22321
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCccccc-cc-ccCchHHHHHHHHhcccCCcccc
Q 002505 312 GPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSS-VS-IFNGGKMLLDNILQVNMTGVTGP 389 (914)
Q Consensus 312 ~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~g~~l~~~l~~~~f~g~~G~ 389 (914)
.+....||||+++|+|++.++++.+..+ ....+|.. .. +|..|+.|+++|++++|+|+ +
T Consensus 257 ------~~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~ 317 (362)
T cd06378 257 ------SLRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--D 317 (362)
T ss_pred ------cHHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--c
Confidence 1245689999999999999876544432 12235543 33 48889999999999999996 9
Q ss_pred eEEccCCCCCCCceEEEEecc-cceEEEEEecCCCCcc
Q 002505 390 IKFTSDRDLINPAYEVINVIG-TGSRRIGYWSNHSGLS 426 (914)
Q Consensus 390 v~f~~~g~~~~~~~~i~~~~~-~~~~~vg~w~~~~~~~ 426 (914)
++|+++|+|.++.|+|+|++. .+|++||+|+++ +|.
T Consensus 318 i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~~-~L~ 354 (362)
T cd06378 318 LSFTEDGYLVNPKLVVISLNKERVWEEVGKWENG-SLR 354 (362)
T ss_pred eeECCCCeEccceEEEEEecCCCCceEEEEEcCC-eEE
Confidence 999999999999999999996 599999999854 443
No 46
>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=9.1e-35 Score=318.24 Aligned_cols=337 Identities=14% Similarity=0.080 Sum_probs=277.5
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|+....|+++|+++||+.||++ |++|+++++|++++|.++++++.+|+++ +|++|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 699999998 5668899999999999999999996 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.++.+++++.++|++++.+... ....||+||+.+++..++..+++++.. .+++++++++.|++||....+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998654322 235689999999999999999998765 57999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|++|+....++ .+..|+++++.++++.++|+|++...+.++..+++++++.|+..+...++........+.
T Consensus 157 ~~~~G~~vv~~~~~~--~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~--- 231 (348)
T cd06355 157 LESLGGEVVGEEYLP--LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR--- 231 (348)
T ss_pred HHHcCCeEEeeEEec--CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh---
Confidence 999999999988888 578999999999999999999999899999999999999999754445554432211111
Q ss_pred cCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
.-..+...|++....+.+ +++..+.|.++|+++|+. ...++.++..+||++++++.|++++...
T Consensus 232 ---~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~-----~~~~~~~a~~~Y~a~~~~~~Al~~ag~~------ 297 (348)
T cd06355 232 ---GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQ-----DRVTNDPMEAAYIGVYLWKQAVEKAGSF------ 297 (348)
T ss_pred ---hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC------
Confidence 111235677776554433 567889999999999852 1234566888999999999999986211
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEec-ccceEEE
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRI 416 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~v 416 (914)
+++.+.++|++++|+++.|++.|+++++.....+.+.+++ ++.++.|
T Consensus 298 -----------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 -----------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred -----------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 3889999999999999999999998544345566777775 4555554
No 47
>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=1.5e-34 Score=316.52 Aligned_cols=341 Identities=11% Similarity=0.057 Sum_probs=274.8
Q ss_pred EEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
||||++.|+| +.+|.....|+++|+++||++||++ |++|+++++|++++|..+++++.+|+++ +|.+|||+.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 6999999999 5678899999999999999999996 9999999999999999999999999985 899999999999
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
.+.++.+++++.++|+|....... ....+|+||+.|++..++.++++++....-+++++|+.|++||+...+.+++.
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~ 156 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVI 156 (374)
T ss_pred HHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 999999999999999996432111 12358999999999999999999876543378999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|++++....++ .+..|+++++.+|++++||+|++...+.+...+++|++++|+..+ ++............
T Consensus 157 ~~~~G~~vv~~~~~~--~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~- 230 (374)
T TIGR03669 157 AKENGAEVVGEEFIP--LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEHK- 230 (374)
T ss_pred HHHcCCeEEeEEecC--CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhh-
Confidence 999999999988888 578999999999999999999999888889999999999999755 22222111111100
Q ss_pred cCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
....+...|+++...+.+ +++..+.|.++|+++|+. ...++.++..+||+++++++|++++.+
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~-----~p~~~~~a~~~Yda~~~l~~Ai~~AGs------- 295 (374)
T TIGR03669 231 ---RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPD-----APYINQEAENNYFSVYMYKQAVEEAGT------- 295 (374)
T ss_pred ---hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCC-----CCCCChHHHHHHHHHHHHHHHHHHhCC-------
Confidence 011134667777666654 467789999999999852 112456788999999999999998632
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHh-cccCCcccceEEccCCCCCCCceEEEEeccc-ceEEEEEec
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ-VNMTGVTGPIKFTSDRDLINPAYEVINVIGT-GSRRIGYWS 420 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~-~~~~vg~w~ 420 (914)
. +++.+.++|++ .+|+|+.|++.|+++++.....+.|.+++.+ ++.-+..|+
T Consensus 296 ---------------------~-d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 ---------------------T-DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred ---------------------C-CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 1 38999999997 5799999999999876645455666666643 344444444
No 48
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.5e-35 Score=320.34 Aligned_cols=324 Identities=20% Similarity=0.284 Sum_probs=275.4
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCC--CCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCc
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAI--LGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFS 107 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~--l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 107 (914)
|||++.|++ +..|.....|+++|+++||+.||+ ++|++|+++++|++++|..+++++++|+++ +|.+|+||.+|
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 699999998 466889999999999999999973 469999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc------CCeEEEEEEEeCCCccch
Q 002505 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVDDDHGRNG 181 (914)
Q Consensus 108 ~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~d~~~g~~~ 181 (914)
..+.+++++++..++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++++.|++||...
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~ 160 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSV 160 (347)
T ss_pred HhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHH
Confidence 99999999999999999999888888877778999999999999999999998876 469999999999999999
Q ss_pred HHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccc
Q 002505 182 IAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS 261 (914)
Q Consensus 182 ~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 261 (914)
.+.+++.+++.|++|+..+.++ .+..|+++++.+++++++|+|++.+...++..+++++++.|+..+ .++...++..
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 237 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYP--ANARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGGAE 237 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccC--CCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCCcC
Confidence 9999999999999999988888 457899999999999999999999999999999999999999654 2222222211
Q ss_pred ccccCCCcCChhhhhhccceeEEEEecCC-cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhc
Q 002505 262 SILDTDSQLHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (914)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 340 (914)
... . .....+..+|++...++.++ .+..++|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 238 ~~~-~----~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~-------~~~~~~~~~~Y~a~~~l~~A~~~ag~~ 305 (347)
T cd06340 238 DPS-F----VKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG-------VDLSGNSARAYTAVLVIADALERAGSA 305 (347)
T ss_pred cHH-H----HHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC-------CCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence 110 0 02334567888888777664 6778999999999984 347788999999999999999986321
Q ss_pred CCCccccCCccccccCCCCcccccccccCchHHHH--HHHHhcccC---CcccceEEccCCCCCCC
Q 002505 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLL--DNILQVNMT---GVTGPIKFTSDRDLINP 401 (914)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~--~~l~~~~f~---g~~G~v~f~~~g~~~~~ 401 (914)
+++.+. .+|++.+++ ++.|++.||++|+..+.
T Consensus 306 -----------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 -----------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred -----------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 277788 588888775 46889999999996544
No 49
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=1.9e-34 Score=316.15 Aligned_cols=339 Identities=24% Similarity=0.235 Sum_probs=279.6
Q ss_pred CCeEEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 002505 30 PPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQ 105 (914)
Q Consensus 30 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 105 (914)
.++|+||++.|+| +.+|+....|+++|+|+||+.||++ |.+|++++.|+.+||..+++.+.+|+.+ +|.+|||+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4589999999998 6779999999999999999999985 8889999999999999999999999985 999999999
Q ss_pred CchHHHHHHHhhccCCccEEeeccCCCCCccCC-CCceEeccCCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCccchHH
Q 002505 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQ-YPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIA 183 (914)
Q Consensus 106 ~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~-~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~d~~~g~~~~~ 183 (914)
+|..+.++.+++++.++|+|+++++++.+.... .+++||++|++..++.++++++.. .+.+++++|+.|+.||+...+
T Consensus 87 ~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~ 166 (366)
T COG0683 87 TSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLAD 166 (366)
T ss_pred cCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHH
Confidence 999999999999999999999999999877644 355999999999999999998764 555699999999999999999
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
.+++.+++.|++++..+.+. ....+++.++.++++.++|+|++.+...+...++++++++|+... .+..++....
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~---~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYA--PGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK---LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeC--CCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc---cccccccCch
Confidence 99999999999866656666 344559999999999999999999999999999999999999764 2222222211
Q ss_pred ccCCCcCChhhhhhccc-eeEEE-EecC-CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhc
Q 002505 264 LDTDSQLHSEKMDDIQG-VLTLR-MYTQ-SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (914)
Q Consensus 264 ~~~~~~~~~~~~~~~~G-~~~~~-~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 340 (914)
... ........+ .+... .+.+ ++|..+.|.++|+++++ .+..++.++..+||++++++.|++++..
T Consensus 242 -~~~----~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g-----~~~~~~~~~~~~y~a~~~~~~ai~~a~~- 310 (366)
T COG0683 242 -EFE----EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYG-----DPAAPSYFAAAAYDAVKLLAKAIEKAGK- 310 (366)
T ss_pred -hhh----hhcccCccccEEEEecccccccCcchHHHHHHHHHHhC-----CCCCcccchHHHHHHHHHHHHHHHHHhc-
Confidence 000 001112222 22322 2333 35667889999999985 2456677899999999999999999743
Q ss_pred CCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcc-cCCcccceEEccCCCCCCCceEEEEecccc
Q 002505 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVN-MTGVTGPIKFTSDRDLINPAYEVINVIGTG 412 (914)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~ 412 (914)
. . +.+.+.++|++.. +++.+|++.||++|++....+.|.+++..+
T Consensus 311 ~--------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~~ 356 (366)
T COG0683 311 S--------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKGG 356 (366)
T ss_pred C--------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEecC
Confidence 1 1 2788999999987 689999999999999999999998888543
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.1e-34 Score=316.34 Aligned_cols=319 Identities=18% Similarity=0.153 Sum_probs=269.4
Q ss_pred EEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchHH
Q 002505 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~ 110 (914)
+||++.|++ +..|.....|+++|+++||+.||+ +|++|+++++|++++|..+++++.+|+++ +|++|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 589999999 567888899999999999999998 59999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC-CeEEEEEEEeCC-CccchHHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDD-HGRNGIAALGDK 188 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (914)
.++++++++.++|+|+++++++.++ ..+||+||+.|++..++.++++++++.+ |+++++|+.|+. ||+...+.+++.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999988888777 4579999999999999999999998876 999999998876 999999999999
Q ss_pred Hhh-cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 189 LAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 189 l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
+++ .|++++....++ .++.++..++.++++.++|+|++.+.......+++++++.+.. ..+++++.+... ...
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~---~~i~~~~~~~~~-~~~ 232 (332)
T cd06344 159 LLERGGGIVVTPCDLS--SPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGR---LTLLGGDSLYTP-DTL 232 (332)
T ss_pred HHHhcCCeeeeeccCC--CCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCC---ceEEecccccCH-HHH
Confidence 999 588888655554 4567788999999999999999999888889999999887652 335555443221 110
Q ss_pred CcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcccc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 347 (914)
....+..+|+++..++.++++..++|.+.|+++++ .+++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~a~~~Yda~~~l~~A~~~ag~~------- 294 (332)
T cd06344 233 ----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG-------GDVSWRTATAYDATKALIAALSQGPTR------- 294 (332)
T ss_pred ----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc-------CCchHHHHhHHHHHHHHHHHHHhCCCh-------
Confidence 12235678998888888877788999999999984 356788999999999999999985311
Q ss_pred CCccccccCCCCcccccccccCchHHHH-HHHHhcccCCcccceEEccCCCCCC
Q 002505 348 EDSKLSELSRGDMRFSSVSIFNGGKMLL-DNILQVNMTGVTGPIKFTSDRDLIN 400 (914)
Q Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~-~~l~~~~f~g~~G~v~f~~~g~~~~ 400 (914)
++..+. .++++..|+|+.|+++||++|++..
T Consensus 295 ----------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 295 ----------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred ----------------------hhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 144444 6778888999999999999999754
No 51
>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=1.7e-34 Score=315.93 Aligned_cols=316 Identities=15% Similarity=0.174 Sum_probs=272.3
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
+||++.|++ +..|+....|+++|+++||+.||+. |++|+++++|++++|..+++.+++|++++|++||||.+|..+
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 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVD-GRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999998 4568899999999999999999995 999999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCccch
Q 002505 111 HLV-------SHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGRNG 181 (914)
Q Consensus 111 ~~v-------~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~d~~~g~~~ 181 (914)
.++ +++++.+++|+|+++++++.+++ ...|++||+.|++..++.++++++.+.+ |+++++++.|+.||+..
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 998 78888999999999888888876 5679999999999999999999998875 99999999999999999
Q ss_pred HHHHHHHHhh--cccEEEEeeccCCCCCh-hHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 182 IAALGDKLAE--KRCRLSHKVPLSPKGSR-NQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 182 ~~~~~~~l~~--~g~~v~~~~~~~~~~~~-~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
.+.+++.+++ .|++|+....++ .+. +|+.+++.++++.++|+|++...+.++..++++++++|+..+ ++...
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~--~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 234 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHP--LGKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYTPY 234 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccC--CCCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEecc
Confidence 9999999999 999999888877 456 899999999999999999999888899999999999999654 55444
Q ss_pred cccccccCCCcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q 002505 259 WLSSILDTDSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (914)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 336 (914)
+.... . .....+..+|++....+.+ +++..+.|.++|+++++ ..++.++..+||+++++++|+++
T Consensus 235 ~~~~~--~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~ 301 (342)
T cd06329 235 LDQPG--N----PAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG-------RVPDYYEGQAYNGIQMLADAIEK 301 (342)
T ss_pred ccchh--H----HHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC-------CCCCchHHHHHHHHHHHHHHHHH
Confidence 33221 1 1223455678877776654 36778999999999884 35677889999999999999998
Q ss_pred hhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEcc-CCC
Q 002505 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRD 397 (914)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~-~g~ 397 (914)
+... +++.+.++|++++|+|+.|++.|++ +++
T Consensus 302 ag~~-----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~ 334 (342)
T cd06329 302 AGST-----------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQ 334 (342)
T ss_pred hCCC-----------------------------CHHHHHHHHhCCccccCCCCeEEcccCcc
Confidence 5211 3789999999999999999999986 444
No 52
>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=9.8e-34 Score=311.24 Aligned_cols=330 Identities=13% Similarity=0.087 Sum_probs=267.0
Q ss_pred EEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
|+||++.|+| +..|.....|+++|+++||+.||++ |++|+++++|++++|..+++++++|+++ +|.+|+|+.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 4667888999999999999999996 9999999999999999999999999976 899999999999
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCccchHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
.+.++.++++..++|++.+..... +...|++||+.+++..++.++++++.. .|.+++++++.|++||....+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYEG---EECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCcccC---cccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 999999999999999997653221 245689999999999999999998766 5999999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
.+++.|++++....++ .+.+|+++++.+|++.++|+|++...+.++..+++++++.|+..+...++.+........
T Consensus 157 ~~~~~G~~vv~~~~~~--~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~-- 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTP--LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR-- 232 (359)
T ss_pred HHHHcCCEEEeeEEec--CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh--
Confidence 9999999999888887 578999999999999999999988888888899999999999654333444332211111
Q ss_pred CcCChhhhhhccceeEEEEe--cCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 268 SQLHSEKMDDIQGVLTLRMY--TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
.-..+.++|+++...+ ..+++..+.|.++|+++++. ...++.++..+||++++++.|++++...
T Consensus 233 ----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~A~~~ag~~----- 298 (359)
T TIGR03407 233 ----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGD-----DRVTNDPMEAAYLGVYLWKAAVEKAGSF----- 298 (359)
T ss_pred ----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC-----
Confidence 1112456787654333 23567889999999998842 1223455677999999999999986211
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEe
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~ 408 (914)
+++.+.++|++++|+++.|++.|+++++.....+.+.++
T Consensus 299 ------------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 299 ------------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred ------------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 388999999999999999999999844323333444444
No 53
>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=1.5e-33 Score=311.66 Aligned_cols=341 Identities=16% Similarity=0.206 Sum_probs=285.7
Q ss_pred CCeEEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 002505 30 PPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQ 105 (914)
Q Consensus 30 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 105 (914)
+++|+||+++|++ +..|+....++++|++++|+.||+. |++|+++++|+++++..+++++.+|+++ +|.+||||.
T Consensus 4 ~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~-G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 4 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGIN-GRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 5789999999998 4568899999999999999999995 9999999999999999999999999985 999999999
Q ss_pred CchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHH-HHHcCCeEEEEEEEeCCCccchHH
Q 002505 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADI-VDYFGWRNVIALYVDDDHGRNGIA 183 (914)
Q Consensus 106 ~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~-l~~~~w~~v~ii~~d~~~g~~~~~ 183 (914)
+|..+.+++++++..++|+|++.++++.+++ ..+||+||+.|++..++.+++++ +++++|+++++|+.|+.||+...+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 9999999999999999999998887777776 37899999999999999999996 567899999999999999999999
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
.+++.+++.|++++....++ .+.+|+++++.++++.++|+|++.+...++..++++++++|+... ++.+++....
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~ 237 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYE--VTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSASV 237 (362)
T ss_pred HHHHHHHHcCCeEEEEeeec--CCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccccc
Confidence 99999999999999988888 567899999999999999999999999999999999999998754 5555443221
Q ss_pred cc-CCCcCChhhhhhccceeEEEEec-------CCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 002505 264 LD-TDSQLHSEKMDDIQGVLTLRMYT-------QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIG 335 (914)
Q Consensus 264 ~~-~~~~~~~~~~~~~~G~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~ 335 (914)
.. . .....+..+|++.+..+. .+++..+.|.+.|+++++. ..+++.++..+||++.++++|++
T Consensus 238 ~~~~----~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~a~~ 308 (362)
T cd06343 238 ASVL----KPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPE-----GDPPDTYAVYGYAAAETLVKVLK 308 (362)
T ss_pred HHHH----HHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCC-----CCCCchhhhHHHHHHHHHHHHHH
Confidence 10 1 011234577887776543 2357789999999988842 12478889999999999999999
Q ss_pred HhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhccc---CC-cccceEEccCCCCCCCceEEEEeccc
Q 002505 336 AFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNM---TG-VTGPIKFTSDRDLINPAYEVINVIGT 411 (914)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f---~g-~~G~v~f~~~g~~~~~~~~i~~~~~~ 411 (914)
++.. . . +++.+.++|+++++ .+ ..|++.|++++++....+.|.+++++
T Consensus 309 ~ag~---~------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g 360 (362)
T cd06343 309 QAGD---D------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGG 360 (362)
T ss_pred HhCC---C------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecC
Confidence 8621 1 1 27899999999987 33 34589999876656677888888776
Q ss_pred ce
Q 002505 412 GS 413 (914)
Q Consensus 412 ~~ 413 (914)
+|
T Consensus 361 ~~ 362 (362)
T cd06343 361 RW 362 (362)
T ss_pred cC
Confidence 54
No 54
>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=1.3e-33 Score=309.45 Aligned_cols=329 Identities=19% Similarity=0.235 Sum_probs=275.3
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|.....|+++|++++|++||+ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 699999998 566899999999999999999999 59999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.++++++++.++|+|+++++++.+++ ..+|+||+.|++..++.++++++ ++++|+++++++.|++||....+.+++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999999887777654 35899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|++++....++ .+..|+++++.+++++++|+|++.+.+.++..+++++++.|+..+ ++.+.........
T Consensus 159 ~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~-- 231 (340)
T cd06349 159 AEKLGGQVVAHEEYV--PGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI-- 231 (340)
T ss_pred HHHcCCEEEEEEEeC--CCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH--
Confidence 999999999888887 457899999999999999999999999999999999999998754 5544332111000
Q ss_pred cCChhhhhhccceeEEEEecCC--cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
....+..+|++....+.++ ++..+.|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~~~~~~~~a~~~ag~~------ 295 (340)
T cd06349 232 ---ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG-------AQPDAFAAQAYDAVGILAAAVRRAGTD------ 295 (340)
T ss_pred ---HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhhhhHHHHHHHHHHHHHHhCCC------
Confidence 2223467898888777664 5678999999998884 346788999999999999999985211
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHH--HhcccCCcccceEEccC-CCCCCCceEEEEecccc
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNI--LQVNMTGVTGPIKFTSD-RDLINPAYEVINVIGTG 412 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l--~~~~f~g~~G~v~f~~~-g~~~~~~~~i~~~~~~~ 412 (914)
... ...++ .+..+.|++|+++|+++ |+. ...|.++.+++++
T Consensus 296 -----------------------~~~-~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 296 -----------------------RRA-ARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred -----------------------CHH-HHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 122 33333 45568899999999997 554 4578888777654
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=8.5e-34 Score=309.64 Aligned_cols=320 Identities=15% Similarity=0.111 Sum_probs=269.7
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||+++|++ +..|.....|+++|++++|++||+ .|++|+++++|+++||..+++++++|+++ +|++|+|+.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 456889999999999999999998 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
+.++.+++++.++|+|++++.... ...|++||+.|++..++.++++++...+|++|++|+.|+.||+...+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 999999999999999987654321 23589999999999999999998776669999999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
++.|.+|+....++ .+.+|+++++.++++.++|+|++.+.+.++..+++++++.|+......++........+.
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~---- 230 (333)
T cd06331 157 EELGGEVVGEEYLP--LGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIPILSLTLDENELA---- 230 (333)
T ss_pred HHcCCEEEEEEEec--CCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCeeEEcccchhhhh----
Confidence 99999999888888 567999999999999999999999999999999999999999743333333222111111
Q ss_pred CChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcccc
Q 002505 270 LHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 347 (914)
.......+|++...++.+ +.+..+.|.++|+++++. ...++.++..+||++++++.|++++..
T Consensus 231 --~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~A~~~ag~-------- 295 (333)
T cd06331 231 --AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGD-----DAVINSPAEAAYEAVYLWAAAVEKAGS-------- 295 (333)
T ss_pred --ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCC-----CcCCCchhHHHHHHHHHHHHHHHHcCC--------
Confidence 111245678888776654 467789999999988842 124678899999999999999998521
Q ss_pred CCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCC
Q 002505 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLI 399 (914)
Q Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~ 399 (914)
.+++.|.++|++++|+|++|++.|++++++.
T Consensus 296 ---------------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 ---------------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred ---------------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 1388999999999999999999999887754
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=1.6e-33 Score=308.61 Aligned_cols=321 Identities=20% Similarity=0.284 Sum_probs=272.9
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||+++|++ +..|+....|+++|++++|++||+ +|++|+++++|+++++..+++.+++|+++ +|++||||.++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGV-LGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCC-CCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 699999999 455788899999999999999997 59999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeC-CCccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDD-DHGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~-~~g~~~~~~~~~ 187 (914)
+.+++++++..+||+|+++++.+.+++.. +++||+.+++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 99999999999999999988877776533 589999999999999999986 677999999999876 899999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
.+++.|++++....++ .+..++.+.+.++++.++|+|++.+...+...+++++++.|+.. .|++++.+......
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~---~i~~~~~~~~~~~~- 232 (334)
T cd06347 159 AFKKLGGEIVAEETFN--AGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKV---PILGGDGWDSPKLE- 232 (334)
T ss_pred HHHHcCCEEEEEEEec--CCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCC---cEEecccccCHHHH-
Confidence 9999999999888887 45678999999999999999999999999999999999999853 47776655432110
Q ss_pred CcCChhhhhhccceeEEEEecCC--cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
....+...|++...++.+. ++..++|.++|+++++ ..++.++..+||++++++.|++++...
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~Al~~ag~~----- 296 (334)
T cd06347 233 ----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG-------KEPDAFAALGYDAYYLLADAIERAGST----- 296 (334)
T ss_pred ----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhHHHHHHHHHHHHHHHHHhCCC-----
Confidence 2233567888777776654 5778999999998873 356788899999999999999985211
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhc-ccCCcccceEEccCCCCCCCc
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQV-NMTGVTGPIKFTSDRDLINPA 402 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~-~f~g~~G~v~f~~~g~~~~~~ 402 (914)
+++.+.++|.+. +|+|++|+++|+++|+..+..
T Consensus 297 ------------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~ 330 (334)
T cd06347 297 ------------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKSA 330 (334)
T ss_pred ------------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCCc
Confidence 278899999875 699999999999999865443
No 57
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=1.4e-33 Score=291.42 Aligned_cols=352 Identities=15% Similarity=0.130 Sum_probs=246.7
Q ss_pred EEEEEEecCCCcc---chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 33 LNIGAVFALNSTI---GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s~~~---g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
||||+|+++++.. ++....|+.+|+++||++||++ |++|+.+++|.++|+....+.|.+|+.+ +|.+|+|+.+|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvl-G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVL-GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBT-TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhh
Confidence 7999999999554 5677899999999999999997 9999999999999999999999999875 999999999999
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHH-HHHcCCeEEEEEEEeCCCccchHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI-VDYFGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~-l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
+.+++.++.++++-++..+..-... +..|++|.++....++...++++ ++++|.+++.+|.+|+.|++....-+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YEG~---E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYEGF---ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccccc---cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 9999999999999999974322211 45699999999999999999996 6788999999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
.+++.|++|+.+..+| .+.+|+..++.+|++.+||+|+....++....|+++.+++|+.......+............
T Consensus 157 ~l~~~GgevvgE~Y~p--lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~~~Pi~S~~~~E~E~~~~ 234 (363)
T PF13433_consen 157 LLEARGGEVVGERYLP--LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPERIPIASLSTSEAELAAM 234 (363)
T ss_dssp HHHHTT-EEEEEEEE---S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS---EEESS--HHHHTTS
T ss_pred HHHHcCCEEEEEEEec--CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcccCeEEEEecCHHHHhhc
Confidence 9999999999999999 78899999999999999999999999999999999999999985533333333222222221
Q ss_pred CcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
..+...|.++...|.. ++|..+.|+++|+++|++ +..++.....+|.+|+++|+|++++++.
T Consensus 235 ------g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~-----~~v~s~~~eaaY~~v~l~a~Av~~ags~----- 298 (363)
T PF13433_consen 235 ------GAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD-----DRVTSDPMEAAYFQVHLWAQAVEKAGSD----- 298 (363)
T ss_dssp -------HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T-----T----HHHHHHHHHHHHHHHHHHHHTS------
T ss_pred ------ChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC-----
Confidence 2357889999988765 589999999999999963 3456777788999999999999997322
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecccceEEEEEecCCCCc
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~~~ 425 (914)
+.+.+.++|.+.+|+++.|.+.+|++.+-.. .+..||.++.+..+
T Consensus 299 ------------------------d~~~vr~al~g~~~~aP~G~v~id~~n~H~~-----------l~~rIg~~~~dG~f 343 (363)
T PF13433_consen 299 ------------------------DPEAVREALAGQSFDAPQGRVRIDPDNHHTW-----------LPPRIGRVNADGQF 343 (363)
T ss_dssp -------------------------HHHHHHHHTT--EEETTEEEEE-TTTSBEE-----------B--EEEEE-TTS-E
T ss_pred ------------------------CHHHHHHHhcCCeecCCCcceEEcCCCCeec-----------ccceEEEEcCCCCE
Confidence 3899999999999999999999998433221 24557777665432
Q ss_pred cccCCccccCCCCCCCCcccccceeeeCCCccccCCcee
Q 002505 426 SVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWV 464 (914)
Q Consensus 426 ~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~ 464 (914)
.|.|-...+..|.+|.
T Consensus 344 -----------------------~Iv~~s~~pv~PdPyl 359 (363)
T PF13433_consen 344 -----------------------DIVWESDEPVKPDPYL 359 (363)
T ss_dssp -----------------------EEEEE-SS-B---TT-
T ss_pred -----------------------EEEEeCCCCCCCCCCC
Confidence 5677666666666664
No 58
>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=8e-33 Score=304.14 Aligned_cols=339 Identities=14% Similarity=0.093 Sum_probs=274.6
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||+++|+| +..|+....|+++|+++||++||++ |++|+++++|++++|..+++++++|+++ +|++|+|+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999999 5678999999999999999999995 9999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
+.++.++++..++|++++++... + ...+++|++.++...++.++++++...+-+++++|+.|++||+...+.+++.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998765322 1 22367888888877778889998776656899999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccc-ccccCCC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS-SILDTDS 268 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~-~~~~~~~ 268 (914)
++.|++++....++.+.+..|+++++.++++.++|+|++...+.++..++++++++|+.++...++ +.... ....
T Consensus 157 ~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~~~~-~~~~~~~~~~--- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPARMPIA-SLTTSEAEVA--- 232 (360)
T ss_pred HHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccCceeE-EeeccHHHHh---
Confidence 999999988766664345899999999999999999999999999999999999999975432223 32211 1111
Q ss_pred cCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
....+..+|+++..++.+ +++..+.|.++|+++|+. ...++.++..+||+++++++|++++...
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~-----~~~~~~~~~~~yda~~~l~~Al~~ag~~------ 298 (360)
T cd06357 233 ---AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGE-----DAPVSACAEAAYFQVHLFARALQRAGSD------ 298 (360)
T ss_pred ---hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHcCCC------
Confidence 112356788888876643 467889999999999852 1235678899999999999999985211
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEe-cccceEEEE
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV-IGTGSRRIG 417 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~-~~~~~~~vg 417 (914)
+++.+.++|++++|+|+.|++.|+++++.......+.++ +++++..+.
T Consensus 299 -----------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 -----------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred -----------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 278899999999999999999999876544444555566 455555543
No 59
>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=1.9e-33 Score=307.07 Aligned_cols=320 Identities=16% Similarity=0.145 Sum_probs=271.4
Q ss_pred EEEEEecCCCc----cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 34 NIGAVFALNST----IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 34 ~IG~i~~~s~~----~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
+||+++|+++. .|.....|+++|++++| ||+ .|++|+++++|++++|..+++++.+|+++ +|.+|||+.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 58999999844 47889999999999999 888 49999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccC-CCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSL-QYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~-~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
.+.++++++++.++|+|+++++++.+++. ..||+||+.+++..++.++++++...+++++++++.|+.||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 99999999999999999999888888763 47999999999999999999988877899999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (914)
.+++.|++|+....++ .+.+|+++++.+++..++|+|++.+.+.++..+++++++.|+.. ...++..........
T Consensus 158 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~-- 232 (334)
T cd06327 158 VVKANGGKVVGSVRHP--LGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDVH-- 232 (334)
T ss_pred HHHhcCCEEcCcccCC--CCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHHH--
Confidence 9999999999988887 56789999999999999999999999999999999999999863 222333222111110
Q ss_pred CcCChhhhhhccceeEEEEecCC--cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
....+..+|++...++.++ .+..++|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~Y~~~~~~~~A~~~ag~~----- 296 (334)
T cd06327 233 ----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG-------KMPSMVQAGAYSAVLHYLKAVEAAGTD----- 296 (334)
T ss_pred ----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC-------cCCCcHHHHHHHHHHHHHHHHHHHCCC-----
Confidence 1122457888887776543 6778999999999984 346778899999999999999997322
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhcc-cCCcccceEEcc-CCCCCCC
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVN-MTGVTGPIKFTS-DRDLINP 401 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~g~~G~v~f~~-~g~~~~~ 401 (914)
+++++.++|++++ ++++.|++.|++ +|+...+
T Consensus 297 ------------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~ 330 (334)
T cd06327 297 ------------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVHD 330 (334)
T ss_pred ------------------------ChHHHHHhccccceeccCCCCceeeccccchhcc
Confidence 2677999999986 588999999987 6765433
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=2.9e-33 Score=306.72 Aligned_cols=323 Identities=17% Similarity=0.150 Sum_probs=271.4
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCC-CC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAIL-GG--TKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l-~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 106 (914)
+||++.|++ +..|.....|+++|++++|++||++ +| ++|+++++|++++|..+.+.+.+|+++ +|++|+|+.+
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 689999998 4568889999999999999999986 45 489999999999999999999999987 9999999999
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
|..+.. ++++++.++|+|++.++++.++...++|+||+.|++..++.++++++...+|++|++++.|+.||+...+.++
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~ 159 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYK 159 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHH
Confidence 999888 9999999999999999888887556799999999999999999999888999999999999999999999999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHHHHHHHhcCCCCCCeEEEEeCccccccc
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAAKHLRMMESGYVWIVTDWLSSILD 265 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 265 (914)
+.+++.|++++....++ .+..|+++++.+++++++|+|++.+... ++..++++++++|+..+ ++...+......
T Consensus 160 ~~l~~~G~~vv~~~~~~--~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYD--PGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG---FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccC--CCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc---EEeccCCCchHH
Confidence 99999999999988888 5689999999999999999999998888 99999999999998754 332222111100
Q ss_pred CCCcCChhhhhhccceeEEEEecC----CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcC
Q 002505 266 TDSQLHSEKMDDIQGVLTLRMYTQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (914)
Q Consensus 266 ~~~~~~~~~~~~~~G~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~ 341 (914)
. . ....+.++|++...++.+ +++..++|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 235 ~-~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~~~~~~~~Al~~ag~~- 302 (347)
T cd06336 235 L-V---ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYG-------EPPNSEAAVSYDAVYILKAAMEAAGSV- 302 (347)
T ss_pred H-H---HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHC-------CCCcHHHHHHHHHHHHHHHHHHhcCCC-
Confidence 0 0 122356788888877655 46778999999999984 237788999999999999999986321
Q ss_pred CCccccCCccccccCCCCcccccccccCchHHHHHHHHh--------cccCCcccceEEccCCCCCCCc
Q 002505 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ--------VNMTGVTGPIKFTSDRDLINPA 402 (914)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~--------~~f~g~~G~v~f~~~g~~~~~~ 402 (914)
++..+.+++.. ..|.++.|.+.||++|++..+.
T Consensus 303 ----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 343 (347)
T cd06336 303 ----------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPW 343 (347)
T ss_pred ----------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCc
Confidence 13445555433 5688899999999999976554
No 61
>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=6.8e-33 Score=302.36 Aligned_cols=324 Identities=15% Similarity=0.194 Sum_probs=269.1
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||+++|++ +..|.....|+++|++++| +|+ .|++|+++++|++++|..+++++.+|+.+ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 699999998 4557888999999999998 666 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.+++++++..++|+|+++++.+.+.+ ..+||+||+.+++..++.++++++...||+++++++.|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998776666654 3579999999999999999999999999999999999999999999888887
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
++ .+++....++ .+.+|+.+++.++++.++|+|++...+..+..++++++++|+.. ...++.+...... +.
T Consensus 158 ~~---~~v~~~~~~~--~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~-- 228 (333)
T cd06359 158 FK---GEVVGEVYTK--LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DT-- 228 (333)
T ss_pred hC---ceeeeeecCC--CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HH--
Confidence 74 4566665655 56789999999999999999999888888999999999999853 3335554433221 01
Q ss_pred cCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
.+...+..+|++....+.+ +++..++|.++|+++++ ..++.++..+||+++++++|++++..+
T Consensus 229 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~A~~~ag~~------ 293 (333)
T cd06359 229 --LPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG-------RLPTLYAAQAYDAAQLLDSAVRKVGGN------ 293 (333)
T ss_pred --HHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHhcCC------
Confidence 0223356788888877766 46788999999999983 357888999999999999999986321
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEE
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~ 406 (914)
..+++.+.++|++++|+|++|++.|+++|+.. ..+.++
T Consensus 294 ---------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~ 331 (333)
T cd06359 294 ---------------------LSDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLR 331 (333)
T ss_pred ---------------------CCCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEE
Confidence 00278999999999999999999999998753 334443
No 62
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=9.9e-33 Score=303.34 Aligned_cols=321 Identities=19% Similarity=0.173 Sum_probs=268.5
Q ss_pred EEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+++ ..|.....|+++|++++|++||+ +|++++++++|+++++..+++++++|+.+ +|++||||.+|..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi-~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGI-GGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 6999999984 45788999999999999999998 59999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCCccchHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
+.+++++++..++|+|++.++++.+.+ ..++++||+.|++..+..++++++++. +|++|++++.|++||....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999999888887776 578999999999999999999999877 49999999999999999999999
Q ss_pred HHHhhcc--cEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccc
Q 002505 187 DKLAEKR--CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (914)
Q Consensus 187 ~~l~~~g--~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (914)
+.+++.| ++++....++ ...+|+..++.+|++.++|+|++.+.+.+...+++++++.|+.. +..|+.+.+....+
T Consensus 160 ~~~~~~g~~~~~v~~~~~~--~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~ 236 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPK--LGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPEL 236 (346)
T ss_pred HHHHHhCCCCeecccccCC--CCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchhhh
Confidence 9999984 5566554444 46789999999999999999999998999999999999999865 56677766543321
Q ss_pred cCCCcCChhhhhhccceeEEEEe--c--CCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhc
Q 002505 265 DTDSQLHSEKMDDIQGVLTLRMY--T--QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (914)
Q Consensus 265 ~~~~~~~~~~~~~~~G~~~~~~~--~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 340 (914)
. ....+..+|++....+ . ++++..++|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 237 ~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~y~a~~~l~~a~~~a~~~ 303 (346)
T cd06330 237 A------PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG-------DYPTYGAYGAYQAVMALAAAVEKAGAT 303 (346)
T ss_pred h------hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC-------CCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence 1 1122445676654432 1 146789999999999884 355678899999999999999987433
Q ss_pred CCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCC
Q 002505 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDR 396 (914)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g 396 (914)
... .+ .+.+.++|++++|.|+.|++.|+++.
T Consensus 304 ~~~------------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~ 334 (346)
T cd06330 304 DGG------------------------AP-PEQIAAALEGLSFETPGGPITMRAAD 334 (346)
T ss_pred CCC------------------------Cc-HHHHHHHHcCCCccCCCCceeeecCC
Confidence 110 11 25799999999999999999998843
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=1.9e-32 Score=298.14 Aligned_cols=318 Identities=14% Similarity=0.118 Sum_probs=263.3
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHh-cCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVN-SNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN-~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
|||++.|++ +..|.....|+++|++++| +.||+ +|++|++++.|++++|..+++++.+|+++ +|.+|+|+.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 699999999 4568899999999999995 45677 59999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
.+.++.+++++.++|+|+++++++.+++ ..++|+||+.+++..++.++++++... +++|++|+.|++||+...+.+++
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~ 158 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKA 158 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHH
Confidence 9999999999999999998888888876 346899999998888888888887666 89999999999999999999999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHHHHHHHhcCCCCCCeEEEEeCcccccccC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (914)
.+++.|++++....++ .+..|+++++.+++++++|+|++...+. +...+++++...|+... .............
T Consensus 159 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 233 (333)
T cd06328 159 ALEKLGAAIVTEEYAP--TDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANLTM 233 (333)
T ss_pred HHHhCCCEEeeeeeCC--CCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcccc
Confidence 9999999999998888 5779999999999999999998876555 67778888887776532 2222211111110
Q ss_pred CCcCChhhhhhccceeEEEEec-CCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 267 DSQLHSEKMDDIQGVLTLRMYT-QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 267 ~~~~~~~~~~~~~G~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
....+...|.+....+. +.++..+.|.++|+++++ ..|+.++..+||++.++++|++++..
T Consensus 234 -----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g-------~~p~~~~~~~y~a~~~l~~Ai~~ag~------ 295 (333)
T cd06328 234 -----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG-------SPPDLFTAGGMSAAIAVVEALEETGD------ 295 (333)
T ss_pred -----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC-------CCcchhhHHHHHHHHHHHHHHHHhCC------
Confidence 11223456666655554 667888999999999984 35778899999999999999998631
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEcc-CCCCC
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRDLI 399 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~-~g~~~ 399 (914)
. +++.+.++|++.+|+++.|++.|++ +++..
T Consensus 296 ----------------------~-~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~ 327 (333)
T cd06328 296 ----------------------T-DTEALIAAMEGMSFETPKGTMTFRKEDHQAL 327 (333)
T ss_pred ----------------------C-CHHHHHHHHhCCeeecCCCceEECcccchhh
Confidence 1 3889999999999999999999995 44433
No 64
>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=4.7e-32 Score=297.05 Aligned_cols=325 Identities=16% Similarity=0.242 Sum_probs=276.7
Q ss_pred EEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||+++|++. ..|.....|+++|++++| +++ +|++|+++++|+++++..+.+++.+|+.+ +|.+|||+.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 6999999984 446789999999999985 455 69999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.++.++++..++|+|+++++++.+++ ..+|++||+.+++..++..+++++...+|+++++++.++.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 888999999999999999888888876 3479999999999999999999999999999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|++++....++ .+.+|+++++.++++.++|+|++...+.++..+++++++.|+.+ +..|+.++++......
T Consensus 158 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~-- 232 (336)
T cd06360 158 FTEAGGKIVKELWVP--FGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL-- 232 (336)
T ss_pred HHHcCCEEEEEEecC--CCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH--
Confidence 999999999887777 56789999999999999999999988999999999999999853 2346655543322111
Q ss_pred cCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
....+..+|++...++.+ +++..+.|.++|+++++ ..++.++..+||+++++++|++++..+.
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~-------~~~~~~~~~~yda~~~~~~A~~~a~~~~----- 297 (336)
T cd06360 233 ---GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP-------DTPSVYAVQGYDAGQALILALEAVGGDL----- 297 (336)
T ss_pred ---HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC-------CCccHHHHHHHHHHHHHHHHHHHhCCCC-----
Confidence 234466788887777655 46789999999999984 3567899999999999999999963221
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCce
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAY 403 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~ 403 (914)
.+++.+.++|++++|+|+.|++.|+++|++..+.|
T Consensus 298 ----------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 ----------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred ----------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 12778999999999999999999999999765543
No 65
>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=100.00 E-value=4.3e-33 Score=303.13 Aligned_cols=334 Identities=13% Similarity=0.101 Sum_probs=246.1
Q ss_pred CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC------CC-ChHHHHHHHHHHHhcCc--EEEEcCCCchHHHH
Q 002505 42 NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT------NY-SRFLGMVEALTLLENET--VAIIGPQFSVIAHL 112 (914)
Q Consensus 42 s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~------~~-~~~~a~~~a~~li~~~v--~aiiGp~~s~~~~~ 112 (914)
+...|...+.|+++|++++|++. |.++.+.+.++ .+ |...+.+++|+++++++ .|||||.++..+..
T Consensus 7 ~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~ 82 (368)
T cd06383 7 TEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASE 82 (368)
T ss_pred cccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHH
Confidence 44568889999999999999985 67777777777 54 66677777999999988 89999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHH-HHhh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD-KLAE 191 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~-~l~~ 191 (914)
++.+|+.++||+|+++.. ..++.++||++|+.|++..++.|+++++++|+|++|++||+++++.......+.. ....
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999997543 2233578999999999999999999999999999999999766643323333322 2333
Q ss_pred cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-hhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcC
Q 002505 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQL 270 (914)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 270 (914)
.+.++. + ....++...+++++..+.+.||+.+. +..+..++++|.++||++.+|+||++++....++.
T Consensus 161 ~~~~v~-----~--~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl---- 229 (368)
T cd06383 161 HVITII-----N--SIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD---- 229 (368)
T ss_pred CCEEEE-----e--ccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh----
Confidence 344443 1 12356889999999988856666665 59999999999999999999999999986655443
Q ss_pred ChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCc
Q 002505 271 HSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDS 350 (914)
Q Consensus 271 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 350 (914)
++......++.+++...+.....+.+.++|.+.. ..+....+....++.+||||++++.|++.+..+....
T Consensus 230 -~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~------ 300 (368)
T cd06383 230 -LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPT--LRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVED------ 300 (368)
T ss_pred -hhhccccCcEEEeeccccchhhhccceeeccCCc--cCchhHHHHHHHHHHHHHHHHHhccccchhheeeccC------
Confidence 3334455678999987665555577777663211 0111111234568999999999999999763211110
Q ss_pred cccccCCCCcccccc---ccc-CchHHHHHHHHhcccCCcccceEEccCCCCCCCce
Q 002505 351 KLSELSRGDMRFSSV---SIF-NGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAY 403 (914)
Q Consensus 351 ~~~~~~~~~~~~~~~---~~~-~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~ 403 (914)
.+.......|... .+| ..|..+.++|++++|+|+||+|+||++|+|.+..+
T Consensus 301 --~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l 355 (368)
T cd06383 301 --GSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTI 355 (368)
T ss_pred --CCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeee
Confidence 1111122234432 256 66779999999999999999999999998865443
No 66
>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=1.9e-32 Score=301.38 Aligned_cols=333 Identities=22% Similarity=0.284 Sum_probs=277.9
Q ss_pred eEEEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCc
Q 002505 32 VLNIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-NETVAIIGPQFS 107 (914)
Q Consensus 32 ~i~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s 107 (914)
+|+||++.|+++ ..|.....|+++|++++|++||+. |++|+++++|+++++..+.+.+.+|++ ++|.+|+||.+|
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~-G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGIN-GRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEET-TEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcC-CccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 599999999984 457788999999999999999995 999999999999999999999999999 699999999999
Q ss_pred hHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 108 ~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
..+.+++++++..++|+|++++.++ ....+|+||+.|++..++.++++++ ++++.+++++|+.++++|+...+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999664442 3567999999999999999999985 55899999999999999999999999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (914)
+.+++.|++++....++ .+..|+.+++.++++.++|+|++.+.+.++..+++++++.|+..+.+....+......+.
T Consensus 157 ~~~~~~G~~vv~~~~~~--~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~- 233 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYP--PGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASLQ- 233 (343)
T ss_dssp HHHHHTTCEEEEEEEE---TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHHH-
T ss_pred HHHhhcCceeccceecc--cccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHHH-
Confidence 99999999998888887 567999999999999999999999999999999999999998754444443332222211
Q ss_pred CCcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCc
Q 002505 267 DSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (914)
Q Consensus 267 ~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 344 (914)
.-..+..+|++...++.| +++..++|.++|+++++. ...++.++..+||++.+++.|++++. +.
T Consensus 234 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~al~~~g----~~ 299 (343)
T PF13458_consen 234 -----QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGE-----EPPPSLYAAQGYDAARLLAQALERAG----SL 299 (343)
T ss_dssp -----HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSS-----TGGTCHHHHHHHHHHHHHHHHHHHHT----SH
T ss_pred -----HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCC-----CCCCchhHHHHHHHHHHHHHHHHHhC----CC
Confidence 112246888888888776 467889999999999952 12478899999999999999999862 11
Q ss_pred cccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEecc
Q 002505 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG 410 (914)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~~ 410 (914)
+++.+.++|++++|+|+.|++.|++.++.....+.|++++.
T Consensus 300 -------------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~ 340 (343)
T PF13458_consen 300 -------------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKS 340 (343)
T ss_dssp -------------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEET
T ss_pred -------------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEec
Confidence 38999999999999999999999876555788899999883
No 67
>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=100.00 E-value=4e-31 Score=280.54 Aligned_cols=337 Identities=14% Similarity=0.179 Sum_probs=248.7
Q ss_pred CCCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHH-HhcCcEEEEc-C
Q 002505 28 TIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTL-LENETVAIIG-P 104 (914)
Q Consensus 28 ~~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~-~~~~~a~~~a~~l-i~~~v~aiiG-p 104 (914)
..+..|+||+||+.. ...+.|+++|++.+|.+..++++.+++.++..-. .|++.+....|++ +.+||.||+| |
T Consensus 14 ~~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p 89 (382)
T cd06377 14 RIGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFP 89 (382)
T ss_pred hcCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecC
Confidence 345679999999966 3469999999999999988877889999887654 5999999999999 5999999999 4
Q ss_pred CCchHHHHHHHhhccCCccEEeeccCCCCC-ccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHH
Q 002505 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSL-SSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIA 183 (914)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~is~~a~~~~l-~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~ 183 (914)
.++..+..+..+|+..+||+|+++..++.. ++..+.+.+++.|+..+++.|+++++++|+|++|++||+.+....
T Consensus 90 ~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~---- 165 (382)
T cd06377 90 QTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT---- 165 (382)
T ss_pred CCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----
Confidence 888888999999999999999986654332 222223334669999999999999999999999999998776433
Q ss_pred HHHHHHhhcc-----cEEEEeeccCCC-CChhHH-HHHHHHhccCC-CeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 184 ALGDKLAEKR-----CRLSHKVPLSPK-GSRNQI-IDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 184 ~~~~~l~~~g-----~~v~~~~~~~~~-~~~~d~-~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
.|++.++..+ ..+... ..++. .+..++ .+.|+++++.. .++|++.|+.+.+..+++++.+ +|+||
T Consensus 166 ~lq~l~~~~~~~~~~~~i~v~-~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wI 238 (382)
T cd06377 166 GLLLLWTNHARFHLGSVLNLS-RNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWI 238 (382)
T ss_pred HHHHHHHHhcccccCceEEEE-eccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEE
Confidence 3444444332 222322 22211 134555 99999999999 9999999999999999988765 49999
Q ss_pred EeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 002505 256 VTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIG 335 (914)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~ 335 (914)
+++.. +.... .......|+++ |.+ . ......+++||||+++|.|++
T Consensus 239 v~~~~----~le~~---~~~g~nigLl~-----------------~~~-~---------~~~~l~ali~DAV~lvA~a~~ 284 (382)
T cd06377 239 LGDPL----PPEAL---RTEGLPPGLLA-----------------HGE-T---------TQPPLEAYVQDALELVARAVG 284 (382)
T ss_pred EcCCc----Chhhc---cCCCCCceEEE-----------------Eee-c---------ccccHHHHHHHHHHHHHHHHH
Confidence 98721 11010 00112223221 110 0 001227789999999999999
Q ss_pred Hhhh--cCCCccccCCccccccCCCCcccccc--c-ccCchHHHHHHHHhcccCCcccceEEccCCCC--CCCceEEEEe
Q 002505 336 AFFD--QGGNISFSEDSKLSELSRGDMRFSSV--S-IFNGGKMLLDNILQVNMTGVTGPIKFTSDRDL--INPAYEVINV 408 (914)
Q Consensus 336 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~--~~~~~~i~~~ 408 (914)
.+.. ....+ ..+..+|... . +|++|..|.++|++++|+|.||+|.| ++|.| .+..++|+++
T Consensus 285 ~l~~~~~~~~l-----------~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L 352 (382)
T cd06377 285 SATLVQPELAL-----------IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSL 352 (382)
T ss_pred Hhhhccccccc-----------CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEe
Confidence 8631 11111 1223477654 6 99999999999999999999999999 56888 7999999999
Q ss_pred c--ccc---eEEEEEecCCCCc
Q 002505 409 I--GTG---SRRIGYWSNHSGL 425 (914)
Q Consensus 409 ~--~~~---~~~vg~w~~~~~~ 425 (914)
+ ..| |++||.|++...+
T Consensus 353 ~~~~~G~~~W~kVG~W~~~~~~ 374 (382)
T cd06377 353 RRDPVGQPTWTTVGSWQGGRKI 374 (382)
T ss_pred ccccCCCccceEEEEecCCCce
Confidence 8 445 4999999987443
No 68
>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=6.9e-32 Score=293.92 Aligned_cols=317 Identities=12% Similarity=0.078 Sum_probs=261.5
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|+....|+++|+++||+.||+. |++|+++++|++++|..++.++++|+.+ +|++|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~-Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGIL-GREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCC-CceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 699999999 5668999999999999999999995 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
+.++.+++++.++|+|.++.... +...+|+||+.+++..++.++++++...+-+++++|+.|++||....+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999998644332 123489999999999999999998876545889999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC-CCCCeEEEEeCcccccccCCC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM-MESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~-~~~~~~~i~~~~~~~~~~~~~ 268 (914)
++.|++++....++ .+..|+++++.++++.++|+|++...+.+...+++++++.|+ ..+ .+........... .
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~-~ 230 (334)
T cd06356 157 EENGGEVVGEEFIP--LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEH-K 230 (334)
T ss_pred HHcCCEEEeeeecC--CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHH-h
Confidence 99999999988888 578999999999999999999999888889999999999998 322 2222111111000 0
Q ss_pred cCChhhhhhccceeEEEEecCC--cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
.-.....+|++....+.++ .+..++|.++|+++++. ...++.++..+||++++++.|++++.+.
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~p~~~~~~~~~y~a~~~~~~A~~~ag~~------ 296 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPD-----APYINEEAENNYEAIYLYKEAVEKAGTT------ 296 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCC-----CCCCCchhHHHHHHHHHHHHHHHHHCCC------
Confidence 0012456788777665443 57789999999999842 1123678899999999999999986321
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHh-cccCCcccceEEccCCC
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ-VNMTGVTGPIKFTSDRD 397 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~g~~G~v~f~~~g~ 397 (914)
+++.|.++|++ ..|+|+.|++.|+++++
T Consensus 297 -----------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 -----------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred -----------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 37899999997 57899999999997544
No 69
>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=5.3e-32 Score=295.40 Aligned_cols=329 Identities=14% Similarity=0.133 Sum_probs=268.9
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|..+..|+++|+++||+.||+. |++|+++++|++++|..+++++.+|+.+ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~-Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGIN-GVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcC-CeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 689999998 5668899999999999999999995 9999999999999999999999999988 788765 578888
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcC-----CeEEEEEEEeCCCccchHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFG-----WRNVIALYVDDDHGRNGIA 183 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~-----w~~v~ii~~d~~~g~~~~~ 183 (914)
+.++++++++.++|+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|++|+.|+.||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998877776664 5689999999999999999999987654 7999999999999999999
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
.+++.+++.|++|+....++ .+.+|+++++.++++.++|+|++...+.++..++++++++|+..+ |+.+.+....
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~ 233 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPP--PGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSGDE 233 (351)
T ss_pred HHHHHHHHcCCeeeeeccCC--CCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccCcH
Confidence 99999999999999988887 567999999999999999999999999999999999999998543 5554332211
Q ss_pred ccCCCcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcC
Q 002505 264 LDTDSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (914)
Q Consensus 264 ~~~~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~ 341 (914)
. . .....+..+|+++..++.+ +++..++|.+.|+++++..+. ....++.++..+||++++++.|++++.++.
T Consensus 234 ~-~----~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~-~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 234 E-D----VKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGN-DKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred H-H----HHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCC-cccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 1 1 0233456788888776654 578899999999998842111 012446789999999999999999997653
Q ss_pred CCccccCCccccccCCCCcccccccccCc------hHHHHHHHHhcccCCcccceEEccCCC
Q 002505 342 GNISFSEDSKLSELSRGDMRFSSVSIFNG------GKMLLDNILQVNMTGVTGPIKFTSDRD 397 (914)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------g~~l~~~l~~~~f~g~~G~v~f~~~g~ 397 (914)
.... ... -+.-++.+.+....|+.|++.|.+.-+
T Consensus 308 ~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 308 GETT----------------------IAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred CCCC----------------------CcHHHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 3110 110 123445666777889999999987433
No 70
>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=1e-31 Score=293.09 Aligned_cols=316 Identities=17% Similarity=0.173 Sum_probs=263.8
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|+| +..|+....|+++|++++|+.||+. |++|+++++|++++|..+++++.+|+.+ +|.+|||+.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGIL-GREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcC-CcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 699999998 4478899999999999999999995 9999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.++.++++ .++|+|++++.+.. ...+++||+.+++..++.++++++ +..+|++|++++.|+.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997544322 345899999999998888788765 5579999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC-cccccccCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD-WLSSILDTD 267 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~-~~~~~~~~~ 267 (914)
+++.|++|+....++ .+..|+++++.++++.++|+|++.....+...+++++++.|+..+ ++... .+......
T Consensus 156 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~~- 229 (333)
T cd06358 156 IAELGGEVVGEEYVP--LGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENMLL- 229 (333)
T ss_pred HHHcCCEEeeeeeec--CChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHHH-
Confidence 999999999988888 578999999999999999999998888888899999999999765 33222 12111100
Q ss_pred CcCChhhhhhccceeEEEEecC--CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 345 (914)
.......+|++....+.+ ..+..++|.++|+++|+. ....++.++..+||+++++++|++++..
T Consensus 230 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~----~~~~~~~~~~~~yda~~~~~~A~~~ag~------ 295 (333)
T cd06358 230 ----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGD----DAPPLNSLSESCYEAVHALAAAAERAGS------ 295 (333)
T ss_pred ----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCC----CCCCCChHHHHHHHHHHHHHHHHHHhCC------
Confidence 011234678777665544 567899999999999852 1234677889999999999999997421
Q ss_pred ccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCC
Q 002505 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRD 397 (914)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~ 397 (914)
. +++.|.++|++++|+|++|++.|++++.
T Consensus 296 ----------------------~-~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 ----------------------L-DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred ----------------------C-CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 1 2789999999999999999999998865
No 71
>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=8.7e-32 Score=295.03 Aligned_cols=323 Identities=18% Similarity=0.209 Sum_probs=263.8
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||++.|++ +..|.....|+++|++++|++||+. |++|+++++|++++|..+.+.+.+|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVL-GRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 699999998 4678889999999999999999994 9999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc--CCCCceEeccCCcHHHHHHHHHHH-HHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
+.++.++++..+||+|++.++++.+++ ..++|+||+.+++..++.++++++ ++.+|++|+++|.|++||+...+.++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998887776664 346899999999999999999986 55679999999999999999999999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (914)
+.+++.|++++....++ .+..|+++.+.+|++.++++|++.+...+...+++++++.|+..+ ++........ ..
T Consensus 160 ~~~~~~G~~v~~~~~~~--~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~ 233 (347)
T cd06335 160 AALAARGLKPVAVEWFN--WGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSGG-NF 233 (347)
T ss_pred HHHHHcCCeeEEEeeec--CCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcCc-hh
Confidence 99999999999888887 457899999999999999999999999999999999999998643 3322211111 11
Q ss_pred CCcCChhhhhhccceeEEEEec---CCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCC
Q 002505 267 DSQLHSEKMDDIQGVLTLRMYT---QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (914)
Q Consensus 267 ~~~~~~~~~~~~~G~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~ 343 (914)
. ....+...|++....+. ++++..++|.++|+++++..+.. ...++.++..+||+++++++|++++...
T Consensus 234 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~aYd~~~~l~~A~~~ag~~--- 305 (347)
T cd06335 234 I----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA-DIPAPVGAAHAYDAVHLLAAAIKQAGST--- 305 (347)
T ss_pred h----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc-ccCcchhHHHHHHHHHHHHHHHHHhcCC---
Confidence 0 12234567877665443 25678899999999998532111 1235666788999999999999986321
Q ss_pred ccccCCccccccCCCCcccccccccCchHHHHHHHHhc--ccCCcccc--eEEccCCC
Q 002505 344 ISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQV--NMTGVTGP--IKFTSDRD 397 (914)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~--~f~g~~G~--v~f~~~g~ 397 (914)
.++.+.++|+++ .+.|+.|. +.|++..+
T Consensus 306 --------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 306 --------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 157899999876 46777774 45765433
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=100.00 E-value=4.8e-31 Score=288.38 Aligned_cols=317 Identities=24% Similarity=0.326 Sum_probs=253.6
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLL-ENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~-~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 111 (914)
+||++++..+ ...+.|+++|++++|.+++++++..+.+.+.+.+ ++|..++..+|+++ .++|.+|+||.++..+.
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 4899998866 6788999999999999998877666666666554 89999999999999 67999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~ 190 (914)
+++++++.+++|+|+++++.+.+++ ..+++++|+.|++..++.++++++++++|+++++||+++++.... +.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l-~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRL-QELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHH-HHHHHhhc
Confidence 9999999999999999988887765 568999999999999999999999999999999999988843332 23333333
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccCCC-eEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMS-RILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~-~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
..+..+... .+. .+..+++..+.++++.++ ++|+.++....+..++++|+++||++++|+||.++......+.
T Consensus 157 ~~~~~v~~~-~~~--~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~--- 230 (328)
T cd06351 157 IKGIQVTVR-RLD--LDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL--- 230 (328)
T ss_pred ccCceEEEE-Eec--CCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch---
Confidence 334455544 444 233489999999999988 5555555559999999999999999999999999976655433
Q ss_pred CChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCC
Q 002505 270 LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 349 (914)
........|++++....+..+..+.|..+|.... +......+...+..+||+++++
T Consensus 231 --~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~d~~~~~------------------- 286 (328)
T cd06351 231 --EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEES---PGVNLRAPIYDAALLYDAVLLL------------------- 286 (328)
T ss_pred --hhhccCCcceEEEEEeCCCchHHHHHHHhhhhcc---CCCCcCccchhhHhhhcEEEEE-------------------
Confidence 3445667899999999999999999999993322 2222333444555566654222
Q ss_pred ccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEec-ccceEEEEEecC
Q 002505 350 SKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRIGYWSN 421 (914)
Q Consensus 350 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~vg~w~~ 421 (914)
||++.|+++|+|.++.++|++++ +.++++||.|++
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 88999999999999999999999 889999999984
No 73
>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=1.1e-30 Score=286.04 Aligned_cols=320 Identities=18% Similarity=0.242 Sum_probs=267.4
Q ss_pred EEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||+++|+++ ..|.....|+++|++++| +++ .|++++++++|+.+++..+.+.+.+|+.+ +|++|||+.+|..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 6999999994 456788999999999997 556 59999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccC-CCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSL-QYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~-~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.++.+.+++.++|+|++++..+.+++. .+|++||+.|++..++..+++++...+|+++++++.++.+|+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888999999999999998887777764 479999999999999999999999999999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
++ ..++....++ .+..|+.+++.++++.++|+|++...+..+..++++++++|+.. ...++.++.+......
T Consensus 158 ~~---~~~~~~~~~~--~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~-- 229 (333)
T cd06332 158 FK---GEVVEEVYTP--LGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL-- 229 (333)
T ss_pred hc---EEEeeEEecC--CCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH--
Confidence 87 4566566665 45678999999999999999999888889999999999999843 3446665543322111
Q ss_pred cCChhhhhhccceeEEEEecCC--cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccc
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 346 (914)
....+..+|++...++.++ ++..++|.++|+++++ ..++.++..+||++++++.|++++...
T Consensus 230 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~a~~~ag~~------ 293 (333)
T cd06332 230 ---PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG-------RVPSVYAAQGYDAAQLLDAALRAVGGD------ 293 (333)
T ss_pred ---HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHhcCC------
Confidence 2334567888888777663 5788999999999984 346788999999999999999986321
Q ss_pred cCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCC
Q 002505 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINP 401 (914)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~ 401 (914)
..+++.+.++|++++|+|++|++.|+++|+....
T Consensus 294 ---------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 ---------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred ---------------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 1126789999999999999999999999986433
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=100.00 E-value=4.2e-32 Score=293.72 Aligned_cols=375 Identities=21% Similarity=0.339 Sum_probs=302.3
Q ss_pred CCCCCeEEEEEEecCC-----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcE
Q 002505 27 STIPPVLNIGAVFALN-----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETV 99 (914)
Q Consensus 27 ~~~~~~i~IG~i~~~s-----~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~ 99 (914)
.....+..++.++|+. ...|+.+..|+++|++++|..+.+|||++++++.+|+.|++..+.++..+++.. ...
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ 115 (865)
T KOG1055|consen 36 TPSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKL 115 (865)
T ss_pred CCCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchh
Confidence 3444568888888886 344789999999999999999999999999999999999999999999999988 455
Q ss_pred EEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCc
Q 002505 100 AIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHG 178 (914)
Q Consensus 100 aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g 178 (914)
.++|+ |+..+..++..+..++.-+++|++++|.+++ +.+|++||+.|++.........++++++|++|+.++++..--
T Consensus 116 mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f 194 (865)
T KOG1055|consen 116 MLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVF 194 (865)
T ss_pred eeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhh
Confidence 66777 9999999999999999999999999999998 789999999999999999999999999999999999988877
Q ss_pred cchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 179 RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 179 ~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
..-.+.+...+.+.+++++.++.+. .|....+.+++..+.|+|+-..+...++++++++++.+|.+..|+|+...
T Consensus 195 ~~~~~dl~~~~~~~~ieiv~~qsf~-----~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 195 SSTLNDLEARLKEAGIEIVFRQSFS-----SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred cchHHHHHHhhhccccEEEEeeccc-----cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 7788888899999999999888776 45667789999999999999999999999999999999999999999887
Q ss_pred ccccccc-----CCCcCChhhhhhccceeEEEEec--CC------cHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHH
Q 002505 259 WLSSILD-----TDSQLHSEKMDDIQGVLTLRMYT--QS------SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYD 325 (914)
Q Consensus 259 ~~~~~~~-----~~~~~~~~~~~~~~G~~~~~~~~--~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YD 325 (914)
++..... ...+.-++...+++|.+++..-. +. .-...+|...+..+.+..+ .......++.++||
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~--~~~~~~~~~~~ayd 347 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP--EETGGFQEAPLAYD 347 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc--ccccCcccCchHHH
Confidence 6553322 21233467778899988885432 21 1123566666555443211 12344667889999
Q ss_pred HHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccc-cccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceE
Q 002505 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFS-SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYE 404 (914)
Q Consensus 326 av~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~ 404 (914)
|+|++|+|+++++...+..+.+ ..+.. ..+.+ ...+.++|.+++|+|++|.|.|+. |+|. ..-.
T Consensus 348 ~Iwa~ala~n~t~e~l~~~~~~-----------l~~f~y~~k~i--~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ 412 (865)
T KOG1055|consen 348 AIWALALALNKTMEGLGRSHVR-----------LEDFNYNNKTI--ADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTL 412 (865)
T ss_pred HHHHHHHHHHHHHhcCCcccee-----------ccccchhhhHH--HHHHHHHhhcccccccccceEecc-hhhH-HHHH
Confidence 9999999999987654321100 00111 11122 578999999999999999999976 9975 6678
Q ss_pred EEEecccceEEEEEecCCCC
Q 002505 405 VINVIGTGSRRIGYWSNHSG 424 (914)
Q Consensus 405 i~~~~~~~~~~vg~w~~~~~ 424 (914)
|-|++++.++++|+|+...+
T Consensus 413 ieQ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 413 IEQFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHHHhCCceEeecccccccc
Confidence 89999999999999987653
No 75
>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=99.97 E-value=3.9e-30 Score=282.69 Aligned_cols=330 Identities=14% Similarity=0.091 Sum_probs=260.1
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCc
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGG--TKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFS 107 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 107 (914)
|||++.|+| +.+|.....++++|++++|..+++ .| ++|+++++|++++|..+++++++|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 699999998 566888899999999999955444 45 589999999999999999999999987 99999999999
Q ss_pred hHHHHHHHhhccCCccEEeeccCCCCC-------ccCCCCceEeccCCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCcc
Q 002505 108 VIAHLVSHIANEFQVPLLSFAATDPSL-------SSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGR 179 (914)
Q Consensus 108 ~~~~~v~~~~~~~~ip~is~~a~~~~l-------~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~d~~~g~ 179 (914)
..+.++++++++.+||+|++.+..+.+ ....++|+||+.+++..+..+++.+++..+ .+++++++.|+.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999875542211 113478999999998888888888888877 999999999999999
Q ss_pred chHHHHH---HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 180 NGIAALG---DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 180 ~~~~~~~---~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
...+.++ +.+++.|++|+....++ .+.+|+++++.+|+++++|+|++.+.+.++..++++++++|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~ 234 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFE--PGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---IVT 234 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccC--CCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---eEE
Confidence 7766554 56777999999988888 567899999999999999999999999999999999999998765 343
Q ss_pred eC-cccccccCCCcCChhhhhhccceeEEEEecCCc--------HHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHH
Q 002505 257 TD-WLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSS--------EEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTL 327 (914)
Q Consensus 257 ~~-~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~--------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav 327 (914)
.. +.... ... ....+..+|++....+.|.. +..++|.++|+++++. .+...+.++||++
T Consensus 235 ~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~-------~~~~~~~~~~~~~ 302 (357)
T cd06337 235 IAKALLFP-EDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR-------QWTQPLGYAHALF 302 (357)
T ss_pred EeccccCH-HHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC-------CccCcchHHHHHH
Confidence 22 21110 010 12223456776655544432 3478999999999842 2344566799999
Q ss_pred HHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEE
Q 002505 328 WLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVIN 407 (914)
Q Consensus 328 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~ 407 (914)
++++.|++++... .+++.|.++|++++++++.|++.|+++ . .....|..
T Consensus 303 ~~l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~ 351 (357)
T cd06337 303 EVGVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTP 351 (357)
T ss_pred HHHHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C-Cccccccc
Confidence 9999999986321 137789999999999999999999865 2 23456666
Q ss_pred ecccc
Q 002505 408 VIGTG 412 (914)
Q Consensus 408 ~~~~~ 412 (914)
+.++.
T Consensus 352 ~~~~~ 356 (357)
T cd06337 352 LVGGQ 356 (357)
T ss_pred cccCC
Confidence 66654
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=2.9e-28 Score=267.09 Aligned_cols=318 Identities=14% Similarity=0.166 Sum_probs=258.5
Q ss_pred EEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
|+||++.|+| +..|.....|+++|+++||+.||+ .|+++++..+|+++|+..+.+.+.+|+++ +|++|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 6999999999 455788999999999999999998 59999999999999999999999999996 999999998888
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
.+.++.++++..++|+|++++.++.++....+++||+.+++...+..+++++.+.||+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 78888899999999999987666555433468999999999999999999999999999999999999999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|+++.....++ .+..|+.+++.++++.++|+|++......+..++++++++|+..+ ++......... .
T Consensus 160 ~~~~G~~~~~~~~~~--~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~~-~-- 231 (336)
T cd06326 160 LAARGLKPVATASYE--RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGADA-L-- 231 (336)
T ss_pred HHHcCCCeEEEEeec--CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHHH-H--
Confidence 999999988777776 456789999999999899999999988889999999999998653 22222221110 0
Q ss_pred cCChhhhhhccceeEEEEe----cCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCc
Q 002505 269 QLHSEKMDDIQGVLTLRMY----TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~----~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 344 (914)
........+|++....+ ..+.+..+.|.+.|+++++ ..+++.++..+||+++++++|++++..+
T Consensus 232 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~y~~~~~~~~a~~~~g~~---- 299 (336)
T cd06326 232 --ARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGP------GAPPSYVSLEGYIAAKVLVEALRRAGPD---- 299 (336)
T ss_pred --HHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCC------CCCCCeeeehhHHHHHHHHHHHHHcCCC----
Confidence 02233456777654321 2235778999999998774 2356677888999999999999985211
Q ss_pred cccCCccccccCCCCcccccccccCchHHHHHHHHhcccC-CcccceEEccC
Q 002505 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMT-GVTGPIKFTSD 395 (914)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~-g~~G~v~f~~~ 395 (914)
.+++.+.++|++++.. +..|.+.|++.
T Consensus 300 ------------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~ 327 (336)
T cd06326 300 ------------------------PTRESLLAALEAMGKFDLGGFRLDFSPG 327 (336)
T ss_pred ------------------------CCHHHHHHHHHhcCCCCCCCeEEecCcc
Confidence 1388999999998864 44458999764
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=1.4e-28 Score=267.46 Aligned_cols=302 Identities=16% Similarity=0.122 Sum_probs=244.4
Q ss_pred EEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
+||+++|+++ .+|.....|+++|++++| |++++++++|+.+ |..+..++.+|+.++|.+||||.+|..+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 6999999995 468888999999999999 6899999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHh
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~ 190 (914)
.++++++...++|+|+++++.+ +.. .+++||+.+++..++.++++++...|++++++++.+++||+...+.+++.++
T Consensus 73 ~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~ 149 (336)
T cd06339 73 AALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQ 149 (336)
T ss_pred HHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHH
Confidence 9999999999999999765543 222 5899999999999999999998888999999999999999999999999999
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC---------------------CCeEEEEEeChh-HHHHHHHHHHhcCCC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---------------------MSRILILHTYDI-WGLEVLNAAKHLRMM 248 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~---------------------~~~viil~~~~~-~~~~il~~a~~~g~~ 248 (914)
+.|++|+....++ .+..|++.++.+|++. ++|+|++.+.+. ++..+.++++..+..
T Consensus 150 ~~G~~vv~~~~~~--~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 227 (336)
T cd06339 150 QLGGTVVAIESYD--PSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGV 227 (336)
T ss_pred HcCCceeeeEecC--CCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccC
Confidence 9999999988888 6789999999999998 999999988886 777777777766531
Q ss_pred CCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCC-ChhHHHHHHHH
Q 002505 249 ESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGL-NSFGLYAYDTL 327 (914)
Q Consensus 249 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~YDav 327 (914)
..+-.+++++++...... ....+..+|++...+... ...+|.++|+++|+ ..| +.++..+|||+
T Consensus 228 ~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~~~---~~~~f~~~y~~~~~-------~~p~~~~~a~~YDa~ 292 (336)
T cd06339 228 PGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPPWL---LDANFELRYRAAYG-------WPPLSRLAALGYDAY 292 (336)
T ss_pred cCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCCcc---cCcchhhhHHHHhc-------CCCCchHHHHHHhHH
Confidence 112237777765543111 122345678766554221 22389999999884 345 78999999999
Q ss_pred HHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHHh-cccCCcccceEEccCCCC
Q 002505 328 WLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ-VNMTGVTGPIKFTSDRDL 398 (914)
Q Consensus 328 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~g~~G~v~f~~~g~~ 398 (914)
.+++.++++... + . +|.+ ..|+|++|++.|+++|+.
T Consensus 293 ~l~~~~~~~~~~-----------------------------~-~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 293 ALAAALAQLGQG-----------------------------D-A-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHHHHcccc-----------------------------c-c-----ccCCCCccccCcceEEECCCCeE
Confidence 999887776310 0 1 3333 468999999999999974
No 78
>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=5.1e-28 Score=260.82 Aligned_cols=298 Identities=14% Similarity=0.106 Sum_probs=231.4
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHHHHhhccCCccEE
Q 002505 46 GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLL 125 (914)
Q Consensus 46 g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~i 125 (914)
+.....|+++|+|+||+.||++ |++|+++..|. ++|..+++.+.+|++++|.+|+|+.+|..+.++.+++++.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4567899999999999999997 99999999985 789999999999998899999999999999999999999999999
Q ss_pred eeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCC
Q 002505 126 SFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSP 204 (914)
Q Consensus 126 s~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~ 204 (914)
+++++++.++. .+++|+||+.|++..++.++++++...+.+++++|+.|++||....+.+++.+++.|++|+..+.++.
T Consensus 88 ~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 167 (347)
T TIGR03863 88 NAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTF 167 (347)
T ss_pred eCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEecc
Confidence 99999998886 56799999999999999999999877799999999999999999999999999999999999888874
Q ss_pred CC--ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhcccee
Q 002505 205 KG--SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVL 282 (914)
Q Consensus 205 ~~--~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~ 282 (914)
.. ..+|++......+.+++|+|++.....+....+.... +...+ . ....|+.
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~~~~---~---------------------~g~~G~~ 221 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WLPRP---V---------------------AGSAGLV 221 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--ccccc---c---------------------ccccCcc
Confidence 31 1234443222233478999998765543322111000 00000 0 1112332
Q ss_pred EEEE-ecCCcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcc
Q 002505 283 TLRM-YTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMR 361 (914)
Q Consensus 283 ~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (914)
.... +..+.+..++|.++|+++|+ ..|+.++..+||+|++++.|++++.+.
T Consensus 222 ~~~~~~~~~~~~~~~f~~~f~~~~g-------~~p~~~~a~aY~av~~~a~Ai~~AGs~--------------------- 273 (347)
T TIGR03863 222 PTAWHRAWERWGATQLQSRFEKLAG-------RPMTELDYAAWLAVRAVGEAVTRTRSA--------------------- 273 (347)
T ss_pred ccccCCcccchhHHHHHHHHHHHhC-------CCCChHHHHHHHHHHHHHHHHHHhcCC---------------------
Confidence 2111 22234667899999999984 345777889999999999999997322
Q ss_pred cccccccCchHHHHHHHHhccc--CCccc-ceEEcc-CCCCCCCceEEEEe
Q 002505 362 FSSVSIFNGGKMLLDNILQVNM--TGVTG-PIKFTS-DRDLINPAYEVINV 408 (914)
Q Consensus 362 ~~~~~~~~~g~~l~~~l~~~~f--~g~~G-~v~f~~-~g~~~~~~~~i~~~ 408 (914)
+++++.++|+++++ ++..| +++|.+ ||+...+ ..+.+.
T Consensus 274 --------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~~-~~~~~~ 315 (347)
T TIGR03863 274 --------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQP-VLLVHP 315 (347)
T ss_pred --------CHHHHHHHHcCCCceecccCCCcceeeCCCcccccc-eEeccc
Confidence 38999999999887 47877 699986 7776544 344333
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=5.3e-27 Score=257.28 Aligned_cols=317 Identities=14% Similarity=0.094 Sum_probs=254.4
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||+++|++ +..|.....|+++|++++|+.||+ .|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi-~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGI-AGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCc-CCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 699999998 467889999999999999999998 49999999999999999999999999998 9999999998887
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (914)
...+ +.+++.++|+|+++++++.+.. .++.|++.+++..++.++++++...+.+++++++.++. ||+...+.+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7666 8889999999998777665543 47889999999999999999998889999999987765 999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc-ccccccCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW-LSSILDTD 267 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~-~~~~~~~~ 267 (914)
+++.|++++....++ .+..|+..++.++++.++|+|++......+..++++++++|+..+ .+.... ..... .
T Consensus 157 ~~~~G~~v~~~~~~~--~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~---~~~~~~~~~~~~-~- 229 (341)
T cd06341 157 LAAAGVSVAGIVVIT--ATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPK---VVLSGTCYDPAL-L- 229 (341)
T ss_pred HHHcCCccccccccC--CCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCC---EEEecCCCCHHH-H-
Confidence 999999988776766 356889999999999999999999888899999999999999766 222221 11110 0
Q ss_pred CcCChhhhhhccceeEEEEecC---CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHHHHHHHhhhcCCCc
Q 002505 268 SQLHSEKMDDIQGVLTLRMYTQ---SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (914)
Q Consensus 268 ~~~~~~~~~~~~G~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 344 (914)
+...+..+|++....+.| +.+..+.|.+.+++.... .+.+++.++..+||+++++++|++++...
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~----~~~~~~~~~~~~yda~~~~~~a~~~ag~~---- 297 (341)
T cd06341 230 ----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQ----LDPPEQGFALIGYIAADLFLRGLSGAGGC---- 297 (341)
T ss_pred ----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCC----CCCCcchHHHHHHHHHHHHHHHHHhcCCC----
Confidence 233456889888877765 357778887766543311 12367889999999999999999996321
Q ss_pred cccCCccccccCCCCcccccccccCchHH-HHHHHHhcccCCccc---ceEEccCCC
Q 002505 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKM-LLDNILQVNMTGVTG---PIKFTSDRD 397 (914)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-l~~~l~~~~f~g~~G---~v~f~~~g~ 397 (914)
.+++. +.++|++++.....| .+.+.+++.
T Consensus 298 ------------------------~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~ 330 (341)
T cd06341 298 ------------------------PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPG 330 (341)
T ss_pred ------------------------CChHHHHHHHhhcCCCCCCCCcccCccCccCCC
Confidence 12666 999999997554444 344434443
No 80
>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=99.95 E-value=3.6e-26 Score=247.28 Aligned_cols=279 Identities=20% Similarity=0.246 Sum_probs=230.6
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
|||+++|+| +..|.....|+++|+++||+ ||+ +|+++++++.|+++++..+.+.+.+|+.+ +|++|||+.++..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi-~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGI-GGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 699999999 56688889999999999999 888 59999999999999999999999999986 9999999988887
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
+.++.+.+...++|+|+++++++.+. ...+++||+.+++...+..+++++...||++|++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88888999999999999877654333 34579999999999999999999999999999999998899999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
++.|+++.....++ .+..++...+.+++..++|+|++......+..+++++++.|+..+ ++++++.... ..
T Consensus 158 ~~~G~~v~~~~~~~--~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~-~~--- 228 (312)
T cd06333 158 PKYGIEVVADERYG--RTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASP-DF--- 228 (312)
T ss_pred HHcCCEEEEEEeeC--CCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcH-HH---
Confidence 99999998777776 345678899999988889999999888888889999999998765 4444332221 11
Q ss_pred CChhhhhhccceeEEEEe------cC----CcHHHHHHHHHHHHhhccCCCCCCCCCChhHHHHHHHHHHHH
Q 002505 270 LHSEKMDDIQGVLTLRMY------TQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLA 331 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a 331 (914)
.+...+..+|++.+..+ .| .++..++|.++|+++++ ..+++.++..+|||+++++
T Consensus 229 -~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g------~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 229 -LRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYG------AGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred -HHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhC------CCCCCchhHHHHHHHHHHH
Confidence 02334567887765422 22 24568999999999884 2237788999999999998
No 81
>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=2.9e-26 Score=246.97 Aligned_cols=224 Identities=33% Similarity=0.481 Sum_probs=205.9
Q ss_pred EEEEEecCCC-----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 002505 34 NIGAVFALNS-----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-----ETVAIIG 103 (914)
Q Consensus 34 ~IG~i~~~s~-----~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-----~v~aiiG 103 (914)
+||+++|.+. ..+.....++..|++++|+. ++|+++++.++|+++++..+...+.+++++ ++.+|+|
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999875 34567789999999999988 479999999999999999999999999974 8999999
Q ss_pred CCCchHHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchH
Q 002505 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGI 182 (914)
Q Consensus 104 p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~ 182 (914)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|++++++....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999888876 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccc
Q 002505 183 AALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSS 262 (914)
Q Consensus 183 ~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 262 (914)
+.+++.+++.|+++.....++ ....++...+++++..++++||+++.+.++..++++++++||+ .+++||.++.+..
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~--~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~ 234 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIP--DGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLWLT 234 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcC--CCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChhhc
Confidence 999999999999999988887 4558999999999999999999999999999999999999999 8999999987654
Q ss_pred c
Q 002505 263 I 263 (914)
Q Consensus 263 ~ 263 (914)
.
T Consensus 235 ~ 235 (298)
T cd06269 235 S 235 (298)
T ss_pred c
Confidence 3
No 82
>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=99.95 E-value=6.1e-26 Score=244.50 Aligned_cols=280 Identities=26% Similarity=0.343 Sum_probs=236.8
Q ss_pred EEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 002505 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 109 (914)
+||+++|+++ ..|.....|+++|++++|+++|+ +|+++++++.|+++++..+...+.+++++ +|++||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 5999999984 56788999999999999999977 59999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
+.+++.+++..++|+|++.+.++.+.. ..+|++|++.|++..++..+++++++++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 889999999999999999887776654 4679999999999999999999999999999999999998999999999999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (914)
+++.|+++.....++ .+.+++...+.++++.++++|++++.+..+..+++++++.|+. .++.|++.+.+......
T Consensus 160 ~~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~-- 234 (299)
T cd04509 160 FKKKGGTVVGEEYYP--LGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL-- 234 (299)
T ss_pred HHHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH--
Confidence 999999998776666 3447888999999888899999998889999999999999998 78899998876543221
Q ss_pred cCChhhhhhccceeEEEEecCCc--HHHHHHH---HHHHHhhccCCCCCCCCCChhHHHHHHHHHH
Q 002505 269 QLHSEKMDDIQGVLTLRMYTQSS--EEKRKFV---TRWRHLTRRNTLNGPIGLNSFGLYAYDTLWL 329 (914)
Q Consensus 269 ~~~~~~~~~~~G~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~ 329 (914)
....+...|++++.++.+.. +..+.|. ..++..+ ..+++.++..+|||+++
T Consensus 235 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ---EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY-------EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ---HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh-------CCCCChhhhhhcceeee
Confidence 23346678988888776543 2333333 3333333 34678899999999988
No 83
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.93 E-value=2.1e-24 Score=232.37 Aligned_cols=280 Identities=25% Similarity=0.294 Sum_probs=237.3
Q ss_pred EEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
+||+++|++ +..|.....|+++|++++|+.||+ +|++++++++|+++++..+.+.+.++++++|++||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999998 567889999999999999999988 5999999999999999999999999999999999999999888
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC-CeEEEEEEEeCCCccchHHHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGRNGIAALGDKL 189 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~v~ii~~d~~~g~~~~~~~~~~l 189 (914)
..+.+.+...+||+|++.+.++.+.+..++++|++.+++..++.++++++...+ |+++++++.++.++....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 889999999999999998887766544578999999999999999999998887 9999999999999999999999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccccccCCCc
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (914)
++.|+++.....++ .+..++...+.++++.++++|++.+.+..+..+++++++.|+. ..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~--- 231 (298)
T cd06268 160 KKLGGEVVAEETYP--PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLK---VPIVGGDGAAAPALL--- 231 (298)
T ss_pred HHcCCEEEEEeccC--CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCC---CcEEecCccCCHHHH---
Confidence 99999998877776 3457889999999988999999998889999999999999983 447777765433211
Q ss_pred CChhhhhhccceeEEEEecCC--cHHHHHHH-HHHHHhhccCCCCCCCCCChhHHHHHHHHHHHH
Q 002505 270 LHSEKMDDIQGVLTLRMYTQS--SEEKRKFV-TRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLA 331 (914)
Q Consensus 270 ~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a 331 (914)
+...+...|+++..++.+. .+....|. +.|++.+ ..+++.++..+||++++++
T Consensus 232 --~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 --ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY-------GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred --HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh-------CCCcccchHHHHHHHHHHc
Confidence 2234567888888877654 33445555 7777766 3567889999999999998
No 84
>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=99.92 E-value=7.4e-23 Score=210.81 Aligned_cols=323 Identities=15% Similarity=0.176 Sum_probs=247.9
Q ss_pred hhHHHHHHHHHHHHhcCCCCCCCcEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEcCCCchHHHH
Q 002505 47 KVAKVAIEAAVEDVNSNPAILGGTKLKL----------TVHDTNY--SRFLGMVEALTLLEN--ETVAIIGPQFSVIAHL 112 (914)
Q Consensus 47 ~~~~~a~~~Ave~iN~~~~~l~g~~l~l----------~~~D~~~--~~~~a~~~a~~li~~--~v~aiiGp~~s~~~~~ 112 (914)
+....|++.|++.+++.. ..+|.++.+ +..+.+| +.=+++++..+|..+ .-++++||.|.-.+-+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 466899999999997754 336777777 6666555 345788888888876 6889999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH------HHcCCeEEEEEEEeCCCccc---hHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV------DYFGWRNVIALYVDDDHGRN---GIA 183 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l------~~~~w~~v~ii~~d~~~g~~---~~~ 183 (914)
++++...+++|+||-++..-+. ...+++-|+.|+....+..+.++. ++++|++.. ||.++.-.++ .++
T Consensus 97 ~~~~~~~~~~P~ISaGsfglsc--d~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFGLSC--DYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccccCC--CchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999977654333 334589999999999999999998 488998665 8877643332 356
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCccccc
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (914)
++....+..+..+....... +.+++..++++++ .++||||+++.+.+.+.++.+ ++...+|++|..|.....
T Consensus 174 al~a~~~~f~~~~~~~~~l~---~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~~s 245 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR---TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFNDV 245 (380)
T ss_pred hhhhhhhhhhhcccceeeec---CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEecccch
Confidence 66666666665555444443 4578888888876 569999999999999999886 444579999999877654
Q ss_pred ccCCCcCChhhhhhccceeEEEEecCCcHHHHHHHHHHHHhhccCCCCCCCCCC-hhHHHHHHHHHHHHHHHHHhhhcCC
Q 002505 264 LDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLN-SFGLYAYDTLWLLAHAIGAFFDQGG 342 (914)
Q Consensus 264 ~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~~~YDav~~~a~Al~~~~~~~~ 342 (914)
+.. +....++++.++.+++..|+.+.+++. ..+ +.... .+++..||||+++|+||+++++.++
T Consensus 246 y~~----d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f-------n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~ 309 (380)
T cd06369 246 YYE----NTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD-------NSLLKDDYVAAYHDGVLLFGHVLKKFLESQE 309 (380)
T ss_pred hcc----CcchHHHHhceEEEecCCCCCcccccC-----CCC-------CcchHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 421 134456789999998888766544331 111 12222 8899999999999999999988765
Q ss_pred CccccCCccccccCCCCcccccccccCchHHHHHHHHhcccCCcccceEEccCCCCCCCceEEEEec--ccceEEEEEec
Q 002505 343 NISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI--GTGSRRIGYWS 420 (914)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~g~~G~v~f~~~g~~~~~~~~i~~~~--~~~~~~vg~w~ 420 (914)
+. ++..+.+.|+|.+|+|++|+|.+|+|||| ..+|.++.+. .++++.||.++
T Consensus 310 ~~-------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~ 363 (380)
T cd06369 310 GV-------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFD 363 (380)
T ss_pred CC-------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEE
Confidence 42 14889999999999999999999999997 6999998876 46799999998
Q ss_pred CCC
Q 002505 421 NHS 423 (914)
Q Consensus 421 ~~~ 423 (914)
...
T Consensus 364 t~~ 366 (380)
T cd06369 364 TST 366 (380)
T ss_pred CCC
Confidence 754
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.87 E-value=3e-21 Score=200.74 Aligned_cols=218 Identities=25% Similarity=0.435 Sum_probs=187.1
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
..+|+|++.. +|+||.+.+ ++.+.|+++|+++++++++|.++++. + .+|.+++.++.+|++|+++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTLK--P-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEEE--e-------CCHHHHHHHHhCCCcCEEEec
Confidence 4579999875 789998764 57899999999999999999665554 3 349999999999999999888
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCch
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQI 628 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (914)
++.+++|.+.++||.||+..++.+++++..
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 120 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANN-------------------------------------------------- 120 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCC--------------------------------------------------
Confidence 899999999999999999999999997655
Q ss_pred hhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchh
Q 002505 629 GTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFA 708 (914)
Q Consensus 629 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~ 708 (914)
..+++++||. |++||+..|+..
T Consensus 121 --------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~~ 142 (247)
T PRK09495 121 --------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTGS 142 (247)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCchH
Confidence 4688999995 889999999988
Q ss_pred hhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eEEEeccccccccceeeecCCCC
Q 002505 709 ENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EFSIIGQEFTRIGWGFAFPRDSP 786 (914)
Q Consensus 709 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~sp 786 (914)
..++... .+..+++.+++.++.+++|.+ |++|+++.+.....+++++.. ++..++......+++++++|++.
T Consensus 143 ~~~l~~~--~~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 216 (247)
T PRK09495 143 VDYAKAN--IKTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSE 216 (247)
T ss_pred HHHHHhc--CCCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHH
Confidence 8888542 334567778899999999999 999999999988888777642 56677666666788999999999
Q ss_pred ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 787 LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 787 l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+++.||++|.++.++|.+++|.++|+.
T Consensus 217 l~~~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 217 LREKVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHcC
Confidence 999999999999999999999999987
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.86 E-value=1.3e-20 Score=200.20 Aligned_cols=223 Identities=19% Similarity=0.294 Sum_probs=185.9
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHH----HCCC-cccEEEeeCCCCCCCCChHHHHHHHHhCccc
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLE----LLPY-AVPYKLVPFGDGHNSPKRFDLLRLVSEEVYD 543 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~----~l~~-~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~D 543 (914)
...|+||+.. .|+||.+.++ ++.+.||++|+++.|++ ++|. .+++++++ .+|..++..|..|++|
T Consensus 39 ~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 3569999987 7999998765 67899999997777665 6653 35677777 3488899999999999
Q ss_pred EEeeceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCC
Q 002505 544 AAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGP 623 (914)
Q Consensus 544 i~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~ 623 (914)
|+++++++|++|.+.++||.||...+..+++++..
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~--------------------------------------------- 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG--------------------------------------------- 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC---------------------------------------------
Confidence 99989999999999999999999999999997653
Q ss_pred CCCchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEE
Q 002505 624 PRRQIGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQ 703 (914)
Q Consensus 624 ~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~ 703 (914)
.|++++||. |++||+.
T Consensus 144 --------------------------------------------------------------~i~sl~dL~--Gk~V~v~ 159 (302)
T PRK10797 144 --------------------------------------------------------------DIKDFADLK--GKAVVVT 159 (302)
T ss_pred --------------------------------------------------------------CCCChHHcC--CCEEEEe
Confidence 478899995 8899999
Q ss_pred eCchhhhhhhhhcC--CCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhc--C-ceEEEeccccccccce
Q 002505 704 RGSFAENYLTDELN--IDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLST--R-CEFSIIGQEFTRIGWG 778 (914)
Q Consensus 704 ~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~--~-~~l~~~~~~~~~~~~~ 778 (914)
.|+....++..... .+..+++.+.+.++.+++|.. |++|+++.+...+.+.+.+ . ..++++++.+...+++
T Consensus 160 ~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~ 235 (302)
T PRK10797 160 SGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYG 235 (302)
T ss_pred CCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCcee
Confidence 99998888753221 123567788999999999999 9999999998776554333 2 2578888777777899
Q ss_pred eeecCCCC-ChhhHHHHHHhhhccCchHHHHHHHcCC
Q 002505 779 FAFPRDSP-LAVDMSIAILELSENGDLQRIHDKWLTR 814 (914)
Q Consensus 779 ~~~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~~ 814 (914)
++++|+++ +++.+|.+|.+++++|.+++|.++|+..
T Consensus 236 ~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 236 CMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 99999887 9999999999999999999999999984
No 87
>PRK11260 cystine transporter subunit; Provisional
Probab=99.85 E-value=4.7e-20 Score=193.90 Aligned_cols=221 Identities=23% Similarity=0.407 Sum_probs=188.5
Q ss_pred CCceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 468 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
..++|+||+.. .|+||.+.+. ++.+.|+.+|+++.+++++|.++++.. ..|.+++.++.+|++|++++
T Consensus 39 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~e~~~---------~~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKASLKP---------TKWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCeEEEEe---------CCHHHHHHHHhcCCCCEEEe
Confidence 45689999876 7899987764 788999999999999999997655543 34999999999999999988
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
+++.+++|.+.+.||.||...++.+++++...
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~------------------------------------------------ 138 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGNE------------------------------------------------ 138 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCCc------------------------------------------------
Confidence 88899999999999999999999998876541
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF 707 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~ 707 (914)
..+++++||. ++++|+..|+.
T Consensus 139 ---------------------------------------------------------~~~~~~~dL~--g~~Igv~~G~~ 159 (266)
T PRK11260 139 ---------------------------------------------------------GTIKTAADLK--GKKVGVGLGTN 159 (266)
T ss_pred ---------------------------------------------------------CCCCCHHHcC--CCEEEEecCCc
Confidence 3578899994 88999999998
Q ss_pred hhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCce-EEEeccccccccceeeecCCCC
Q 002505 708 AENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCE-FSIIGQEFTRIGWGFAFPRDSP 786 (914)
Q Consensus 708 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~k~sp 786 (914)
...++.+ ..+..++..+++..+++++|.+ |++|+++.+...+.+++.+... +.+....+...++++++++++|
T Consensus 160 ~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~ 233 (266)
T PRK11260 160 YEQWLRQ--NVQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNP 233 (266)
T ss_pred HHHHHHH--hCCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCH
Confidence 8888855 3444567788999999999999 9999999999888887776543 5555566667789999999888
Q ss_pred -ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 787 -LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 787 -l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
++..||++|.++.++|.++++.++|+.
T Consensus 234 ~l~~~ln~~l~~~~~~g~~~~i~~k~~~ 261 (266)
T PRK11260 234 DLLKAVNQAIAEMQKDGTLKALSEKWFG 261 (266)
T ss_pred HHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999999987
No 88
>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=99.84 E-value=1.7e-20 Score=192.75 Aligned_cols=221 Identities=29% Similarity=0.421 Sum_probs=183.6
Q ss_pred EEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEE
Q 002505 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (914)
Q Consensus 472 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~ 551 (914)
||||+.. .|+||.+.+. ++...|+++|+++++++++|+++++...+ |.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 6899966 7899999886 88999999999999999999876666544 9999999999999999989999
Q ss_pred ecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhhH
Q 002505 552 TTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGTI 631 (914)
Q Consensus 552 ~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 631 (914)
+++|.+.++||.||.....++++++....
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999974310
Q ss_pred HHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhhhh
Q 002505 632 LWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAENY 711 (914)
Q Consensus 632 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~~ 711 (914)
....+++++||. +.++|+..|+...++
T Consensus 98 ---------------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 98 ---------------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADY 124 (225)
T ss_dssp ---------------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHH
T ss_pred ---------------------------------------------------ccccccchhhhc--CcccccccchhHHHH
Confidence 014677888994 789999999988888
Q ss_pred hhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eEEEeccccccccceeeecCCCC-Ch
Q 002505 712 LTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EFSIIGQEFTRIGWGFAFPRDSP-LA 788 (914)
Q Consensus 712 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~sp-l~ 788 (914)
+.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++.. ............+++++++++.+ ++
T Consensus 125 l~~~~~~-~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 199 (225)
T PF00497_consen 125 LKQQYPS-NINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELL 199 (225)
T ss_dssp HHHHTHH-TSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHH
T ss_pred hhhhccc-hhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHH
Confidence 8653211 3567788999999999999 999999999999999988754 23332455556677777776555 99
Q ss_pred hhHHHHHHhhhccCchHHHHHHHcC
Q 002505 789 VDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 789 ~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+.||++|.+|.++|.+++|.+||++
T Consensus 200 ~~~n~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 200 EIFNKAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCcHHHHHHHHHcC
Confidence 9999999999999999999999986
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.84 E-value=9.6e-20 Score=190.80 Aligned_cols=222 Identities=18% Similarity=0.314 Sum_probs=178.5
Q ss_pred CCceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 468 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
..++|+|++.. .|+||.+.++ ++.+.|+++||++++++.+|.++++.. ..|+.++.++..|++|++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~~~---------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTWVA---------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEEEe---------CCHHHHHHHHHCCCCCEEEe
Confidence 35789999885 6899999765 688999999999999999996655543 34999999999999999988
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
.+..+++|.+.++||.||+.+..++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999988765
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF 707 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~ 707 (914)
+...+++||. |++||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs~ 143 (260)
T PRK15010 123 ---------------------------------------------------------PIQPTLDSLK--GKHVGVLQGST 143 (260)
T ss_pred ---------------------------------------------------------CCCCChhHcC--CCEEEEecCch
Confidence 2233678995 88999999998
Q ss_pred hhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHH-HHhcC--ceEEEecccc-----cccccee
Q 002505 708 AENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEV-FLSTR--CEFSIIGQEF-----TRIGWGF 779 (914)
Q Consensus 708 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~--~~l~~~~~~~-----~~~~~~~ 779 (914)
...++.........+++.+.+.++++++|.+ |++|+++.+...+.+ +..+. .++...+..+ ...++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (260)
T PRK15010 144 QEAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGV 219 (260)
T ss_pred HHHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEE
Confidence 7777754332222456677888999999999 999999999877654 33432 2355544322 2234578
Q ss_pred eecCCCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 780 AFPRDSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 780 ~~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+++++.+ ++..||++|.++.++|.+++|.+||+.
T Consensus 220 a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 220 GLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred EEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9998876 999999999999999999999999997
No 90
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.83 E-value=2.3e-19 Score=186.82 Aligned_cols=218 Identities=18% Similarity=0.303 Sum_probs=178.8
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHC-CCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l-~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
.++|+||+.. +++||.+.+..++++.||++|+++++++++ |..+++++++ .+|.....+|.+|++|++++
T Consensus 37 ~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 107 (259)
T PRK11917 37 KGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVIA 107 (259)
T ss_pred CCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEEe
Confidence 4679999987 899998865436899999999999999995 7655566665 34777789999999999999
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
.+++|++|.+.++||.||+.++.++++++..
T Consensus 108 ~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------- 138 (259)
T PRK11917 108 TFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------- 138 (259)
T ss_pred cccCChhhhheeeeccCceeeceEEEEECCC-------------------------------------------------
Confidence 9999999999999999999999999998754
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF 707 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~ 707 (914)
.+++++||. |++||+..|+.
T Consensus 139 ----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs~ 158 (259)
T PRK11917 139 ----------------------------------------------------------NYKSLADMK--GANIGVAQAAT 158 (259)
T ss_pred ----------------------------------------------------------CCCCHHHhC--CCeEEEecCCc
Confidence 478899996 89999999998
Q ss_pred hhhhhhhhcC--CCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccccccccceeeecCCC
Q 002505 708 AENYLTDELN--IDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQEFTRIGWGFAFPRDS 785 (914)
Q Consensus 708 ~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s 785 (914)
..+.+.+... ....+++.+++..+.+++|.. |++|+++.+...+.++..+. ..++++.+...+++++++|++
T Consensus 159 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~~--~~~~~~~~~~~~~~~a~~k~~ 232 (259)
T PRK11917 159 TKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDDK--SEILPDSFEPQSYGIVTKKDD 232 (259)
T ss_pred HHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhcC--CeecCCcCCCCceEEEEeCCC
Confidence 7776643221 112355678889999999999 99999999988766655442 345666677778999999998
Q ss_pred C-ChhhHHHHHHhhhccCchHHHHHHHc
Q 002505 786 P-LAVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 786 p-l~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
+ ++..+|+.|.++.. .+++|.+||-
T Consensus 233 ~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 233 PAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 8 99999999999865 7999999994
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.83 E-value=1.9e-19 Score=187.00 Aligned_cols=217 Identities=20% Similarity=0.393 Sum_probs=179.3
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
..+|||++.. .|+||.+.+. ++.+.|+++|+++.+++++|.++++.. ..|..++.++.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~---------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTFSN---------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEEEe---------CCHHHHhHHHhCCCcCEEEEc
Confidence 4679999975 7899988764 788999999999999999997755543 449999999999999999888
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCch
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQI 628 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (914)
+..+++|.+.++||.||+..+.+++.+.
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~---------------------------------------------------- 115 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQ---------------------------------------------------- 115 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeC----------------------------------------------------
Confidence 8899999999999999999887776543
Q ss_pred hhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchh
Q 002505 629 GTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFA 708 (914)
Q Consensus 629 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~ 708 (914)
..+++++||. +.+||+..|+..
T Consensus 116 --------------------------------------------------------~~~~~~~dL~--g~~Igv~~g~~~ 137 (243)
T PRK15007 116 --------------------------------------------------------GKYTSVDQLK--GKKVGVQNGTTH 137 (243)
T ss_pred --------------------------------------------------------CCCCCHHHhC--CCeEEEecCcHH
Confidence 2357789995 889999999988
Q ss_pred hhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccc-----cccccceeeecC
Q 002505 709 ENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQE-----FTRIGWGFAFPR 783 (914)
Q Consensus 709 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k 783 (914)
.+++.+. .+..+++.+.+.++.+++|.+ |++|+++.+...+.+++.+..++..++.. ....++++++++
T Consensus 138 ~~~l~~~--~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (243)
T PRK15007 138 QKFIMDK--HPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQ 211 (243)
T ss_pred HHHHHHh--CCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeC
Confidence 8888652 344567778899999999999 99999999988888877776655554432 223357899998
Q ss_pred CCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 784 DSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 784 ~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+.+ ++..||++|.++.++|.++++.++|+.
T Consensus 212 ~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 212 GNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 776 999999999999999999999999985
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.83 E-value=2.3e-19 Score=187.46 Aligned_cols=218 Identities=23% Similarity=0.421 Sum_probs=182.7
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+|++.. .|+||.+.++ ++++.|+++|+++.+++.+|.++ ++++ .+|..++.++.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~--~~~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAKC--KFVE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCeE--EEEe-------CCHHHHHHHHhCCCcCEEEecC
Confidence 679999965 7899988765 78999999999999999999664 4444 4599999999999999998888
Q ss_pred EEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchh
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIG 629 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (914)
..+++|.+.+.||.|++..+..+++++..
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 88999999999999999999999988765
Q ss_pred hHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhh
Q 002505 630 TILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAE 709 (914)
Q Consensus 630 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~ 709 (914)
+.+.+++||. |+++|+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~ 143 (250)
T TIGR01096 121 -------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHE 143 (250)
T ss_pred -------------------------------------------------------CcCCChHHcC--CCEEEEecCchHH
Confidence 3346788995 8899999999888
Q ss_pred hhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc---eEEEecccccc-----ccceeee
Q 002505 710 NYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC---EFSIIGQEFTR-----IGWGFAF 781 (914)
Q Consensus 710 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~---~l~~~~~~~~~-----~~~~~~~ 781 (914)
.++.+.+.. ..+++.+.+.++++++|.+ |++|+++.+...+.+++++.. ++.+++..+.. ..+++++
T Consensus 144 ~~l~~~~~~-~~~~~~~~s~~~~~~~L~~----g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 218 (250)
T TIGR01096 144 QYLKDYFKP-GVDIVEYDSYDNANMDLKA----GRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGL 218 (250)
T ss_pred HHHHHhccC-CcEEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEE
Confidence 888654321 3456778899999999999 999999999999888877643 36666544332 2478999
Q ss_pred cCCCC-ChhhHHHHHHhhhccCchHHHHHHHc
Q 002505 782 PRDSP-LAVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 782 ~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
+++++ ++..||++|.+|.++|.+++|.+||+
T Consensus 219 ~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 219 RKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred eCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 99887 99999999999999999999999995
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.82 E-value=5.9e-19 Score=184.75 Aligned_cols=221 Identities=17% Similarity=0.316 Sum_probs=176.8
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
..+|+|++.. .|+||.+.++ ++++.|+++|+++++++++|.++++... .|+.++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 4679999874 6889988765 6889999999999999999977666544 39999999999999999988
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCch
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQI 628 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (914)
++.+++|.+.++||.||...+.++++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS-------------------------------------------------- 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999988755
Q ss_pred hhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchh
Q 002505 629 GTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFA 708 (914)
Q Consensus 629 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~ 708 (914)
+...+++||. |++||+..|+..
T Consensus 123 --------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~~ 144 (259)
T PRK15437 123 --------------------------------------------------------DIQPTVESLK--GKRVGVLQGTTQ 144 (259)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCcHH
Confidence 2234688984 889999999988
Q ss_pred hhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHH-HHhcC--ceEEEec-----cccccccceee
Q 002505 709 ENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEV-FLSTR--CEFSIIG-----QEFTRIGWGFA 780 (914)
Q Consensus 709 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~--~~l~~~~-----~~~~~~~~~~~ 780 (914)
..++.........+++.+.+.++.+++|.. |++|+++.+.....+ +..+. .++.+.+ +.+...+++++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia 220 (259)
T PRK15437 145 ETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMG 220 (259)
T ss_pred HHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEE
Confidence 777754322223456778899999999999 999999998876653 33332 2343332 22223346788
Q ss_pred ecCCCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 781 FPRDSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 781 ~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
++++.+ +++.+|.+|.+|..+|.+++|.+||+.
T Consensus 221 ~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~ 254 (259)
T PRK15437 221 LRKEDNELREALNKAFAEMRADGTYEKLAKKYFD 254 (259)
T ss_pred EeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcC
Confidence 887766 999999999999999999999999997
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=99.80 E-value=9.5e-19 Score=184.70 Aligned_cols=222 Identities=19% Similarity=0.236 Sum_probs=179.0
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCc-ccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYA-VPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~-~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
-+.|+|++. +|+||.+.+. ++++.|+++||++++++.+|.+ +++.. .+|+.++..+.+|++|++++
T Consensus 32 ~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~~ 98 (275)
T TIGR02995 32 QGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIAA 98 (275)
T ss_pred CCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEee
Confidence 356999986 5789988754 6789999999999999999965 33433 45999999999999999988
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
+++++++|.+.++||.||+.+.+++++++...
T Consensus 99 ~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 130 (275)
T TIGR02995 99 GLFIKPERCKQVAFTQPILCDAEALLVKKGNP------------------------------------------------ 130 (275)
T ss_pred cccCCHHHHhccccccceeecceeEEEECCCC------------------------------------------------
Confidence 88999999999999999999999999887651
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhh-CCCCeEEEeCc
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVA-SSDPIGYQRGS 706 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~~~i~~~~~s 706 (914)
..+++++||.. .+.+||+..|+
T Consensus 131 ---------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g~ 153 (275)
T TIGR02995 131 ---------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGGG 153 (275)
T ss_pred ---------------------------------------------------------CCCCCHHHhccCCCceEEEeCCc
Confidence 34778888853 36789999999
Q ss_pred hhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eEEEeccc-ccc--ccceeee
Q 002505 707 FAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EFSIIGQE-FTR--IGWGFAF 781 (914)
Q Consensus 707 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~-~~~--~~~~~~~ 781 (914)
...+++.+ .+.+..+++.+++.++.+++|.+ |++|+++.+...+.+++++.. ++..+... ..+ ..+++++
T Consensus 154 ~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 228 (275)
T TIGR02995 154 TEEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAF 228 (275)
T ss_pred HHHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEE
Confidence 98888854 33444567788999999999999 999999999998888876532 34433221 111 2237888
Q ss_pred cCCCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 782 PRDSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 782 ~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+++++ +++.||++|.++.++|.+++|.++|--
T Consensus 229 ~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~~ 261 (275)
T TIGR02995 229 RPEDKELRDAFNVELAKLKESGEFAKIIAPYGF 261 (275)
T ss_pred CCCCHHHHHHHHHHHHHHHhChHHHHHHHHhCC
Confidence 88776 999999999999999999999999943
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.76 E-value=1.3e-17 Score=188.87 Aligned_cols=221 Identities=16% Similarity=0.187 Sum_probs=176.0
Q ss_pred CCceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 468 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
+.++|||++.. .|+.+.+. ++...||++|+++++++++|.++++... .+|+.++.+|.+|++|++++
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEec
Confidence 35679999975 23333332 2334999999999999999977555422 56999999999999999988
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
++++|++|.+.++||.||+....++++++..
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------- 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------- 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999988765
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF 707 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~ 707 (914)
..+++++||. |++|++..|+.
T Consensus 139 ---------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS~ 159 (482)
T PRK10859 139 ---------------------------------------------------------PRPRSLGDLK--GGTLTVAAGSS 159 (482)
T ss_pred ---------------------------------------------------------CCCCCHHHhC--CCeEEEECCCc
Confidence 5688999996 89999999998
Q ss_pred hhhhhhhhc-CCCCCC--cccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccccccccceeeecC-
Q 002505 708 AENYLTDEL-NIDKSR--LVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQEFTRIGWGFAFPR- 783 (914)
Q Consensus 708 ~~~~l~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k- 783 (914)
..+.+.+.. ..+..+ .+.+.+.++++++|.+ |++|+++.+...+.+......++.+........+++++++|
T Consensus 160 ~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k~ 235 (482)
T PRK10859 160 HVETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPPS 235 (482)
T ss_pred HHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeCC
Confidence 887774311 112222 3446789999999999 99999999988776654445566655444455678999999
Q ss_pred CCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 784 DSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 784 ~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+.+ |+..+|++|.++.++|.+++|.+||+.
T Consensus 236 ~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 236 GDDSLYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred CCHHHHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 455 999999999999999999999999997
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.72 E-value=1.4e-16 Score=203.93 Aligned_cols=215 Identities=13% Similarity=0.226 Sum_probs=177.5
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+|++.. .|+||.+.+. +|++.||++|+++.|++++|.+ ++++++ .+|..++.++.+|++|++.+ +
T Consensus 302 ~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~-~ 369 (1197)
T PRK09959 302 PDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG-A 369 (1197)
T ss_pred CceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec-c
Confidence 469999887 7999999875 7899999999999999999955 555553 45888899999999998854 6
Q ss_pred EEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchh
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIG 629 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (914)
..+++|.+.++||.||+..++++++++..
T Consensus 370 ~~t~~r~~~~~fs~py~~~~~~~v~~~~~--------------------------------------------------- 398 (1197)
T PRK09959 370 IYSEDRENNVLFAEAFITTPYVFVMQKAP--------------------------------------------------- 398 (1197)
T ss_pred cCCccccccceeccccccCCEEEEEecCC---------------------------------------------------
Confidence 67999999999999999999999987543
Q ss_pred hHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhh
Q 002505 630 TILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAE 709 (914)
Q Consensus 630 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~ 709 (914)
..+. ++. .|++||+..|+...
T Consensus 399 -------------------------------------------------------~~~~---~~~-~g~~vav~~g~~~~ 419 (1197)
T PRK09959 399 -------------------------------------------------------DSEQ---TLK-KGMKVAIPYYYELH 419 (1197)
T ss_pred -------------------------------------------------------CCcc---ccc-cCCEEEEeCCcchH
Confidence 1122 222 48899999999888
Q ss_pred hhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eE-EEeccccccccceeeecCCCC
Q 002505 710 NYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EF-SIIGQEFTRIGWGFAFPRDSP 786 (914)
Q Consensus 710 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l-~~~~~~~~~~~~~~~~~k~sp 786 (914)
+++.+. .+..+++.+++.++++++|.+ |++|+++.+...+.|+++++. .+ ......+....++|+++|+.|
T Consensus 420 ~~~~~~--~p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~ 493 (1197)
T PRK09959 420 SQLKEM--YPEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEP 493 (1197)
T ss_pred HHHHHH--CCCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCH
Confidence 888653 345688899999999999999 999999999999999887742 22 333344455678999999988
Q ss_pred -ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 787 -LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 787 -l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
|...+|++|..+.++ .+++|.+||+.
T Consensus 494 ~L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 494 ELKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred HHHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 999999999999998 68899999987
No 97
>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=99.70 E-value=2.8e-16 Score=162.69 Aligned_cols=208 Identities=16% Similarity=0.190 Sum_probs=155.5
Q ss_pred eEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHH---HHHHhCcccEEee
Q 002505 471 HLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLL---RLVSEEVYDAAVG 547 (914)
Q Consensus 471 ~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~---~~l~~g~~Di~~~ 547 (914)
+||||+.. .|+||.+.+ . .||++|++++|++++|.++ ++++ .+|++++ ..|.+|++|+++
T Consensus 1 ~l~vg~~~--~~pPf~~~~--~---~Gfdvdl~~~ia~~lg~~~--~~~~-------~~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKD--G---SGFENKIAAALAAAMGRKV--VFVW-------LAKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeCC--CCCCCccCC--C---CcchHHHHHHHHHHhCCCe--EEEE-------eccchhhHHHHHHhcCCccEEE-
Confidence 48999987 899999864 1 6999999999999999664 4444 3477765 699999999998
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
.++++++| ++||.||+.++.++++++...
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 48888777 679999999999999987651
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHH--hhhCCC-CeEEEe
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQS--LVASSD-PIGYQR 704 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~d--L~~~~~-~i~~~~ 704 (914)
..+++++| |. |+ +||+..
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~ 113 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIF 113 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhc--cCceEEEec
Confidence 24677765 64 87 999999
Q ss_pred CchhhhhhhhhcCCC-----CCCcccCC---------CHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC-ceEE--E
Q 002505 705 GSFAENYLTDELNID-----KSRLVPLN---------TAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR-CEFS--I 767 (914)
Q Consensus 705 ~s~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~--~ 767 (914)
|+..+.++++..... ..+++.+. +.++.+++|.. |++|+++.+...+.+++.+. ..+. .
T Consensus 114 gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~~~~~~~~~ 189 (246)
T TIGR03870 114 GSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKASPEPLRMTV 189 (246)
T ss_pred CChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhCCCCceEEe
Confidence 999998886421110 01112221 35788999999 99999999877766666543 2233 2
Q ss_pred ecccc-------c--cccceeeecCCCC-ChhhHHHHHHhhhccCchHHHHHHH
Q 002505 768 IGQEF-------T--RIGWGFAFPRDSP-LAVDMSIAILELSENGDLQRIHDKW 811 (914)
Q Consensus 768 ~~~~~-------~--~~~~~~~~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~ 811 (914)
+++.. . ..+++++++|+.+ |++.||++|.+|. |.+++|.++|
T Consensus 190 ~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 190 IPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 33221 1 1135899999998 9999999999999 4899999998
No 98
>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=99.69 E-value=3.1e-16 Score=165.02 Aligned_cols=229 Identities=16% Similarity=0.170 Sum_probs=164.5
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHC-CCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l-~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
.++|+++.. .||||.+.+. ++...|+..++++++++.+ ++++++... .|++++.++ .|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~~---------pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVRV---------SFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEEC---------CHHHHHHHH-hcCCCeEEe
Confidence 468988876 6889988754 6788999999999999998 866555554 499999999 788888877
Q ss_pred ceEEecCcceeeeeccceee-cceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCC
Q 002505 548 DFAITTERTKMVDFTQPYIE-SGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRR 626 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~-~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (914)
++++|++|.+.++||.||.. ...++++++..... .
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~------------------------------------------- 118 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-V------------------------------------------- 118 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-c-------------------------------------------
Confidence 89999999999999999975 56888887654100 0
Q ss_pred chhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhh-CCCCeEEEeC
Q 002505 627 QIGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVA-SSDPIGYQRG 705 (914)
Q Consensus 627 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~~~i~~~~~ 705 (914)
..+.....++.+|.+ .|+++|+..|
T Consensus 119 ------------------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv~~g 144 (268)
T TIGR02285 119 ------------------------------------------------------RDEQDGDVDLKKLLASKKKRLGVIAS 144 (268)
T ss_pred ------------------------------------------------------cccCCCCccHHHHhcCCCeEEEEecc
Confidence 000010012333321 3678999988
Q ss_pred chhhhhhhhh---cCC-CCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC----ceEEEecccc--ccc
Q 002505 706 SFAENYLTDE---LNI-DKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR----CEFSIIGQEF--TRI 775 (914)
Q Consensus 706 s~~~~~l~~~---~~~-~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~----~~l~~~~~~~--~~~ 775 (914)
+.....+.+. ... ...++..+.+.++.+++|.. |++|+++.+...+.+++++. ..+...+... ...
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (268)
T TIGR02285 145 RSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHI 220 (268)
T ss_pred eeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccce
Confidence 7654333221 111 11234556777889999999 99999999999888887642 1344443221 223
Q ss_pred cceeeecCCC---CChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 776 GWGFAFPRDS---PLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 776 ~~~~~~~k~s---pl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
+++++++|+. .+++.||++|.+|.++|.+++|.+||+.
T Consensus 221 ~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 221 SVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 5788999874 3999999999999999999999999997
No 99
>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=99.68 E-value=1.8e-18 Score=164.21 Aligned_cols=107 Identities=31% Similarity=0.560 Sum_probs=81.8
Q ss_pred chhHHHHHHHHHHHHHHhhhheecccCCCCCC-------CCCCchhhHHHHHHHHhhhcC-ccccccchhhHHHHHHHHH
Q 002505 591 TPKMWCVTGIFFLVVGVVVWILEHRLNDDFRG-------PPRRQIGTILWFSFSTLFFSH-KERTVNSLSRLVLIIWLFV 662 (914)
Q Consensus 591 ~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~~~~~w~~~ 662 (914)
++++|++++++++++++++|++++..+..++. ....++.+++|++++++++|+ ...|++.+.|++.++|+++
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 57899999999999999999999977766554 123457899999999999775 4589999999999999999
Q ss_pred HhhhhccccceeeeeeecccccCCCCChHHhhhCC
Q 002505 663 VLILTSSYTASLTSILTVEQLSSPIKDIQSLVASS 697 (914)
Q Consensus 663 ~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 697 (914)
+++++++|+|+|+|+||.|+.+++|+|++||.+++
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 99999999999999999999999999999998765
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.67 E-value=2.1e-15 Score=160.15 Aligned_cols=224 Identities=25% Similarity=0.354 Sum_probs=181.2
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
...++|++... ..+||.+.+.+.+.+.||++|+++.+++.++......++. ..|++++..+..|++|+.+..
T Consensus 33 ~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~~ 104 (275)
T COG0834 33 RGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIAG 104 (275)
T ss_pred cCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEec
Confidence 45688888852 4568988876336999999999999999998653344443 469999999999999999999
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCch
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQI 628 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (914)
+++|++|.+.++||.||+..+..+++++...
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------- 135 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------- 135 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCC-------------------------------------------------
Confidence 9999999999999999999999999987761
Q ss_pred hhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch-
Q 002505 629 GTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF- 707 (914)
Q Consensus 629 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~- 707 (914)
..+.+++||. |+++|+..|+.
T Consensus 136 --------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~~ 157 (275)
T COG0834 136 --------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTTD 157 (275)
T ss_pred --------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcch
Confidence 2378899996 89999999998
Q ss_pred -hhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHH--HhcCce-EEEecccccc-ccceeeec
Q 002505 708 -AENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVF--LSTRCE-FSIIGQEFTR-IGWGFAFP 782 (914)
Q Consensus 708 -~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~--~~~~~~-l~~~~~~~~~-~~~~~~~~ 782 (914)
...+... ......++.+++..+.+++|.. |++|+++.+...+.++ ..+... .......... .+++++++
T Consensus 158 ~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (275)
T COG0834 158 EAEEKAKK--PGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALR 231 (275)
T ss_pred hHHHHHhh--ccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEec
Confidence 4444322 2334677889999999999999 9999999999988883 333332 2233333333 68899999
Q ss_pred CC--CCChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 783 RD--SPLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 783 k~--spl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
|+ ..+++.+|..|.++.++|.++++.++|+.
T Consensus 232 ~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 232 KGDDPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred cCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 99 46999999999999999999999999997
No 101
>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=99.66 E-value=3.4e-15 Score=152.01 Aligned_cols=214 Identities=29% Similarity=0.518 Sum_probs=176.5
Q ss_pred EEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEE
Q 002505 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (914)
Q Consensus 472 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~ 551 (914)
|+|++.. .++||.+.+. ++.+.|++.|+++.+.+++|.+ +++++ ..|.+++.++.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5788877 7889988764 8899999999999999999955 55554 339999999999999999887777
Q ss_pred ecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhhH
Q 002505 552 TTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGTI 631 (914)
Q Consensus 552 ~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 631 (914)
+.+|...+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 888988999999999999999998765
Q ss_pred HHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhhhh
Q 002505 632 LWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAENY 711 (914)
Q Consensus 632 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~~ 711 (914)
++.+++||. |+++++..|+....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 455889995 889999988877777
Q ss_pred hhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC-ceEEEeccc--cccccceeeecCCCC-C
Q 002505 712 LTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR-CEFSIIGQE--FTRIGWGFAFPRDSP-L 787 (914)
Q Consensus 712 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~~~k~sp-l 787 (914)
+.+... ...+..+.+.++.++.|.+ |++|+++.+.....+...+. +++.++... ..+..++++.+++++ +
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 193 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKEL 193 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHH
Confidence 755332 3456778889999999999 89999999999888877665 677776653 334455666677764 9
Q ss_pred hhhHHHHHHhhhccCchHHHHHHHc
Q 002505 788 AVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 788 ~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
.+.|+++|.+++++|.++.+.++|+
T Consensus 194 ~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 194 LDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHHHHhCccHHHHHHhhC
Confidence 9999999999999999999999996
No 102
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.65 E-value=1.4e-15 Score=194.84 Aligned_cols=221 Identities=12% Similarity=0.148 Sum_probs=182.1
Q ss_pred CCceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 468 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
+.++|+||+.. +|+|+.+..+.+|++.||.+|+++.+++.+|.+ +++++. .+|++++.++++|++|++.+
T Consensus 54 ~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~ 123 (1197)
T PRK09959 54 SKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLS 123 (1197)
T ss_pred hCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecC
Confidence 45679999987 555544432237899999999999999999955 666653 47999999999999999988
Q ss_pred ceEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCc
Q 002505 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQ 627 (914)
Q Consensus 548 ~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (914)
.++.+++|.+.++||.||+....++++++..
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------------- 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC-------------------------------------------------
Confidence 8899999999999999999999999988754
Q ss_pred hhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002505 628 IGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF 707 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~ 707 (914)
.+++++|+. ++++++..|+.
T Consensus 155 ----------------------------------------------------------~~~~~~~l~--~~~i~~~~g~~ 174 (1197)
T PRK09959 155 ----------------------------------------------------------SMRPLTSSK--PVNIARVANYP 174 (1197)
T ss_pred ----------------------------------------------------------CCCCccccc--CeEEEEeCCCC
Confidence 456667774 78899999999
Q ss_pred hhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eEEEeccc-cccccceeeecCC
Q 002505 708 AENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EFSIIGQE-FTRIGWGFAFPRD 784 (914)
Q Consensus 708 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~-~~~~~~~~~~~k~ 784 (914)
..+++++ .++..+++.+++.++++++|.+ |++|+++.+...+.|+++++. .+.+++.. .......++++|+
T Consensus 175 ~~~~~~~--~~p~~~i~~~~s~~~al~av~~----G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 248 (1197)
T PRK09959 175 PDEVIHQ--SFPKATIISFTNLYQALASVSA----GQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKE 248 (1197)
T ss_pred CHHHHHH--hCCCCEEEeCCCHHHHHHHHHc----CCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCC
Confidence 8888866 3456789999999999999999 999999999999999888743 45554332 2233456888999
Q ss_pred CC-ChhhHHHHHHhhhccCchHHHHHHHcCC
Q 002505 785 SP-LAVDMSIAILELSENGDLQRIHDKWLTR 814 (914)
Q Consensus 785 sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~~ 814 (914)
.| |...+|++|..+.++|.. +|.+||+..
T Consensus 249 ~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 249 SVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred cHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 88 999999999999999966 999999973
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.64 E-value=7.3e-15 Score=149.50 Aligned_cols=215 Identities=26% Similarity=0.477 Sum_probs=178.9
Q ss_pred eEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceE
Q 002505 471 HLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFA 550 (914)
Q Consensus 471 ~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 550 (914)
+|+||+.. .++||...+. ++.+.|+.+|+++.+.+.+|.+ +++.+ ..|..++.++.+|++|+++....
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 47899974 7889988764 7789999999999999999955 55544 35999999999999999988776
Q ss_pred EecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhh
Q 002505 551 ITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGT 630 (914)
Q Consensus 551 ~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 630 (914)
.+.+|...+.++.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 6788888899999999999888887654
Q ss_pred HHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhhh
Q 002505 631 ILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAEN 710 (914)
Q Consensus 631 ~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~ 710 (914)
++++++||. |+++++..|+....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 578999995 88999998888777
Q ss_pred hhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC--ceEEEecccccc-ccceeeecCCCC-
Q 002505 711 YLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR--CEFSIIGQEFTR-IGWGFAFPRDSP- 786 (914)
Q Consensus 711 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~~~~k~sp- 786 (914)
++... ....++..+.+..+.+.+|.. |++|+++...+...+...+. ..+.++...... ..++++++++++
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPE 193 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHH
Confidence 77542 223466777888999999999 89999999999888877664 567776665554 778999999987
Q ss_pred ChhhHHHHHHhhhccCchHHHHHHHc
Q 002505 787 LAVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 787 l~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
+.+.+++.|.++.++|.++++.++|+
T Consensus 194 ~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 194 LLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHHHHhCchHHHHHhccC
Confidence 99999999999999999999999985
No 104
>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=99.62 E-value=3.4e-14 Score=149.88 Aligned_cols=217 Identities=21% Similarity=0.281 Sum_probs=178.8
Q ss_pred EEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
+||+++|.+ ..++.....|++.|++++ |..+++.+.|+++++....+.+.+++.++++++||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 566677788888888886 4678889999999998889999999988999999998887776
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC-CCccchHHHHHHHHh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDKLA 190 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~-~~g~~~~~~~~~~l~ 190 (914)
.+...+...++|+|++....+... .+++++++.+++...+..+++++.+.+|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 678888999999999877765543 46889999999999999999999999999999999877 677788899999999
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC-CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCcccc
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM-MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSS 262 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 262 (914)
+.|.++......+. ....++......++.. ++++|++.+. ..+..+++++.+.|+.+.++.|++.+.+..
T Consensus 151 ~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~ 221 (269)
T cd01391 151 KAGIEVVAIEYGDL-DTEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPA 221 (269)
T ss_pred hcCcEEEeccccCC-CccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccccc
Confidence 99877765444432 1225677777777776 7888888777 889999999999999855677787766543
No 105
>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=99.61 E-value=2e-14 Score=148.20 Aligned_cols=210 Identities=15% Similarity=0.170 Sum_probs=158.1
Q ss_pred EEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEE
Q 002505 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (914)
Q Consensus 472 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~ 551 (914)
|||++.. .|+||.+.+ ..|+++||++++++++|.++++...++ .+..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe----
Confidence 7888886 788987632 369999999999999998766665542 2444567899999999876
Q ss_pred ecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhhH
Q 002505 552 TTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGTI 631 (914)
Q Consensus 552 ~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 631 (914)
+++|.+.++||.||...++++++++...
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~---------------------------------------------------- 91 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSL---------------------------------------------------- 91 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCc----------------------------------------------------
Confidence 5778889999999999999999987641
Q ss_pred HHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhhhh
Q 002505 632 LWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAENY 711 (914)
Q Consensus 632 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~~ 711 (914)
..+++++|+.-.+.+||+..|+...++
T Consensus 92 -----------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~~ 118 (232)
T TIGR03871 92 -----------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAHW 118 (232)
T ss_pred -----------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHHH
Confidence 357788883224889999999988888
Q ss_pred hhhhcCCCCCCcc---------cCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC-ceEEEecccc------ccc
Q 002505 712 LTDELNIDKSRLV---------PLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR-CEFSIIGQEF------TRI 775 (914)
Q Consensus 712 l~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~------~~~ 775 (914)
+.+. +.. .++. ...+.++.+++|.. |++|+++.+...+.++.++. ..+.+..... ...
T Consensus 119 l~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (232)
T TIGR03871 119 LARH-GLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDY 192 (232)
T ss_pred HHhc-Ccc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccc
Confidence 7542 211 1211 13467899999999 99999999988888877653 2344433221 233
Q ss_pred cceeeecCCCC-ChhhHHHHHHhhhccCchHHHHHHHc
Q 002505 776 GWGFAFPRDSP-LAVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 776 ~~~~~~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
+++++++++.+ ++..||++|.++.+ .+++|.+||.
T Consensus 193 ~~~~~~~~~~~~l~~~~n~~l~~~~~--~~~~i~~kyg 228 (232)
T TIGR03871 193 RIAMGVRKGDKAWKDELNAVLDRRQA--EIDAILREYG 228 (232)
T ss_pred eEEEEEecCCHHHHHHHHHHHHHHHH--HHHHHHHHcC
Confidence 56888898877 99999999999864 6999999995
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=99.36 E-value=4.2e-11 Score=135.68 Aligned_cols=234 Identities=15% Similarity=0.125 Sum_probs=136.4
Q ss_pred CCeEEEEEEecCCCcc---chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002505 30 PPVLNIGAVFALNSTI---GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF 106 (914)
Q Consensus 30 ~~~i~IG~i~~~s~~~---g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 106 (914)
..+-+|++++|+++.. |...+.|+..|. ++.. +...++.++|+..++.. ....+.+.+|++.||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~~--~~~~~a~~~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSAD--ALYQQAVADGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-HH--HHHHHHHHTT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCHH--HHHHHHHHcCCCEEEcCCC
Confidence 3456899999999654 567788888877 2221 35668899998877433 3466677789999999999
Q ss_pred chHHHHHHHhhcc--CCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHH
Q 002505 107 SVIAHLVSHIANE--FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (914)
Q Consensus 107 s~~~~~v~~~~~~--~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 184 (914)
-.....++..-.. -.||++.....+..-. -+.++..+-+..+.+..+++.+..-|+++..+|+.++++|....++
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~~---~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNSQA---PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcccC---ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 9988887766552 4899998766654311 2456666666678899999999999999999999999999999999
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc-cccc
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW-LSSI 263 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~-~~~~ 263 (914)
|.+.++..|+.+.....+. ...++...+..-.+.+.|.|++.+.+.+++.+--...-. . ..+--.+.+.. +...
T Consensus 365 F~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~-a~~lPvyatS~~~~g~ 439 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-F-AGDLPVYATSRSYSGS 439 (536)
T ss_dssp HHHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T--TT-EEEE-GGG--HH
T ss_pred HHHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-c-CCCCCEEEeccccCCC
Confidence 9999999998887666665 457888888866667899999999988887665555432 1 12222333332 2211
Q ss_pred ccCCCcCChhhhhhccceeEEEE
Q 002505 264 LDTDSQLHSEKMDDIQGVLTLRM 286 (914)
Q Consensus 264 ~~~~~~~~~~~~~~~~G~~~~~~ 286 (914)
.++.....+.|+..+..
T Consensus 440 ------~~~~~~~dL~gv~f~d~ 456 (536)
T PF04348_consen 440 ------PNPSQDRDLNGVRFSDM 456 (536)
T ss_dssp ------T-HHHHHHTTT-EEEE-
T ss_pred ------CCcchhhhhcCCEEecc
Confidence 11445567899887764
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.34 E-value=7.4e-12 Score=116.47 Aligned_cols=123 Identities=33% Similarity=0.558 Sum_probs=106.5
Q ss_pred CCCChHHhhhC-CCCeEEEeCchhhhhhhhhcCCC---------CCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhH
Q 002505 686 PIKDIQSLVAS-SDPIGYQRGSFAENYLTDELNID---------KSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYM 755 (914)
Q Consensus 686 ~i~s~~dL~~~-~~~i~~~~~s~~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 755 (914)
+|++++||..+ +.++|+..|++.+.++++..... ..+++.+++..+++.+|.. |+ ||++.+.+.+
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----g~-da~v~d~~~~ 75 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRV----SN-YAFLMESTYL 75 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHc----CC-CEEEeehHhH
Confidence 47899999743 36899999999999986532210 0256678999999999999 89 9999999999
Q ss_pred HHHHhcCceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 756 EVFLSTRCEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 756 ~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
.++..+.|++.+++..+...+++++++|+++|++.+|.+|.+|.++|.++++.++|+.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 76 DYELSQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HHHHhCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 9988888999999888888899999999999999999999999999999999999985
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.25 E-value=6.6e-11 Score=119.37 Aligned_cols=220 Identities=17% Similarity=0.177 Sum_probs=174.6
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
...|||++.+ .|..+... ++...|+++++.+.+++.||.+ ....+. ..-+.++.+|.+|++|+++.+
T Consensus 22 rGvLrV~tin----sp~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTIN----SPLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeec----Cccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 3469999997 34444443 5566799999999999999955 444442 457899999999999999999
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCch
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQI 628 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (914)
+...++|.+.+.....|+..++.++.++..
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~-------------------------------------------------- 118 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQ-------------------------------------------------- 118 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCC--------------------------------------------------
Confidence 999999999999999999999999988877
Q ss_pred hhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchh
Q 002505 629 GTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFA 708 (914)
Q Consensus 629 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~ 708 (914)
...+++++|. |..+.+..|+..
T Consensus 119 --------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~~ 140 (473)
T COG4623 119 --------------------------------------------------------YRPRSLGQLK--GRQITVAKGSAH 140 (473)
T ss_pred --------------------------------------------------------CCCCCHHHcc--CceeeccCCcHH
Confidence 4567889996 777888888875
Q ss_pred hhhhhh--hcCCCC--CCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccccccccceeeecCC
Q 002505 709 ENYLTD--ELNIDK--SRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQEFTRIGWGFAFPRD 784 (914)
Q Consensus 709 ~~~l~~--~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~ 784 (914)
.+-++. ...++. .+.-.-.+.++.++.+.. |..+..+.++..+..+.+-++++.+.-..-...+.++.+|.+
T Consensus 141 ~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i~P~laVafd~tde~~v~Wy~~~~ 216 (473)
T COG4623 141 VEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRVHPELAVAFDLTDEQPVAWYLPRD 216 (473)
T ss_pred HHHHHHHHHhhcchhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHhCccceeeeecccccCceeeccCC
Confidence 554432 112221 112222467899999999 899999999998888877777777765555567889999985
Q ss_pred C--CChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 785 S--PLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 785 s--pl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
. .|...++..+..+.|.|.++++++||++
T Consensus 217 dd~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 217 DDSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred chHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 4 4999999999999999999999999996
No 109
>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=98.87 E-value=1.3e-07 Score=99.52 Aligned_cols=202 Identities=12% Similarity=0.062 Sum_probs=145.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.+ .........+++.+.++. | +++.+.|+..++....+.+.+++.++++++|+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g--~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------G--YQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------C--CeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999986 455566777777777762 3 35667788888888888888999889999887665544443
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
....+...++|+|.+....+. .++++++...+...+..+++++...+.++++++..+.. ++....+.+++.++
T Consensus 71 ~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 71 IVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALK 145 (264)
T ss_pred HHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHH
Confidence 567788899999998766542 24567788888889999999998889999999986554 55666889999998
Q ss_pred hcc-cEEEEeeccCCCCChhHHHHHHHHhccCC--CeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 191 EKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 191 ~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+.| ..+....... .+..+....+.++.+.. +++|+.. ....+..+++++++.|+..++.+
T Consensus 146 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i 208 (264)
T cd01537 146 EAGPIEIVLVQEGD--WDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDI 208 (264)
T ss_pred HcCCcChhhhccCC--CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCe
Confidence 877 4333222222 34556667777776665 5555544 33567778999999998644433
No 110
>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=98.84 E-value=3.3e-08 Score=103.30 Aligned_cols=198 Identities=16% Similarity=0.111 Sum_probs=138.4
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+.. .++|+. +.+...++.+.+++++|.++++. .. ++|+.++..+..|++|+++.+.
T Consensus 32 ~~l~vg~~~--~~~~~~--------~~~~~~~l~~~l~~~~g~~v~~~--~~------~~~~~~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 32 KELNFGILP--GENASN--------LTRRWEPLADYLEKKLGIKVQLF--VA------TDYSAVIEAMRFGRVDIAWFGP 93 (254)
T ss_pred CceEEEECC--CCCHHH--------HHHHHHHHHHHHHHHhCCcEEEE--eC------CCHHHHHHHHHcCCccEEEECc
Confidence 469999986 444432 23456789999999999665444 32 4699999999999999998655
Q ss_pred EEec---Ccceeeeeccceeec------ceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCC
Q 002505 550 AITT---ERTKMVDFTQPYIES------GLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDF 620 (914)
Q Consensus 550 ~~~~---~r~~~~dft~p~~~~------~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~ 620 (914)
.... +|....+|+.|+... ...+++++.
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d------------------------------------------- 130 (254)
T TIGR01098 94 SSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKAD------------------------------------------- 130 (254)
T ss_pred HHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECC-------------------------------------------
Confidence 4332 566667788775533 235555543
Q ss_pred CCCCCCchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCe
Q 002505 621 RGPPRRQIGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPI 700 (914)
Q Consensus 621 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 700 (914)
.+|++++||. |++|
T Consensus 131 ----------------------------------------------------------------~~i~~~~dL~--gk~I 144 (254)
T TIGR01098 131 ----------------------------------------------------------------SPIKSLKDLK--GKTF 144 (254)
T ss_pred ----------------------------------------------------------------CCCCChHHhc--CCEE
Confidence 3689999995 8899
Q ss_pred EEEe-Cchh-----hhhhhhhcCCCC----CCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcC----ceEE
Q 002505 701 GYQR-GSFA-----ENYLTDELNIDK----SRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTR----CEFS 766 (914)
Q Consensus 701 ~~~~-~s~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~----~~l~ 766 (914)
++.. ++.. ..++.+..+... .+++...+..+.+++|.+ |++|+.+.+.+....+..+. .++.
T Consensus 145 ~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~~~~~~~~~ 220 (254)
T TIGR01098 145 AFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRGPSDMKKVR 220 (254)
T ss_pred EeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhCccchhheE
Confidence 9864 3322 123333332211 244455667889999999 99999999988887766553 2578
Q ss_pred EeccccccccceeeecCC-CC-ChhhHHHHHHhh
Q 002505 767 IIGQEFTRIGWGFAFPRD-SP-LAVDMSIAILEL 798 (914)
Q Consensus 767 ~~~~~~~~~~~~~~~~k~-sp-l~~~~~~~i~~l 798 (914)
++.+.....+++++++|+ .+ +++.+|++|..+
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 221 VIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 877666666789999999 54 999999998754
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=98.81 E-value=6e-07 Score=94.58 Aligned_cols=207 Identities=14% Similarity=0.107 Sum_probs=141.1
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-chHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF-SVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~-s~~~~ 111 (914)
+||++.|.. +.+......+++.+.++. | +++.+.++..++......+.+++.+++++||+... +....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g--~~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------G--VELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------C--ceEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999875 555566778888877762 3 45566777778888888888898889998876433 33333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeC--CCccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (914)
.....+...++|+|......+. .+.+..+.+++...+..+++.+... |-+++++++.+. .++....+.+++
T Consensus 71 ~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 145 (267)
T cd01536 71 PALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRD 145 (267)
T ss_pred HHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHH
Confidence 3456667789999997665432 1344566777777788888887666 889999998654 367777889999
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccCCCeE-EEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
.+++. |.++....... ....+..+.+.++.+..++. .|+++....+..+++++++.|+. .+...++.+
T Consensus 146 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~d 215 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN--WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGVD 215 (267)
T ss_pred HHHhCCCcEEEEEecCC--CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEecC
Confidence 99888 46654332222 33455666777776554433 33344456778899999999975 444445443
No 112
>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=98.74 E-value=5.8e-07 Score=94.48 Aligned_cols=202 Identities=12% Similarity=0.053 Sum_probs=139.7
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||++.|.. ..+......+++.+.++. |.+ +.+.|...++.+..+...++++++++++|....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYS--VLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCE--EEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 489999985 555556667777766652 444 456677788888888999999989998887555544444
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
...+...++|+|.+....+. +.+..+.+++...+..+++.+...|.+++++++.+.. ++....+.+++.++
T Consensus 71 -~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~ 143 (264)
T cd06267 71 -LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALE 143 (264)
T ss_pred -HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHH
Confidence 66678899999998665432 3455667777878888888887789999999986644 56677788999998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccCC--CeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+.|..+..........+..+....+.++.... +++|+.. ....+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i 207 (264)
T cd06267 144 EAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDV 207 (264)
T ss_pred HcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCce
Confidence 88753322212221123455566666666554 5666643 55667789999999998644433
No 113
>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=98.73 E-value=1.6e-06 Score=91.76 Aligned_cols=202 Identities=14% Similarity=0.037 Sum_probs=138.2
Q ss_pred EEEEEecCCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHH
Q 002505 34 NIGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~-~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~ 111 (914)
|||+++|... .+-.....+++.+.++. +. .|+++++.+.|+..++....+...+++.++|++||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 6899997643 22234455655555442 12 2678899999999999998899999999999999874443 3233
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEe--CCCccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVD--DDHGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (914)
.....+...++|+|......+ . +.+.++.+++...+..+++++... |-++++++..+ ...+....+.+++
T Consensus 76 ~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~ 149 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKE 149 (272)
T ss_pred HHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHH
Confidence 344566678999998765321 1 346678888888889999887666 88999999743 2345566788999
Q ss_pred HHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccCC--CeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 188 KLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 188 ~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
++++.+ +++......+ .+..+....+.++.++. +++|+...+. +..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD--WDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeecCCC--CCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCCCCc
Confidence 998887 7765332222 34455566677776554 4554444333 8899999999998544
No 114
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.71 E-value=5.2e-08 Score=102.59 Aligned_cols=164 Identities=19% Similarity=0.216 Sum_probs=130.5
Q ss_pred CChHHHHHHHHhCcccEEeeceEEecCcceeeeeccc--eeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHH
Q 002505 528 PKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQP--YIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVV 605 (914)
Q Consensus 528 ~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p--~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~ 605 (914)
..|.+++..|.+|++|+++.+..++.+|.+.++|+.| |....+++++|...
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~--------------------------- 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS--------------------------- 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC---------------------------
Confidence 4589999999999999999999989999888999988 67777888887654
Q ss_pred HHhhhheecccCCCCCCCCCCchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccC
Q 002505 606 GVVVWILEHRLNDDFRGPPRRQIGTILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSS 685 (914)
Q Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 685 (914)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChHHhhhCCCCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceE
Q 002505 686 PIKDIQSLVASSDPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEF 765 (914)
Q Consensus 686 ~i~s~~dL~~~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l 765 (914)
+|++++||. |+++++..+.....++.+ .+.. .+++.+.+..|. ++.. |..|++++.......+... ++
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi~-~~iv~~~gs~ea--a~~~----G~aDaivd~~~~~~~l~~~--~L 171 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGID-AEVVELSGAVEV--APRL----GLADAIVDVVSTGTTLRAN--GL 171 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCCc-eEEEECCCchhh--hhcC----CcccEEEeeHHHHHHHHHC--CC
Confidence 678899995 889999888888888854 3332 355666655554 5555 8999999887777766553 56
Q ss_pred EEeccccccccceeeecC--CCC-ChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 766 SIIGQEFTRIGWGFAFPR--DSP-LAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 766 ~~~~~~~~~~~~~~~~~k--~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
.++ +.+.....+++.+| .+| ....++..+.+| .|.+..+.+||+.
T Consensus 172 ~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 172 KIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred EEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 666 56666678999999 666 888999999999 5999999999997
No 115
>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=98.69 E-value=1.3e-06 Score=92.90 Aligned_cols=201 Identities=14% Similarity=0.134 Sum_probs=137.5
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
|||++.|.+...-.....+++ +++++.|..+ |.++++.+.|+..++......+.+++++++++||+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 689999876544334445554 4555566654 8999999999999999999999999988999999865432 2222
Q ss_pred HHhhccCCccEEeeccCCCCCc----cCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CccchHHHHH
Q 002505 114 SHIANEFQVPLLSFAATDPSLS----SLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGRNGIAALG 186 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~----~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~~~ 186 (914)
.....++|+|.++..++... ....+....+..++...+..+++++... |.+++++++.+.. ++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 25667999998865433211 1111222223445566677788887765 9999999986543 6667778999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
+.+++.|+++.... . ....++...++++.+. +++|++.. ...+..+++++++.|+
T Consensus 154 ~~~~~~g~~~~~~~-~---~~~~~~~~~~~~~~~~-~dai~~~~-d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V---SSSNDVQQAAQSLAGK-VDAIYVPT-DNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c---CCHHHHHHHHHHhccc-CCEEEEcC-chhHHhHHHHHHHHHH
Confidence 99999998876532 2 2345677777777643 67776654 4567788888888775
No 116
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.69 E-value=5.2e-09 Score=80.02 Aligned_cols=49 Identities=27% Similarity=0.594 Sum_probs=39.2
Q ss_pred CCceeeeeeHHHHHHHHHHCCCcccEEEee---CCCCCCCCChHHHHHHHHh
Q 002505 491 GTDKFSGYCIDVFTAVLELLPYAVPYKLVP---FGDGHNSPKRFDLLRLVSE 539 (914)
Q Consensus 491 ~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~---~~~~~~n~~~~~~~~~l~~ 539 (914)
++.++.|||+||+++|++.+||++++..++ +|...+||+|+|++++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 577999999999999999999997777765 3334478999999999874
No 117
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.64 E-value=1e-05 Score=82.21 Aligned_cols=204 Identities=15% Similarity=0.167 Sum_probs=146.8
Q ss_pred CCCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCc-EEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002505 28 TIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGT-KLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF 106 (914)
Q Consensus 28 ~~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~-~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 106 (914)
...++++||+..+.+.+.-.....|++-|+.+. |. .+++.+....+|+..+...+++|..++.++|++ ..
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~-i~ 96 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVA-IA 96 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEe-cC
Confidence 346677888888876555567788888888764 44 788889999999999999999999998888886 44
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCC---Ccc-CCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-Ccc
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPS---LSS-LQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGR 179 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~---l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~ 179 (914)
+..++.+..-... +|+|-.+.+++. +.. -.-|----|+-+|..-...-.+++++. +.++++++|..++ ...
T Consensus 97 tp~Aq~~~s~~~~--iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 97 TPAAQALVSATKT--IPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred CHHHHHHHHhcCC--CCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 5555555444433 999987777653 221 112333446667776666666777775 8999999997654 777
Q ss_pred chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh---hHHHHHHHHHHhcCC
Q 002505 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD---IWGLEVLNAAKHLRM 247 (914)
Q Consensus 180 ~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~---~~~~~il~~a~~~g~ 247 (914)
...+.++..+++.|++|... ..+ ...|.....+.+. .++|+|+..++. .....+++.+.+.+.
T Consensus 175 ~l~eelk~~A~~~Gl~vve~-~v~---~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAGLEVVEA-AVT---SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEE-ecC---cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 88999999999999998854 333 3456666666665 579999998775 455667777877665
No 118
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.58 E-value=4.2e-06 Score=89.30 Aligned_cols=316 Identities=11% Similarity=0.084 Sum_probs=189.7
Q ss_pred CCeEEEEEEecCCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002505 30 PPVLNIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF 106 (914)
Q Consensus 30 ~~~i~IG~i~~~s~---~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 106 (914)
..+=||++++|+++ ..|.....|+..|-. -++. . ++-..++.++|+...+..++ ..+...+|+..||||.-
T Consensus 255 ~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~--~-~~~~~~~~i~dT~~~~l~~i--~aqaqq~G~~~VVGPLl 328 (604)
T COG3107 255 ASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APAT--Q-TAQVAELKIYDTSAQPLDAI--LAQAQQDGADFVVGPLL 328 (604)
T ss_pred CCchheeEEeccCChhHHHHHHHHHHHHHhcc-Cccc--C-CccccceeeccCCcccHHHH--HHHHHhcCCcEEecccc
Confidence 34678999999994 446677788876654 1222 1 23347888999988775543 23333459999999999
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
-...+.+..--. -.+|++....++..- ..+.+...+-+.+++++..++.+-.-|.++..++...+++|+...++|.
T Consensus 329 K~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~ 404 (604)
T COG3107 329 KPNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFN 404 (604)
T ss_pred chhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHH
Confidence 988876654433 678888765543321 2344444445556678889999999999999999999999999999999
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHH-----------------------hccCC-CeEEEEEeChhHHHHHHHHH
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLT-----------------------VSSMM-SRILILHTYDIWGLEVLNAA 242 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~-----------------------i~~~~-~~viil~~~~~~~~~il~~a 242 (914)
+.+++.|+..+..+.+. ...+...-+.. +.+.+ .|.|++...+.+++.|=-..
T Consensus 405 ~~Wq~~gg~~v~~~~fg---~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~i 481 (604)
T COG3107 405 QEWQKLGGGTVLQQKFG---STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPMI 481 (604)
T ss_pred HHHHHhcCCchhHhhcC---cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhHH
Confidence 99999987555444443 11222211111 12223 78888888887777544344
Q ss_pred HhcCCCCCCeEEEEeCcccccccCCCcCChhhhhhccceeEEEE-e--cCCcHHHHHHHHHHHHhhccCCCCCCCCCChh
Q 002505 243 KHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRM-Y--TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSF 319 (914)
Q Consensus 243 ~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~-~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 319 (914)
.-.+.....-.+..+..... ..+ ++....++|+..... + .+..|..+.....|..
T Consensus 482 a~~~~~~~~p~yaSSr~~~g---T~~---P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~---------------- 539 (604)
T COG3107 482 AMANGSDSPPLYASSRSSQG---TNG---PDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN---------------- 539 (604)
T ss_pred HhhcCCCCcceeeecccccc---CCC---ccHHHhccCccccCCchhcCCCchHHHHHHHhcCC----------------
Confidence 32222111122332222211 111 566677888765432 2 2445555555555532
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCccccCCccccccCCCCcccccccccCchHHHHHHHH---hcccCCcccceEEccCC
Q 002505 320 GLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNIL---QVNMTGVTGPIKFTSDR 396 (914)
Q Consensus 320 ~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~---~~~f~g~~G~v~f~~~g 396 (914)
-|-.+.++|++++...- ..-+..|+ +-.++|+||.+..|+++
T Consensus 540 ---~~sl~RLyAmGvDAwrL--------------------------------an~f~elrqV~G~~i~G~TG~Lsad~~c 584 (604)
T COG3107 540 ---DYSLARLYAMGVDAWRL--------------------------------ANHFSELRQVPGYQIDGLTGTLSADPDC 584 (604)
T ss_pred ---chHHHHHHHhcchHHHH--------------------------------HHHhHHhhcCCCcccccccceeecCCCc
Confidence 24466677777765210 01112222 23578999999999988
Q ss_pred CCCCCceEEEEecccceEEE
Q 002505 397 DLINPAYEVINVIGTGSRRI 416 (914)
Q Consensus 397 ~~~~~~~~i~~~~~~~~~~v 416 (914)
. ++..+.=.+.++|..++|
T Consensus 585 ~-I~R~l~Waqy~~G~vvP~ 603 (604)
T COG3107 585 V-IERKLSWAQYQQGQVVPV 603 (604)
T ss_pred e-EeecchHHHhcCCCeeeC
Confidence 5 344444344444444433
No 119
>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=98.54 E-value=1.4e-05 Score=84.62 Aligned_cols=208 Identities=11% Similarity=0.058 Sum_probs=133.0
Q ss_pred EEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCCchHHH
Q 002505 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 111 (914)
|||++.|. +..+-.....+++.+.++. |+++.+...|+..++....+....++.++|++| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL--------GVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh--------CCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999985 3444345556676666652 677777777777788777788888888899875 5555444434
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC--CccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD--HGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (914)
.....+...++|+|......+ ... ...+..++...+..+++++... |.++++++..... ......+.+++
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Ccc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 445666789999998754321 111 1234667777788888887665 8899999975332 23445688999
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEE-EEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI-LHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~vii-l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
.+++. |+++...... .....+....+.++....+++-. ++.....+..+++++++.|+. .+...++.+
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~d 216 (275)
T cd06320 147 AIKKASGIEVVASQPA--DWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGTD 216 (275)
T ss_pred HHhhCCCcEEEEecCC--CccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEecC
Confidence 99998 8876543221 12334445556665544444323 334556677889999998875 344444433
No 120
>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=98.40 E-value=2e-05 Score=82.98 Aligned_cols=198 Identities=15% Similarity=0.152 Sum_probs=126.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++....+...+++.+++++||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA--------GYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC--------CCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 478999854 333344555665555441 455444 566677777777888888889998885333222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe---CCCccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD---DDHGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d---~~~g~~~~~~~~~~l 189 (914)
....+...++|+|......+ ...++ +..++...+..+++++...|.++++++..+ .+++....+.+++.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 45667788999998754332 12233 345667788888888888899999999743 235666788999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHH-hccC-CCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLT-VSSM-MSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~-i~~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
++.|+.+......+ .+..+....+.+ +++. .+++|+. ++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~ 204 (266)
T cd06282 144 RAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPD 204 (266)
T ss_pred HHcCCCCCccccCC--CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 98887643322222 222333334444 3433 4666655 5566777899999999986543
No 121
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.34 E-value=0.00017 Score=77.14 Aligned_cols=209 Identities=15% Similarity=0.128 Sum_probs=126.5
Q ss_pred CeEEEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCCch
Q 002505 31 PVLNIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~ 108 (914)
..-+||+++|. +..+-.....+++.+.++. |.++ .+.++..++.........++.++++++ ++|..+.
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~ 94 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTDSD 94 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChH
Confidence 44589999985 3444455667777777662 4444 446777788877777788888888744 5555544
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-CC-eEEEEEEEeC--CCccchHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDD--DHGRNGIAA 184 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w-~~v~ii~~d~--~~g~~~~~~ 184 (914)
........+...++|+|.+....+ + .+.+..+.+.+..-+..+++++... +. .+++++..+. .......+.
T Consensus 95 ~~~~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~g 169 (295)
T PRK10653 95 AVGNAVKMANQANIPVITLDRGAT---K--GEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEG 169 (295)
T ss_pred HHHHHHHHHHHCCCCEEEEccCCC---C--CceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHH
Confidence 444455677778999998764321 1 1223455666666567788876554 54 3566665332 233456788
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEE-EEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRIL-ILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~vi-il~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++++++.|+.+....... .+..+....+.++.+..++.- +++.....+..+++++++.|+ .+...++.+
T Consensus 170 f~~al~~~g~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 170 FKQAVAAHKFNVLASQPAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred HHHHHhhCCCEEEEecCCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 9999999998764321111 222333444555554444322 333455667679999999997 344455444
No 122
>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=98.30 E-value=9.1e-05 Score=77.99 Aligned_cols=205 Identities=15% Similarity=0.116 Sum_probs=128.0
Q ss_pred EEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCCchHHH
Q 002505 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 111 (914)
.||+++|. +..+-.....+++.+.++. |+.+ .+.++..++........+++.++++++ +++..+....
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~ 70 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV 70 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 37888885 3444456667777777652 4444 456777788877788888888888884 5555544333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEe--CCCccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVD--DDHGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (914)
.....+...++|+|.+....+. .+.+-.+..++...+..+++.+... |-+++++++.+ ...+....+.+++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 145 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHE 145 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 3445556789999987654321 1223345566666678888887766 78999999863 3355666788999
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++++. |+.+....... .+..+....+.++.+. ++++| ++.....+..+++++++.|+ ++...++.+
T Consensus 146 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~--~di~iig~d 214 (268)
T cd06323 146 VVDKYPGLKVVASQPAD--FDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAGK--DDVKVVGFD 214 (268)
T ss_pred HHHhCCCcEEEecccCC--CCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcCC--CCcEEEEeC
Confidence 99884 77754322111 2223333344444433 34553 34455566678999999988 444555543
No 123
>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=9.4e-05 Score=78.34 Aligned_cols=207 Identities=12% Similarity=0.076 Sum_probs=126.3
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++.+.++. |.++ .+.++..++....+...+++.+++++| +++..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL--------GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc--------CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 478888853 333234445555554431 4444 456777888888888888888888877 4665554444
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc------CCeEEEEEEEe--CCCccchHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVD--DDHGRNGIA 183 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~d--~~~g~~~~~ 183 (914)
.....+...++|+|.+....+ + ..++..+.+++..-+..+++++... |.+++++++.. ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGAE---G--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCCC---C--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 556777788999998643221 1 1233445566666666777765443 67899999743 234566788
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCC--eEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMS--RILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~--~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
.+++.+++.|..+.... ........+....+.++.++.+ ++|+. .....+..+++++++.|+. .+...++.+
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAIWL-QGSDRYQGALDAIATAGKT-GKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEEEE-CCCccchHHHHHHHHcCCC-CCEEEEEcC
Confidence 99999999987654221 1111222333444555544444 44333 4455667899999999986 444444443
No 124
>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=98.27 E-value=5.9e-05 Score=79.45 Aligned_cols=200 Identities=18% Similarity=0.131 Sum_probs=127.8
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||++.|.. ..+-.....++..++++. |+.+. +.|+..++.........+++++|+++|--..... ..
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDHS-PA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HH
Confidence 489999854 333345556666666552 44544 4788888888888888898888877653211112 23
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC---CCccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~---~~g~~~~~~~~~~l 189 (914)
....+...++|+|......+. ...+ .+..++...+..+++.+...|.+++++|.... .++......+++.+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (268)
T cd06273 70 LLDLLARRGVPYVATWNYSPD---SPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAAL 143 (268)
T ss_pred HHHHHHhCCCCEEEEcCCCCC---CCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHH
Confidence 345667789999987553321 1223 34467777888888888777999999997432 34556788999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
++.++.+.....+....+..+....+.++.+ .++++|+. +....+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~ 206 (268)
T cd06273 144 AEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPE 206 (268)
T ss_pred HHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCC
Confidence 9888654322222211223333445555543 34677665 5667788899999999986543
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=98.27 E-value=9.6e-05 Score=78.18 Aligned_cols=210 Identities=17% Similarity=0.088 Sum_probs=127.4
Q ss_pred EEEEEecC--CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH
Q 002505 34 NIGAVFAL--NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~--s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 110 (914)
.||+++|. +..+......+++.+.++. |+. +.+.++..++....+....++.+++++||- +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 37889986 3555667778888777762 444 455677788888888888888889998754 4444333
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEe-ccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC--ccchHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVR-TTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAAL 185 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r-~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~~ 185 (914)
......+...++|+|......+ +...++++. +.+.+...+...++.+... |-++|+++..+.++ +....+.+
T Consensus 71 ~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 71 IPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 3444556779999998754322 122344432 2344555666677765444 77899999764433 33446788
Q ss_pred HHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc-c--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS-S--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~-~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++.+++.|..+.............+....+.++- + .++++|+. +....+..+++++++.|+. .+...++.+
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g~d 221 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVGAN 221 (275)
T ss_pred HHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEEeC
Confidence 9999888643322222211112222223334332 2 24677664 4455678899999999986 444444443
No 126
>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=98.23 E-value=0.00021 Score=75.33 Aligned_cols=209 Identities=13% Similarity=0.042 Sum_probs=133.2
Q ss_pred EEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH
Q 002505 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 110 (914)
|||++.|.. ..+-.....+++.|.++. |+.+.+...+. .++.........++.++++++|. |......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~~~~~~-~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEYRGPET-FDVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEEECCCC-CCHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 689999864 444456677787777762 55655443333 37877778888888889998876 3333323
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-cCCeEEEEEEEe--CCCccchHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVD--DDHGRNGIAALGD 187 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (914)
......+...++|+|......+... ..+.+..+..++...+..+++.+.+ .|.++++++..+ ...+....+.+++
T Consensus 72 ~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~ 149 (271)
T cd06312 72 DPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFAD 149 (271)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHH
Confidence 3344555678999998765432211 1244567778888899999998888 899999999753 3335566888999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++++.++.+... ....+..+....+.++.+. ++++|+. .....+..+++++++.|+. .+...++.+
T Consensus 150 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~-~di~vvg~d 217 (271)
T cd06312 150 GLGGAGITEEVI---ETGADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK-GKVKLGGFD 217 (271)
T ss_pred HHHhcCceeeEe---ecCCCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC-CCeEEEEec
Confidence 998887654321 1112223334444444333 3555444 4456677888999999986 444444443
No 127
>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=98.20 E-value=0.00034 Score=73.92 Aligned_cols=210 Identities=10% Similarity=-0.022 Sum_probs=125.1
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~ 111 (914)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++....+....++..+++++|-.... ....
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998863 33223444555554444 2567666654445677777777888888899988753333 2223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC--ccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (914)
.....+...++|+|......+ + . ..+-.+...+...+..+++++... |.++++++....++ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~-~-~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---S-D-IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-C-cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 344445568999998754321 1 0 112234555556667788877665 89999999754333 3345688889
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccCCCeE-EEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
++++. |+++... ........+-...+.++....++. .|++.+...+..+++++++.|+. ++..+++.+.
T Consensus 148 a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d~ 218 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFDA 218 (273)
T ss_pred HHHhCCCcEEEec--ccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeCC
Confidence 99888 8765432 111112223333455554333332 34444567788899999999985 4555555443
No 128
>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=98.16 E-value=0.00039 Score=73.39 Aligned_cols=210 Identities=15% Similarity=0.079 Sum_probs=129.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 111 (914)
+||+++|.. .++-.....+++-+.++. . |+ ++.+.++..++..-.+....+++.+|+++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~---~----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL---G----GV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc---C----Cc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999863 333334455555555441 1 33 455567778888888888888888999875 555544444
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeC--CCccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (914)
.+...+...++|+|......+.. .+.+..+..++...+..+++.+... +-++++++.... .......+.+++
T Consensus 72 ~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 72 PIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 55566788999999875432211 1234456777777788888876554 557999997543 233455688999
Q ss_pred HHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 188 KLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 188 ~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
++++.| +.+... .............+.++.+. ++++| ++.....+..+++.+++.|..+.+...++.+.
T Consensus 148 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 998887 443321 11112222223344444332 45654 44455677789999999998743666665543
No 129
>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=98.15 E-value=0.00026 Score=74.71 Aligned_cols=208 Identities=14% Similarity=0.037 Sum_probs=127.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcC-CCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++. |.++. +.++..++.........++.+++++||.. .++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDLR--VYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 588888853 333345566666666652 45544 46778888888888888888899988763 3333333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH--cCCeEEEEEEEeC-CCccchHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRNVIALYVDD-DHGRNGIAALGDK 188 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (914)
.+...+...++|+|.+....+. +.+..+..++...+..+++.+.. .|.++++++...+ .........+++.
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~ 144 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAV 144 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHH
Confidence 4445567789999987554321 22334667777888888887655 5889999997531 2233445677888
Q ss_pred Hhhcc-cEEEEeeccCCCCChhHHHHHHHHhccCCCeE---EEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 189 LAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI---LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 189 l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~v---iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++.+ ..+..........+..+....+.++....++. .|++.....+..++.++++.|+.. +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 88777 55443221111112233344555554333332 233345567788999999999853 44445444
No 130
>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=98.12 E-value=0.00039 Score=72.71 Aligned_cols=202 Identities=11% Similarity=0.073 Sum_probs=139.1
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAHL 112 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 112 (914)
||++.|.. ..+-.....+++.|.++. |..+.+. .|...++..-.+.+.+++.+++++|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL--------GYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH--------TCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 78888886 445567789999998886 4566666 89999999999999999999999776 6677666666
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-CC-eEEEEEEEeCCC--ccchHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDDDH--GRNGIAALGDK 188 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w-~~v~ii~~d~~~--g~~~~~~~~~~ 188 (914)
...-+...+||+|.+... .....+....+.+++...+..+++++... +- .+++++.....+ .....+.+++.
T Consensus 72 ~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 677788899999997655 11123455667778888889999986543 32 678877644433 23457888888
Q ss_pred Hhhc-ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 189 LAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 189 l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
+++. ++++...... ......+....+.++....+-..|+++....+..+++++++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~-~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 8884 5666553222 12344555555555544444333455677778889999999998543
No 131
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.06 E-value=0.0014 Score=71.68 Aligned_cols=208 Identities=9% Similarity=-0.008 Sum_probs=121.9
Q ss_pred CCeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCc
Q 002505 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFS 107 (914)
Q Consensus 30 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s 107 (914)
...-+||++.|.. ..+-.....+++-+.++. |+++.+...+...+...-.+....++++++++|| .|...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 4578999999874 333334556666666542 5555544332233555555667778888888776 34443
Q ss_pred hHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-----CCeEEEEEEEeCC--Cccc
Q 002505 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-----GWRNVIALYVDDD--HGRN 180 (914)
Q Consensus 108 ~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-----~w~~v~ii~~d~~--~g~~ 180 (914)
....... .+...++|+|.+..... ++. ....+...+...+...++.+... |..+++++..+.. ....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322222 45678999997643221 111 12345667777777777876554 5789999975432 2334
Q ss_pred hHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 181 ~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
..+.+++.+++.|+++... ... ......-...++++.+ .++++|+ +....+..+++++++.|+. .+...++
T Consensus 190 R~~Gf~~~l~~~~i~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~~-~di~Vvg 262 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDI-AYG-DNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNLT-DKIKLVS 262 (343)
T ss_pred HHHHHHHHHhcCCCEEEEe-ecC-CCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCCC-CCeEEEE
Confidence 5778899998888876542 111 1222223334444432 2467776 3456788889999999973 3333343
No 132
>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=98.04 E-value=0.00039 Score=73.29 Aligned_cols=208 Identities=15% Similarity=0.088 Sum_probs=125.7
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLL-ENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 111 (914)
.||+++|.. +.+......|++.+.++. |+.+.+...|... ......+.+++ ..++++||.........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT--------GYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC--------CCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 379999874 556667778888887642 5677666555332 22344555544 56899888743332223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCc--cchHHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHG--RNGIAALGDKL 189 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g--~~~~~~~~~~l 189 (914)
.....+...++|+|.+....+. ...++ +..++...+..+++.+...|.++++++..+..+. ....+.+++.+
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4445667789999987654332 12222 3456666677888888778999999998655432 34467788899
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (914)
++.|..+.............+-...+.++.+ .++++|+ ++....+..+++++++.|...++ ...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 8888765210011111111222233444433 3467666 45567888999999999986443 4444444
No 133
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=98.02 E-value=7.7e-05 Score=79.40 Aligned_cols=117 Identities=19% Similarity=0.246 Sum_probs=75.2
Q ss_pred CCCCChHHhhhCCCCeEEE-eCchhhh-----hhhhhcCCCCC---CcccCC-CHHHHHHHHhcCCCCCCeEEEEechhh
Q 002505 685 SPIKDIQSLVASSDPIGYQ-RGSFAEN-----YLTDELNIDKS---RLVPLN-TAEEYEKALTDGPKNGGVSAVIDERAY 754 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~-~~s~~~~-----~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 754 (914)
.+|++++||. |+++++. .++.... .+.+..+.... +.+.+. +..+.+.+|.. |++|+.+.+...
T Consensus 125 s~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~----G~vDa~~~~~~~ 198 (288)
T TIGR03431 125 SPIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVAN----GTVDAATTNDEN 198 (288)
T ss_pred CCCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHc----CCCCeEeccHHH
Confidence 4689999995 8889986 3333221 22122222211 123344 67889999999 999999998887
Q ss_pred HHHHHhc-C----ceEEEeccccccccceeeecCCC-C-ChhhHHHHHHhhhccCchHHH
Q 002505 755 MEVFLST-R----CEFSIIGQEFTRIGWGFAFPRDS-P-LAVDMSIAILELSENGDLQRI 807 (914)
Q Consensus 755 ~~~~~~~-~----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~~~~~i~~l~e~G~~~~i 807 (914)
+..+..+ . .++.+...........++++++- + +.+.++++|..+.+++..+++
T Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~ 258 (288)
T TIGR03431 199 LDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFE 258 (288)
T ss_pred HHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHH
Confidence 7666653 2 13444432211223568889984 3 999999999999999765543
No 134
>PRK09701 D-allose transporter subunit; Provisional
Probab=98.00 E-value=0.003 Score=68.06 Aligned_cols=213 Identities=14% Similarity=0.034 Sum_probs=124.7
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++. |.++.+...+...+...-.+....++.+++++||- +..+....
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL--------GVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 899999864 333344455655555442 56666654455556666667777888888887764 33333222
Q ss_pred HHHHhhccCCccEEeeccCCCC--CccCCCCceEeccCCcHHHHHHHHHHHHH-cCC--eEEEEEEEeCC--CccchHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPS--LSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGW--RNVIALYVDDD--HGRNGIAA 184 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~--l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w--~~v~ii~~d~~--~g~~~~~~ 184 (914)
.....+...++|+|.+....+. +....-.....+..++...+...++++.. .|. ++++++..+.. ......+.
T Consensus 98 ~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 98 MPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 2223345689999988654321 11111112344667777788888887644 454 78988865433 33455788
Q ss_pred HHHHHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 185 LGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 185 ~~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++.+++.| +++..... ......+-...+.++.+. ++++ |++.....+..+++++++.|.. .+...++.+
T Consensus 178 f~~al~~~~~~~~~~~~~--~~~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~d 250 (311)
T PRK09701 178 ATEAFKKASQIKLVASQP--ADWDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGTD 250 (311)
T ss_pred HHHHHHhCCCcEEEEecC--CCCCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEeC
Confidence 899998877 66543211 112222233444554333 4565 4455566788899999999985 344444444
No 135
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=98.00 E-value=0.002 Score=70.02 Aligned_cols=209 Identities=15% Similarity=0.063 Sum_probs=115.2
Q ss_pred CCCeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC
Q 002505 29 IPPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQF 106 (914)
Q Consensus 29 ~~~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~ 106 (914)
...+.+||++.|.. ..+-.....+++-+.++. + +. .+.+.++..++....+....++.++|+++|= +..
T Consensus 21 ~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 91 (330)
T PRK15395 21 AAADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---P----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVD 91 (330)
T ss_pred hcCCceEEEEEecCcchHHHHHHHHHHHHHHhc---C----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccC
Confidence 35678999999743 333334455555555442 2 22 4444566666666666667787778887764 333
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-c-----------CCeEEEEEEEe
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-F-----------GWRNVIALYVD 174 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~-----------~w~~v~ii~~d 174 (914)
+.........+...++|+|.+....+.-.-...+....+..++..-+..+++++.. . |-.++++|...
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 33233334556678999999866321100011122234556666666665564433 2 33344555433
Q ss_pred C--CCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC----CCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 175 D--DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM----MSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 175 ~--~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~----~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
. .......+.+++++++.|+.+..........+..+-...+.++.+. ++++|+ +++...+..+++++++.|+
T Consensus 172 ~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 172 PGHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcCC
Confidence 2 2233457788999988887654322111111222223344444332 355544 4566777889999999987
No 136
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.98 E-value=0.0012 Score=69.67 Aligned_cols=210 Identities=12% Similarity=0.035 Sum_probs=126.4
Q ss_pred EEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|. +..+-.....+++.+.++ . |+++. +.++..+...-.+....++.+++++||- |.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK----R----GFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh----c----CCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48999885 333333344455444443 2 44444 4666667777777788888888887753 44433323
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC--CccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD--HGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (914)
.....+...++|+|.+....+.. ...+++.++.+.+...+..+++.+... |-++++++..+.. ......+.+++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 34455677899999876532211 112456778888888888888887665 8899999975432 22345678889
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccC---CCeEEEEEeChhHHHHHHHHHHhcCCCCCCe-EEEEeC
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMESGY-VWIVTD 258 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~~-~~i~~~ 258 (914)
++++. +.++... ........+....+.++... ++++| ++.....+..+++++++.|+..++- ..++.+
T Consensus 149 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d 221 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGDFTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVSID 221 (273)
T ss_pred HHHHCCCCEEeec--cCCcccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEecC
Confidence 99876 4544321 11112223333444444432 35554 3345566677999999999875443 444443
No 137
>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=97.98 E-value=0.00057 Score=71.90 Aligned_cols=207 Identities=11% Similarity=0.052 Sum_probs=125.9
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.. ..+-.....+++-+.++. |+.+.+. .+..++..-.+....+++.+++++|-..+.. ...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHH
Confidence 478898863 333334455665555542 5555544 3455666666677777777888887321211 223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC---CCccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~---~~g~~~~~~~~~~l 189 (914)
+...+...++|+|.+....+ ....+ .+.+++...+..+++.+...|.++++++..+. ..+....+.+++.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44556667999998765432 11122 35567777778888888778999999997543 35667788999999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCC-CeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
++.|.++..........+.......+.++.+.. +++|+. +....+..+++++++.|+..+ +..+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 988865422111111112222334455554443 677665 455567789999999998654 34445444
No 138
>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=97.90 E-value=0.00082 Score=70.65 Aligned_cols=208 Identities=13% Similarity=0.083 Sum_probs=124.8
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+++|.. ..+-.....+++.+.++. |.++ .+.++..++..-.....++++++++++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTV--FLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378998863 334455667777666652 4554 34566667776667777888889998876443332223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l~ 190 (914)
....+...++|+|......+. .. +-.+.+++...+..+++.+...|-++|+++..+. .......+.+.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~---~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVAG---AP---FDYVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCCC---CC---CCEEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 445667789999987543221 11 2235566667777788887777889999987533 244556788999998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
+.|..+.....+............+.++... ++++|+. .+...+..+++++++.|+..+ +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 145 EAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 8774322111111111222223334444333 4566554 345567778999999998654 33444433
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=97.90 E-value=0.002 Score=68.22 Aligned_cols=212 Identities=12% Similarity=0.024 Sum_probs=119.8
Q ss_pred EEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEcCCCch-
Q 002505 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN--YSRFLGMVEALTLLENETVAIIGPQFSV- 108 (914)
Q Consensus 34 ~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~--~~~~~a~~~a~~li~~~v~aiiGp~~s~- 108 (914)
|||+++|.. .++-.....+++.+.++ .|+.+.+...++. .++..-......++.++|++||=...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEE--------LNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHH--------cCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999863 22222333444443332 1566666654443 3555556666678888898887533322
Q ss_pred HHHHHHHhhccCCccEEeecc-CCCCCccCCCCceEeccCCcHHHHHHHHHHHHH--cCCeEEEEEEEeC-CCccchHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAA-TDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRNVIALYVDD-DHGRNGIAA 184 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a-~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~ 184 (914)
....+..+. ..++|.|.... ..+.......+..-.+.+.+..-+..+++.+.. .|.++++++.... .......+.
T Consensus 73 ~~~~~~~l~-~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~g 151 (280)
T cd06303 73 HRKLIERVL-ASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDT 151 (280)
T ss_pred hHHHHHHHH-hCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHH
Confidence 223344433 45667666532 222100000122344566777777888887766 7899999997533 233445788
Q ss_pred HHHHHhhc-ccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 185 LGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 185 ~~~~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++++++. |+++... +....+..+....+.++.+. ++++|+ +++...+..+++++++.|+. .+...++.+
T Consensus 152 f~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~d 224 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGWG 224 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEecC
Confidence 89999887 6654322 22112323333444454433 355544 55667787899999999985 455555544
No 140
>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=97.87 E-value=0.0025 Score=68.46 Aligned_cols=216 Identities=13% Similarity=0.074 Sum_probs=123.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++. |..+.+.+.+...++..-.+....++.+++++|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~--------~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN--------GGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh--------CCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999853 333345566676666654 1234556667777887777777888888888765 454444334
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCe-----------EEEEEEEeCCC-
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWR-----------NVIALYVDDDH- 177 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~-----------~v~ii~~d~~~- 177 (914)
.+...+...++|+|.+....+...-....-+..+.+++...+...++++... +-+ .++++..+...
T Consensus 73 ~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 73 TVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 4555567789999987653221110111223456667666667777776543 221 24445543222
Q ss_pred -ccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc-cC--CCeEEEEEeChhHHHHHHHHHHhcCCCCC---
Q 002505 178 -GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS-SM--MSRILILHTYDIWGLEVLNAAKHLRMMES--- 250 (914)
Q Consensus 178 -g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~-~~--~~~viil~~~~~~~~~il~~a~~~g~~~~--- 250 (914)
.....+.+++.+++.|..+..................+.++. +. ++++|+. .....+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~~~ 231 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKGDKS 231 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcCCCC
Confidence 233467788999888865533222221122222233444443 22 2555444 455666678899999888654
Q ss_pred -CeEEEEeC
Q 002505 251 -GYVWIVTD 258 (914)
Q Consensus 251 -~~~~i~~~ 258 (914)
+...++.+
T Consensus 232 ~di~iig~d 240 (303)
T cd01539 232 KNIPVVGVD 240 (303)
T ss_pred CceEEEccC
Confidence 45555544
No 141
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.87 E-value=0.0028 Score=68.68 Aligned_cols=205 Identities=14% Similarity=0.117 Sum_probs=133.8
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCCch
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~ 108 (914)
...+||++.+.. .++-..+..+++-+.+++ |....+...|...|+..-++...+++.+++++| |.|.++.
T Consensus 32 ~~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~ 103 (322)
T COG1879 32 AGKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPD 103 (322)
T ss_pred cCceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChh
Confidence 348899998865 334445566665555553 336677888888999999999999999999866 5788888
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-cC-CeEEEEEEEe--CCCccchHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FG-WRNVIALYVD--DDHGRNGIAA 184 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~-w~~v~ii~~d--~~~g~~~~~~ 184 (914)
.......-+...+||+|.+....+.- ......+.......+...++++.+ ++ .-+++++... ..........
T Consensus 104 ~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G 179 (322)
T COG1879 104 ALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKG 179 (322)
T ss_pred hhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhh
Confidence 88889999999999999986654322 123344444556666666776543 43 2345656543 3334456788
Q ss_pred HHHHHhhccc--EEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-hhHHHHHHHHHHhcCCCC
Q 002505 185 LGDKLAEKRC--RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKHLRMME 249 (914)
Q Consensus 185 ~~~~l~~~g~--~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~~g~~~ 249 (914)
+++.+.+.+. .+... .....+.+.-......+..+.|++-.+++. ...+....+++++.|...
T Consensus 180 ~~~~l~~~~~~~~v~~~--~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 180 FRDALKEHPPDIEVVDV--QTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHHhCCCcEEEeec--cCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 9999988874 33332 222233344444556666666776555544 455556677777888765
No 142
>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=97.86 E-value=0.0028 Score=66.74 Aligned_cols=208 Identities=11% Similarity=0.057 Sum_probs=123.5
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++ .+ |+++ .+.++..++..-.+....++.+++++||= |.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~----g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YP----DVEL--IIADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cC----CcEE--EEEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 588998753 33333444455444333 11 4555 44566667776677777788888887653 33322222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC--ccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (914)
.....+...++|+|.+....+ +. .+...+..++...+...++++... |.++++++..+... .....+.+++
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 333444568999998764321 11 223346677777788888877665 88999999754332 2345788899
Q ss_pred HHhhc-ccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 188 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
.+++. |+++.... .. .....+....+.++.+ .++++| ++.....+..+++++++.|+. .+...++.|.
T Consensus 147 ~l~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQ-DG-DWLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEec-CC-CccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99988 87765321 11 1122222233444332 246654 445667777899999999987 5566666554
No 143
>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=97.84 E-value=0.0016 Score=68.38 Aligned_cols=197 Identities=12% Similarity=0.007 Sum_probs=119.1
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
||++.|.. ..+-.....+++-|.++. |..+ .+.|+..++....+....++.++|+++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA--------GYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888864 333344556666666551 4554 4567777877766666677777999887632221211 2
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe--CCCccchHHHHHHHHhh
Q 002505 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLAE 191 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d--~~~g~~~~~~~~~~l~~ 191 (914)
.... ..++|+|......+ . +.+..+..++...+..+++.+...|.++++++..+ +..+....+.|++.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 35999997643221 1 22334566677778888888878899999999764 33456677889999988
Q ss_pred cccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
.|+++..........+..+....+.++.. ..+++|+.. ....+..+++++++.|+..+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p 203 (267)
T cd06284 144 AGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVP 203 (267)
T ss_pred cCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 88543221111111122333344444432 246666664 55557789999999998643
No 144
>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=97.84 E-value=0.0038 Score=65.87 Aligned_cols=211 Identities=10% Similarity=0.009 Sum_probs=123.0
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAHL 112 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 112 (914)
||++.|.. ..+-.....+++-+.++....+ ..+.+.+.+...++.........++.+++++|| .|........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY-----PDVEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC-----CCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 78888643 3333455667776666654322 235566677777776665666668877888776 3443333223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~~~~~l 189 (914)
....+...++|+|.+....+ +.. .....+.+.+...+...++++... |.++++++..... ......+.+++.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 33445678999998765321 110 112335667777777788877665 7889999975332 2334567889999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++.++++... .....+..+....+.++... ++++|+.. ....+..+++++++.|... +...++.+
T Consensus 153 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~~-~~~ivg~d 219 (274)
T cd06311 153 AKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRTD-IKFVVGGA 219 (274)
T ss_pred hhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCCC-CceEEEeC
Confidence 8888765532 21112222233344443322 45665443 4456778899999988752 33344433
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=97.81 E-value=0.0031 Score=66.45 Aligned_cols=206 Identities=15% Similarity=0.027 Sum_probs=123.6
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 111 (914)
+||+++|.. ..+-.....+++-+.++. |..+.+.+.++..++..-.+....++.++++++| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999864 333345566666666654 2334556667777777666666777777888665 343333223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CccchHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGRNGIAALGDK 188 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (914)
.....+...++|+|......+ + ....+..++...+..+++.+... |.++++++..... ......+.+++.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~----~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G----ADATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C----ccceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333445567999999865332 1 11245677777788888887776 9999999975432 234456788888
Q ss_pred Hhhc-ccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 189 LAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 189 l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++. +++..... .....+...-...+.++.+. ++++|+. .....+..+++++++.|+ .+..+++.+
T Consensus 146 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8887 56432211 11111112222334444332 4566444 455677789999999997 355555544
No 146
>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=97.80 E-value=0.0045 Score=65.01 Aligned_cols=203 Identities=12% Similarity=0.038 Sum_probs=120.6
Q ss_pred EEEEecCCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 002505 35 IGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (914)
Q Consensus 35 IG~i~~~s~-~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~ 112 (914)
||+++|... .+-.....+++-+.++ .|+++ .+.++..++....+...+++.++++++|- |..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK--------QKVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh--------cCCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 788888643 2223444555555443 14444 45677677777777788888889998865 443332233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-CccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~~~~~l 189 (914)
....+...++|+|.+....+ ..+.+..+.+.+..-+...++++... |.+++++++..+. ......+.+++++
T Consensus 72 ~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~ 146 (267)
T cd06322 72 AIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEAL 146 (267)
T ss_pred HHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHH
Confidence 33446678999998754221 11223346666667777778877664 7889999974322 2344578889999
Q ss_pred hhc-ccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 190 AEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 190 ~~~-g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++. |+++.... .. ....+....+.++... ++++|+ +++...+..+++++++.|. .+...++.+
T Consensus 147 ~~~~~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~--~di~vvg~d 212 (267)
T cd06322 147 ADYPNIKIVAVQ-PG--ITRAEALTAAQNILQANPDLDGIF-AFGDDAALGAVSAIKAAGR--DNVKVIGFD 212 (267)
T ss_pred HhCCCcEEEEec-CC--CChHHHHHHHHHHHHhCCCCCEEE-EcCCcHHHHHHHHHHHCCC--CCeEEEEec
Confidence 888 88764321 11 1222223334444322 356544 4455677789999999997 344444443
No 147
>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=97.77 E-value=0.0042 Score=66.17 Aligned_cols=215 Identities=10% Similarity=0.010 Sum_probs=123.5
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||+++|.. ..+-.....+++.+.++. |+++. +.++. ++..-.....+++..++++||= +..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK--------GFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc--------CCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 588888854 334345566776666652 55554 45555 6666566667777778887764 33333445
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHH----HcCC--eEEEEEEE-e--CCCccchH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVD----YFGW--RNVIALYV-D--DDHGRNGI 182 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~----~~~w--~~v~ii~~-d--~~~g~~~~ 182 (914)
.....+...++|+|.+....+....+..+.+-.+..++...+...++++. ..|+ ++++++.. . ........
T Consensus 70 ~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~ 149 (289)
T cd01540 70 AIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRT 149 (289)
T ss_pred HHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHH
Confidence 55566778999999875433211100012233455666666666666543 3566 68888752 2 23456678
Q ss_pred HHHHHHHhhcccEEEEeeccCCC-CChhHHHHHHHHhccC--CCeE-EEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 183 AALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSM--MSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 183 ~~~~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~i~~~--~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+.+++.+++.|+........+.. .+.......+.++... +++. .|++.....+..+++++++.|....+...++.+
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~d 229 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGIN 229 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEecC
Confidence 88999998877653211111111 1112222334444333 3453 455666677889999999999874455555544
Q ss_pred c
Q 002505 259 W 259 (914)
Q Consensus 259 ~ 259 (914)
.
T Consensus 230 ~ 230 (289)
T cd01540 230 G 230 (289)
T ss_pred C
Confidence 3
No 148
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.76 E-value=0.0078 Score=65.29 Aligned_cols=202 Identities=9% Similarity=-0.049 Sum_probs=121.1
Q ss_pred CCeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCc
Q 002505 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFS 107 (914)
Q Consensus 30 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 107 (914)
+...+||++.|-. +.+-.....+++-+.++. |+.+. +.++..++..-.+....+++++|++||= +...
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~--i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~ 92 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVF--VQSANGNEETQMSQIENMINRGVDVLVIIPYNG 92 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 5689999999854 444455566666666542 45544 4566667776667777788888888764 3322
Q ss_pred hHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC---CCccchHHH
Q 002505 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAA 184 (914)
Q Consensus 108 ~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~---~~g~~~~~~ 184 (914)
.........+...++|+|.+....+ .. +....+.+++...+..+++.+...|.++++++.... .......+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMIN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 2223334556778999998754321 11 112356778888888899988777878876654321 223445677
Q ss_pred HHHHHhhc---c-cEEEEeeccCCCCChhHHHHHHHHhc-c--CCCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 185 LGDKLAEK---R-CRLSHKVPLSPKGSRNQIIDTLLTVS-S--MMSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 185 ~~~~l~~~---g-~~v~~~~~~~~~~~~~d~~~~l~~i~-~--~~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
+++.+++. | +++....... .....+-...++++. + ..+++| ++.+...+..+++++++.|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~aI-~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDAV-VASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccEE-EECCCchHHHHHHHHHHCCCC
Confidence 77788753 4 4432221111 112223333444433 2 246654 445666777899999999975
No 149
>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=97.76 E-value=0.0025 Score=69.41 Aligned_cols=203 Identities=12% Similarity=0.046 Sum_probs=121.7
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+ .++..++..-......+..+++++||--... .
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i--~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~-~ 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIIL--SNSDEDPEKEVQVLNTLLSKQVDGIIFMGGT-I 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-C
Confidence 356899999853 33333445555554443 1565544 3444455555555666777788877631111 1
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--C-CccchHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--D-HGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~-~g~~~~~~~~ 186 (914)
...+...+...++|+|......+ ...++ .+...+..-+..+++.+...|.++++++..+. . .+....+.++
T Consensus 127 ~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf~ 200 (329)
T TIGR01481 127 TEKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGYK 200 (329)
T ss_pred ChHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHHH
Confidence 12334555667999998754322 11222 35566666667778877778999999997432 2 2456678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
+++++.|+.+.............+-...+.++.+..+++|+.. ....+..+++++++.|+..|+
T Consensus 201 ~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~~-~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 201 EALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFVA-SDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCC
Confidence 9999988764322111111122333345556555567876654 556788899999999986543
No 150
>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=97.73 E-value=0.003 Score=66.46 Aligned_cols=202 Identities=9% Similarity=-0.016 Sum_probs=120.2
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||++.|.. +.+-.....+++-+.++. |.++. +.++..++..-.+....+..+++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 378998864 444455566776666542 45554 4566667776667777888888887663222222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l~ 190 (914)
+..+.+..++|+|......+ +..++ .+..++...+..+++.+...|.++++++.... .......+.+++.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998754322 11222 24556666677778888888999999997432 234455688899998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCe
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~ 252 (914)
+.|+++..................+.++... ++++|+. ++...+..+++++++.|...++-
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~d 207 (269)
T cd06275 145 EAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQD 207 (269)
T ss_pred HcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcc
Confidence 8887653211111111222333445555433 3555444 45667778999999998765433
No 151
>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=97.73 E-value=0.0021 Score=67.65 Aligned_cols=203 Identities=12% Similarity=0.052 Sum_probs=121.6
Q ss_pred EEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.||+++|.. +.+-.....+++.+.++. |+.+ .+.++..++..-.+....+...+++++|-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH--------GYLL--LVVNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC--------CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 489999874 444445566776666552 4554 444555566555566667777788887764332111
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKL 189 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l 189 (914)
+.......++|+|......+. .. +..+.+++...+..+++.+...|-++++++..+.. ......+.+.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122334578999987543321 11 23456777777888888887779999999975432 2345578888999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
++.|+.+..........+..+....+.++.+. ++++|+. .+...+..+++++++.|+..++-+.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v 209 (269)
T cd06288 143 AEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSV 209 (269)
T ss_pred HHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceE
Confidence 88876432111111111222333344555433 4676644 55667778999999999865544443
No 152
>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=97.72 E-value=0.0028 Score=66.17 Aligned_cols=199 Identities=15% Similarity=0.076 Sum_probs=125.2
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
||+++|.- +.+-.....+++.+.++. |+++. +.++..++..-.....+++.++++++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQML--LMNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888853 444345667777666542 56654 4455667777777788888889998886433222 234
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe-C--CCccchHHHHHHHHh
Q 002505 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAALGDKLA 190 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~~~~~l~ 190 (914)
...+...++|+|......+ .+..+..++...+..+++.+...|.++++++... . ..+....+.+++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4566667999998754321 1233556777788888888888888999998643 2 233456788999998
Q ss_pred hccc-EEEEeeccCCCCChhHHHHHHHHhccCC-CeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 191 EKRC-RLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 191 ~~g~-~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
+.|. .+... .. ..........+.++.+.. +++|+... ...+..+++.+++.|+..++-+.+.
T Consensus 143 ~~~~~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 143 EHGICPPNIV--ET-DFSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HcCCChHHee--ec-cCchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8886 21111 11 112222334444544333 56655544 5677789999999998765555444
No 153
>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=97.71 E-value=0.0034 Score=65.96 Aligned_cols=206 Identities=14% Similarity=0.056 Sum_probs=122.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||++.|.. ..+-.....+++.+.++. |..+.+ .++..++..-.+....++.+++++||-...... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378999864 333334455665555542 555544 445556666566777788888888864222212 22
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
....+...++|+|......+ . +....+..++...+..+++.+...|.++++++..+.. ......+.+++.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33445567999998754321 1 1222355666777888888888889999999986542 44455778889998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE-EEEe
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV-WIVT 257 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-~i~~ 257 (914)
+.|.....................+.++.+. ++++|+. ++...+..+++++++.|...++.+ .++.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vig~ 212 (268)
T cd01575 144 AAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIAGF 212 (268)
T ss_pred HcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEEec
Confidence 8876322211111112223334445555433 4666554 455667789999999997654433 4443
No 154
>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=97.71 E-value=0.0063 Score=64.74 Aligned_cols=205 Identities=8% Similarity=-0.032 Sum_probs=120.5
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||+++|.. ..+-.....+++-+.++. |+.+ .+.++..++..-.+...+++.+++++||- +..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL--------GAEV--IVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc--------CCEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 489999853 333345556666655542 4444 44666677777777788888888887763 43333333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc------CCeEEEEEEEeCC--CccchHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVDDD--HGRNGIA 183 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~v~ii~~d~~--~g~~~~~ 183 (914)
.....+...++|+|......+.. ..+ ..+..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~~---~~~--~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILNS---NVD--YYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCCC---Ccc--eEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 44455667899999876543221 112 234455566667777765544 8899999975433 2334567
Q ss_pred HHHHHHhhcc----cEEEEeeccCCCCChhHHHHHHHHhccC---CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 184 ALGDKLAEKR----CRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 184 ~~~~~l~~~g----~~v~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
.+++++++.+ +++... ......+..+-...+.++.+. ++++|+. .....+..+++++++.|+.. +...++
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~-~~d~~a~g~~~al~~~g~~~-dv~vvg 222 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPDWDPETAQKRMENALTANYNKVDGVLA-ANDGTAGGAIAALKAAGLAG-KPPVTG 222 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCCCCHHHHHHHHHHHHHhCCCCccEEEe-CCcHHHHHHHHHHHHcCCCC-CceEEe
Confidence 8889998887 444322 111111222223344444332 3455444 34667788999999999865 333333
No 155
>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=97.70 E-value=0.0059 Score=64.22 Aligned_cols=202 Identities=7% Similarity=-0.058 Sum_probs=121.9
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEc-CCCchH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN--YSRFLGMVEALTLLENETVAIIG-PQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~--~~~~~a~~~a~~li~~~v~aiiG-p~~s~~ 109 (914)
+||+++|.. ..+-.....+++.+.++. |+.+.+ .++. .+...-.+....++.+++++||- |.....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKL--LEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 589999863 333345566777666643 455544 4443 34455556677788888887764 333222
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCC-----eEEEEEEEeCC--CccchH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGW-----RNVIALYVDDD--HGRNGI 182 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w-----~~v~ii~~d~~--~g~~~~ 182 (914)
...+ ..+...++|+|......+ +. .....+..++...+..+++++-..+. ++++++..... ......
T Consensus 71 ~~~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~ 144 (268)
T cd06306 71 LNEI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVE 144 (268)
T ss_pred HHHH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHH
Confidence 2223 445678999998743221 11 12234667777777888888776665 89999975332 345567
Q ss_pred HHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 183 AALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 183 ~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
+.+++++++.++++.... .. ..+...-...+.++.+ .++++|+. + ...+..+++.+++.|+ +.+...++
T Consensus 145 ~g~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~-~-d~~a~~~~~~l~~~g~-p~di~vig 215 (268)
T cd06306 145 KGFRDALAGSAIEISAIK-YG-DTGKEVQRKLVEEALEAHPDIDYIVG-S-AVAAEAAVGILRQRGL-TDQIKIVS 215 (268)
T ss_pred HHHHHHHhhcCcEEeeec-cC-CccHHHHHHHHHHHHHhCCCcCEEee-c-chhhhHHHHHHHhcCC-CCCeEEEe
Confidence 889999998888765421 11 1222333344455432 35677764 3 7778889999999997 34444444
No 156
>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=97.69 E-value=0.0034 Score=66.23 Aligned_cols=203 Identities=12% Similarity=0.055 Sum_probs=130.3
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.- .++-.....|++-+.++ .|+.+-+ .++..++..- +....|.+++|+++|=.........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~--------~Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE--------HGYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH--------TTCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH--------cCCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHH
Confidence 699999986 33333445555555554 2666644 5566666655 6666677778888874433333355
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeE-EEEEEEeCCC--ccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRN-VIALYVDDDH--GRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~-v~ii~~d~~~--g~~~~~~~~~~l 189 (914)
+..+.+. ++|+|......... ...|+ +...+..-+..+++.|...|.++ |+++..+... .....+.+++++
T Consensus 72 l~~~~~~-~iPvV~~~~~~~~~--~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 72 LRRLIKS-GIPVVLIDRYIDNP--EGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHHT-TSEEEEESS-SCTT--CTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHc-CCCEEEEEeccCCc--ccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 6677776 99999865542211 12233 23445666667778888899999 9999976554 345567899999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeE-EEEEeChhHHHHHHHHHHhcC-CCCCCeE
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLR-MMESGYV 253 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~g-~~~~~~~ 253 (914)
++.|+++..........+..+-...++++.+..|++ .|+++....+...++++++.| ...++-+
T Consensus 146 ~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 999986655444332234444455666676666662 344556778889999999999 7666544
No 157
>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=97.68 E-value=0.0051 Score=64.51 Aligned_cols=202 Identities=14% Similarity=0.072 Sum_probs=121.7
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||++.|.. ..+-.....+++-|.++. |..+ .+.++..++..-.....+++..++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQV--LVCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378898864 334445666777766642 4454 44555566766666677788888887763222222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-C--ccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-H--GRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-~--g~~~~~~~~~~l 189 (914)
+ ..+...++|+|.+....+. +.+..+..++..-+..+++.+...|.++++++..... . .......+++.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIPE------LGVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCCC------CCCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 4456789999987654321 1123345566777888888888889999999975432 2 124567888999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
++.|.............+..+....+.++.++ ++++|+.. +...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di 208 (267)
T cd06283 144 AEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDV 208 (267)
T ss_pred HHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccce
Confidence 88874322111111111223444555665443 35665554 45667788999999998655433
No 158
>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=97.65 E-value=0.0068 Score=65.09 Aligned_cols=211 Identities=17% Similarity=0.113 Sum_probs=125.4
Q ss_pred EEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCchHH
Q 002505 35 IGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETVAIIGPQFSVIA 110 (914)
Q Consensus 35 IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aiiGp~~s~~~ 110 (914)
||+++|.. ..+-.....+++.+.++. |..+.+ .++..+...-......++.+ +|++||=...+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888764 233334455666655442 555544 35556777777778888888 99987642222223
Q ss_pred HHHHHhhccCCccEEeeccCCCCCc-----c--CCC-CceEeccCCcHHHHHHHHHHHHHcCCeE--------EEEEEEe
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLS-----S--LQY-PFFVRTTQSDLYQMAAIADIVDYFGWRN--------VIALYVD 174 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~-----~--~~~-~~~~r~~p~~~~~~~a~~~~l~~~~w~~--------v~ii~~d 174 (914)
......+...++|+|.+....+... . ..+ +++-.+.+++..-+..+++.+...|.++ ++++..+
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 3344566679999998865432211 0 011 2345577788888888888877766653 7777643
Q ss_pred C--CCccchHHHHHHHHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCC
Q 002505 175 D--DHGRNGIAALGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMME 249 (914)
Q Consensus 175 ~--~~g~~~~~~~~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~ 249 (914)
. .......+.+++++++.| ..+... ........+-...+.++.+. ++++|+ +.....+..+++++++.|+..
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~v 228 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQV--VYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRKP 228 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEeee--ecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCCc
Confidence 2 223455778899998887 433221 22112233334445554432 456655 456677788999999999875
Q ss_pred C-CeEEEEeC
Q 002505 250 S-GYVWIVTD 258 (914)
Q Consensus 250 ~-~~~~i~~~ 258 (914)
+ +..+++.+
T Consensus 229 p~di~vig~D 238 (305)
T cd06324 229 GRDVLFGGVN 238 (305)
T ss_pred CCCEEEEecC
Confidence 4 34444444
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=97.64 E-value=0.0032 Score=66.30 Aligned_cols=206 Identities=10% Similarity=0.000 Sum_probs=122.9
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++.........+++++|+++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999853 444445566666666552 4554 45566677776667777787778888874222222234
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
+...+...++|+|......+ . ..+ .+..++..-+..+++.+...|.++++++..... .+....+.++++++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998765432 1 122 244555555566777776779999999975332 23345688889998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEeC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (914)
+.|+.+.....+.... .......+.++.. ..+++|+. .+...+..+++++++.|+..++ ...++.|
T Consensus 144 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 144 AAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAIIA-GGTQVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred HcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 8886542111111111 2222334444432 34677764 4556677899999999986543 3344433
No 160
>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=97.62 E-value=0.0044 Score=65.43 Aligned_cols=204 Identities=13% Similarity=0.056 Sum_probs=115.3
Q ss_pred EEEEEEecCC--------CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc
Q 002505 33 LNIGAVFALN--------STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLL-ENETVAIIG 103 (914)
Q Consensus 33 i~IG~i~~~s--------~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiG 103 (914)
=.||++.|.. ..+-.....+++-+.++ .|.++.+...+. +. ...+.+++ .+++++||-
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~v~~~~~--~~---~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE--------RGYDLLLSFVSS--PD---RDWLARYLASGRADGVIL 70 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHH--------cCCEEEEEeCCc--hh---HHHHHHHHHhCCCCEEEE
Confidence 3689999852 22223334445444333 156666654433 21 12344444 458887763
Q ss_pred -CCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--Cccc
Q 002505 104 -PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRN 180 (914)
Q Consensus 104 -p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~ 180 (914)
+.... . .....+...++|+|.+....+. +.+..+.+.+...+..+++++...|.++++++..+.. .+..
T Consensus 71 ~~~~~~-~-~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~ 142 (275)
T cd06295 71 IGQHDQ-D-PLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEE 142 (275)
T ss_pred eCCCCC-h-HHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHH
Confidence 22222 2 2234556789999987654322 1233456677778888888888889999999975433 3345
Q ss_pred hHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEe
Q 002505 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVT 257 (914)
Q Consensus 181 ~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~ 257 (914)
..+.+++.+++.|..+.............+....+.++..+ ++++|+.. ....+..+++++++.|+..+ +...++.
T Consensus 143 r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii~~ 221 (275)
T cd06295 143 RLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVVGF 221 (275)
T ss_pred HHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEEee
Confidence 57889999988775432211111112223333444444333 45666555 44567788899999998544 3344444
Q ss_pred C
Q 002505 258 D 258 (914)
Q Consensus 258 ~ 258 (914)
+
T Consensus 222 d 222 (275)
T cd06295 222 D 222 (275)
T ss_pred C
Confidence 4
No 161
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.62 E-value=0.0046 Score=67.68 Aligned_cols=206 Identities=10% Similarity=0.034 Sum_probs=120.2
Q ss_pred eEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 32 VLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 32 ~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
.-+||+++|.. ..+-.....+++-+.++. |+++ .+.++..++..-.+....++.+++++||-.......
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 128 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTL--ILCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPE 128 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCH
Confidence 35899999874 333334455665555542 4444 344555677766667777777788877632221122
Q ss_pred HHHHHhhcc-CCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe--CCCccchHHHHHH
Q 002505 111 HLVSHIANE-FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGD 187 (914)
Q Consensus 111 ~~v~~~~~~-~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (914)
..+ ..+.. .++|+|.+....+. ..... .+.+++..-+...++.+-..|.+++++|..+ ........+.+++
T Consensus 129 ~~~-~~l~~~~~iPvV~~d~~~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 PLL-AMLEEYRHIPMVVMDWGEAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHH-HHHHhcCCCCEEEEecccCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 223 34444 69999987543221 11111 2344445556777777777799999999643 2344455788999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEE
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (914)
.+++.|+++.............+....+.++... .+++|+. +....+..+++++++.|...++-+.
T Consensus 203 ~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~ 270 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDIS 270 (341)
T ss_pred HHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceE
Confidence 9998887654321111111223334445554333 4666664 4566677899999999986554433
No 162
>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=97.62 E-value=0.0074 Score=63.46 Aligned_cols=204 Identities=13% Similarity=-0.002 Sum_probs=120.8
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||++.|.. ..+-.....+++-+.++. |+++.+. ++..++..-......+...++++||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR--------GLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC--------CCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478998853 333345556665555532 5666444 44446655555566677778888875332222233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
+..+.+ .++|+|......+.. . +-.+.+.+...+..+++.+...|.++++++..+.. ......+.++++++
T Consensus 71 ~~~~~~-~~~pvV~i~~~~~~~---~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLIN-SYGNIVLVDEDVPGA---K---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHHh-cCCCEEEECCCCCCC---C---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 444443 479999876543211 1 22356778888888888888889999999975433 23345788999999
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
+.|..+.............+....+.++.. ..+++|+.. ....+..+++++++.|...|+-+-|
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i 209 (269)
T cd06293 144 EAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSL 209 (269)
T ss_pred HcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 887643211111111122233344454432 346765554 5567778999999999865544433
No 163
>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=97.61 E-value=0.01 Score=63.29 Aligned_cols=211 Identities=12% Similarity=0.058 Sum_probs=118.6
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
|||++.|.- +.+-.....+++-+.++ . |+++.++ .++..++..-.+....++.+++++||= +.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~----~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK----L----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH----c----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 689988743 22222334444433332 1 5566433 356667777677777888888887653 43332223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC--ccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (914)
.....+...++|+|.+....+.... ..+++..+..++..-+..+++++... |-++++++..+.+. .....+.+.+
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 3345566789999987654332211 11233445566666678888877665 78999999754333 3344678888
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
.+++.+..+....... ..........++++.. .++++|+. .+...+..+++++++.|+ .+..+++.+
T Consensus 151 ~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 151 TIKKNYPDITIVAEKG-IDGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHHhCCCcEEEeecC-CcchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 8876553222111111 0111222233444432 24566554 455678899999999997 344555544
No 164
>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=97.61 E-value=0.0044 Score=65.07 Aligned_cols=200 Identities=15% Similarity=0.090 Sum_probs=117.1
Q ss_pred EEEEecCC-----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002505 35 IGAVFALN-----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (914)
Q Consensus 35 IG~i~~~s-----~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 108 (914)
||+++|.. ..+-.....+++.+.++ .|+.+.+...+.. ....+.+.+++.+ ++++||...+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78898862 33334455565555543 2566666654433 2333456666654 788887533322
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALG 186 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~ 186 (914)
... ....+...++|+|.+....+ +..+++ +.+++...+..+++.+...|.++++++..... .+....+.++
T Consensus 71 ~~~-~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDP-RVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CCh-HHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 222 23455678999998754322 122333 44566677777888877789999999975432 3445678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+.+++.|..+.....+............+.++... .+++|+.. +...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i 211 (268)
T cd06271 144 RALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDV 211 (268)
T ss_pred HHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcce
Confidence 99998886542211111112223333445554332 36666664 45677789999999998765433
No 165
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.60 E-value=0.021 Score=61.86 Aligned_cols=199 Identities=11% Similarity=-0.016 Sum_probs=111.5
Q ss_pred EEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH
Q 002505 33 LNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (914)
Q Consensus 33 i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 110 (914)
.+|+++.... .++-.....|++-|.++. |.++.+. ..+..++..-.+....++.++|++|+- |.++...
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 3799887644 444445566777666643 5666542 334456666667778899999987764 4454444
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccC-CcHHHHHHHHHHHHH-c--CCeEEEEEEEeCCC--ccchHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQ-SDLYQMAAIADIVDY-F--GWRNVIALYVDDDH--GRNGIAA 184 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p-~~~~~~~a~~~~l~~-~--~w~~v~ii~~d~~~--g~~~~~~ 184 (914)
.....-+...+||+|++.+..+. +. . .+.+.. ++...+..+++++.+ + +-.+++++...... .....+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 55566677889999997654321 11 1 122222 334566666666554 2 45688888743221 1223456
Q ss_pred HHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCC--eEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 185 LGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMS--RILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 185 ~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~--~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
+++.+.+. +++++... +. ..+...-....+++..+.+ ++|+.. ....+...++++++.|+.
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~-~~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FG-YNDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CC-CCcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCCC
Confidence 66666432 56665332 22 1222222334445444444 555544 344444688888888863
No 166
>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=97.58 E-value=0.0061 Score=63.93 Aligned_cols=204 Identities=16% Similarity=0.096 Sum_probs=122.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 111 (914)
.||+++|.. ..+-.....++.-+.++. |+.+ .+.++..++..-.+....+...++++|| .+.. ....
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~--~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~-~~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYST--FVANTGDNPDAQRRAIEMLLDRRVDGLILGDAR-SDDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCC-CChH
Confidence 479999863 333344556666555542 5555 3455556766666666677777888776 3332 2223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKL 189 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l 189 (914)
.+ ..+...++|+|......+ ..+ .+..++..-+..+++.+...|.++++++..+.. ......+.+++.+
T Consensus 70 ~~-~~~~~~~iPvv~~~~~~~-----~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 FL-DELTRRGVPFVLVLRHAG-----TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred HH-HHHHHcCCCEEEEccCCC-----CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 33 445668999998765321 122 245566677777888888889999999975432 3455678889999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
++.|+.+..................+.++... ++++|+. .+...+..+++++++.|+..+ +...++.+
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 141 AEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTAIFA-VNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 88887643211111111222223445554332 3565444 466677789999999998643 34444433
No 167
>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=97.58 E-value=0.0086 Score=62.90 Aligned_cols=207 Identities=14% Similarity=0.017 Sum_probs=123.1
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+++|.. ..+-.....|++-+.++. |+++.+. ++..++..-......++.++|++||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 378999864 444445566666666552 5565544 34445555556667788888887775332222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
...+...++|+|.+....+. ...+ .+..++..-+..+++.+...|-++++++..+.. ......+.+++.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIPG---LADR---CIWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCCC---CCCC---eEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 34455689999987553321 1122 245677777888888887889999999975432 22345678889998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEeC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (914)
+.|+++.............+....+.++.+. ++++|+. +....+..+++++++.|+..++ ...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~v~g~d 213 (268)
T cd06270 144 EAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFC-ANDEMAAGAISALREHGISVPQDVSIIGFD 213 (268)
T ss_pred HcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceeEEEec
Confidence 8886542111111112233444455555443 3565554 4456777899999999986443 3344433
No 168
>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=97.57 E-value=0.011 Score=62.01 Aligned_cols=204 Identities=14% Similarity=0.051 Sum_probs=120.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
.||+++|.. ...-.....+++-+.++. |+.+.+...+. .++..-.+....+++++++++|- +......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~- 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD- 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-
Confidence 378999854 333344556665555552 56665553322 23455555666777778888873 3322222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC--ccchHHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAALGDKL 189 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~--g~~~~~~~~~~l 189 (914)
.+.. ....++|+|......+ +.+-.+..++..-+..+++.+...|.++++++..+... .....+.+++.+
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 3467899999765421 12334666777778888888888899999999754332 234567888888
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC-CCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM-MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~-~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
++.|+.+...... .....+....+.++... ++++|+. +....+..+++++++.|...+ +...++.|
T Consensus 143 ~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~~i~ii~~d 210 (264)
T cd01574 143 EAAGIAPPPVLEG--DWSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPDDVSVVGFD 210 (264)
T ss_pred HHCCCCcceeeec--CCCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCccceEEeccc
Confidence 8878765432111 12223333444444433 3566444 455677889999999997544 33344433
No 169
>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=97.56 E-value=0.0093 Score=62.48 Aligned_cols=204 Identities=12% Similarity=0.030 Sum_probs=117.8
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
.||+++|.. ..+-.....+++-+.+ .. |..+.+ .++..++..-.+....++.+++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~----~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALAR----ER----GYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDP 70 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHH----HC----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH
Confidence 379999864 2222233344443333 22 555544 455556766666777788888887764322222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
+. .+...++|+|.+....+ +...++ +...+..-+..+++.+...|.++++++..+.. ......+.+++.++
T Consensus 71 ~~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (264)
T cd06274 71 YY-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALA 143 (264)
T ss_pred HH-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHH
Confidence 33 45668899998755432 112232 44556666677888777789999999975432 34456788999998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC---CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
+.|+.+..........+...-...+.++... .+++|+.. +...+..+++++++.|+..++-+-|
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v 210 (264)
T cd06274 144 DAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRI 210 (264)
T ss_pred HcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEE
Confidence 8875432211111111222333344444332 36766644 5667778999999999865544443
No 170
>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=97.52 E-value=0.0079 Score=63.06 Aligned_cols=200 Identities=12% Similarity=0.056 Sum_probs=117.1
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.. +.+-.....+++-+.++. |..+. +.++..++..-......++..++++||-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTI--IGNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489999863 444445667777666552 44444 3345556665556666777778888774322222333
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l~ 190 (914)
...+...++|+|......+. ...+++ ...+..-+..+++.+...|.++|+++.... .......+.+++.++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~~---~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREITG---SPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccCC---CCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 34555679999987654321 223332 334444455566667677999999996533 233445678899998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
+.|..+.............+....+.++.+..+++|+. +....+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~ 203 (265)
T cd06299 144 SLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGE 203 (265)
T ss_pred HCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCc
Confidence 88754321111111112223334455554444776555 4556777899999999986544
No 171
>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=97.51 E-value=0.02 Score=60.69 Aligned_cols=207 Identities=13% Similarity=0.023 Sum_probs=120.3
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++. |+.+ .+.++..++..-.+....++.+++++||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 589999864 333334455555555542 4544 44566667776677777888888887763 33333222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH-cCCe--EEEEEEEe--CCCccchHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWR--NVIALYVD--DDHGRNGIAALG 186 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~--~v~ii~~d--~~~g~~~~~~~~ 186 (914)
.....+...++|+|.+....+. ..+.+..+..++...+..+++.+-. .|-+ +++++..+ ...+....+.++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~----~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSINL----EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCCC----CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 3335556789999987653211 0122345667777788888887654 6754 88888753 234556678899
Q ss_pred HHHhhcccE------EEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEE
Q 002505 187 DKLAEKRCR------LSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (914)
Q Consensus 187 ~~l~~~g~~------v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (914)
+.+++.|+. +.............+....+.++... ++++|+. .....+..+++++++.|+. .+...++
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~dv~vvg 222 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT-DDVKVAA 222 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC-CCeEEEe
Confidence 999887642 11111011111222223344444322 4555544 4455677799999999984 4444444
No 172
>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=97.51 E-value=0.008 Score=63.00 Aligned_cols=190 Identities=14% Similarity=0.069 Sum_probs=113.3
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
||++.|.. +.+-.....++.-+.++ .|+++.+...+. +. ...+...+++..+|+++|--.+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-HH
Confidence 78898864 33334445555444443 256766655443 33 33345566777788887753332222 23
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHhh
Q 002505 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLAE 191 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~~ 191 (914)
...+...++|+|.+....+. ..+..+.+++...+..+++.+...|.++++++..+.. ......+.+++.+++
T Consensus 70 ~~~~~~~~ipvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 70 AEECRRNGIPVVLINRYVDG------PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHHHhhcCCCEEEECCccCC------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 45566789999997553221 2234466778888888888888889999999985433 344567788999988
Q ss_pred cccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhc
Q 002505 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~ 245 (914)
.|..+... ... ..+..+....+.++.+. ++++|+.. ....+..+++.+++.
T Consensus 144 ~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVE-EAG-DYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhh-ccC-CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 88764321 111 11223333344444333 45665554 445567788888875
No 173
>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=97.49 E-value=0.021 Score=60.17 Aligned_cols=180 Identities=11% Similarity=-0.014 Sum_probs=111.7
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccC
Q 002505 69 GTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQ 147 (914)
Q Consensus 69 g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p 147 (914)
|+.+. +.++..++..-.+....++.+++++||= |..+.........+...++|+|.+....+. ...+.+..+.+
T Consensus 29 G~~~~--~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~---~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVT--WYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIAP---LQINVHSFLAP 103 (272)
T ss_pred CCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCCC---CCCceEEEECC
Confidence 44444 4566678888888888888888887764 433343344444456679999987654321 11122344667
Q ss_pred CcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC--ccchHHHHHHHHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccC-
Q 002505 148 SDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM- 221 (914)
Q Consensus 148 ~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~~~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~- 221 (914)
++..-+..+++.+... |.++++++..+... .....+.+++.+++.+ .++... .............+.++.+.
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~ 181 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANWDVSKAARIWETWLTKY 181 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCCCHHHHHHHHHHHHHhC
Confidence 7787888888887666 88999999754332 3345788999998775 554431 11112223334445554433
Q ss_pred -CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 222 -MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 222 -~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++++|+ +.+...+..+++++++.|+ .+...++.+
T Consensus 182 ~~~~ai~-~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 182 PQLDGAF-CHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred CCCCEEE-ECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 355544 4555677788999999997 455555444
No 174
>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=97.49 E-value=0.026 Score=59.32 Aligned_cols=205 Identities=13% Similarity=0.096 Sum_probs=115.4
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH-HH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVI-AH 111 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~-~~ 111 (914)
+||++...+..+-.....++.-+.++. |+.+.+.. ++..++..-......+++.+|+++|= |..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL--------GVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc--------CCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 478887655444344455555555442 45555442 33446665566667777788887763 433332 23
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeC--CCccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (914)
.+..+ .. ++|+|......+.. +.+-.+..++..-+..+++.+... +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~~-----~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPDS-----GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCcc-----ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 99999875432211 112235566666677777776553 334566665432 234456788999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++++.|+++.... .. .....+....+.++.+. ++++|+.. +...+..+++++++.|+. .+...++.+
T Consensus 145 ~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-EEDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHhcCCcEEEEEe-cC-ccCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 9999888765421 11 12223334455555433 35665543 445556688888988876 444455444
No 175
>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=97.48 E-value=0.0086 Score=62.95 Aligned_cols=207 Identities=13% Similarity=0.049 Sum_probs=122.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
.||++.|.. ..+-.....+++-+.++. |+++ .+.++..++..-.+....++++++++||- +.... ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~ 69 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAAA--------GYDV--VLSESGRRTSPERQWVERLSARRTDGVILVTPELT-SA 69 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHHc--------CCeE--EEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-hH
Confidence 378898863 444455666666666541 5555 44455555555555666777778887753 33322 22
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKL 189 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l 189 (914)
....+...++|+|.+...... ....+ ...+++...+..+++.+...|.++++++..+. .......+.+++.+
T Consensus 70 -~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 70 -QRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred -HHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 345566789999987654211 11122 35666777778888887778999999997532 23445578888899
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
++.++.+............++....+.++.. ..+++|+. .....+..+++++++.|...+ +..+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFA-GNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 8877654321111111122333334444433 24555554 455667789999999998644 34455544
No 176
>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=97.48 E-value=0.021 Score=60.28 Aligned_cols=210 Identities=11% Similarity=0.019 Sum_probs=116.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 111 (914)
+||++.|.. ..+-.....++.-+.++..-. ...+.... ....++..-.+....+.. +++++| .+.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~-~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHF-VESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEE-ccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 589998864 333344556666666553211 12222222 233455555555566666 888775 344433322
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-C--CeEEEEEEEeCC--CccchHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-G--WRNVIALYVDDD--HGRNGIAALG 186 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~--w~~v~ii~~d~~--~g~~~~~~~~ 186 (914)
.....+.+.++|+|.+....+. . ..+..+...+...+...++++... | -++++++..... ......+.++
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~---~~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--S---PRAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--C---ceeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3345555689999987543221 1 112335556666666677766554 4 469999875432 2344567889
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+++++.+..+..........+..+....+.++.+ .++++|+...+. . ..+++++++.|+. .+...++.|
T Consensus 149 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~-~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG-N-RGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC-h-HHHHHHHHHcCCC-CCcEEEEec
Confidence 9998877544332222211222333344555432 356777776554 3 6899999999975 455555554
No 177
>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=97.46 E-value=0.014 Score=61.37 Aligned_cols=202 Identities=15% Similarity=0.088 Sum_probs=120.6
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC-ch--H
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQF-SV--I 109 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~-s~--~ 109 (914)
||+++|.. ..+-.....+++-+.++ . |+.+. +.++..++..-.+....++.++++++|= +.. .. .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ----Y----GYTVL--LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH----C----CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78998864 33334455666655555 1 56654 4555566666667778888888887763 221 11 1
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (914)
.......+...++|+|......+.- ...+ .+..++...+..+++.+...|.++++++..... ......+.+++
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~~~--~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAPPP--LKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCCCC--CCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 1122334566899999876543220 1122 355677777888888887889999999875432 23455788899
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCCe
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~ 252 (914)
.+++.|+............+.......+.++....+++|+. .....+..+++++++.|+..++-
T Consensus 147 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~d 210 (273)
T cd06292 147 ALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIVA-ASDLMALGAIRAARRRGLRVPED 210 (273)
T ss_pred HHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcc
Confidence 99888854221111111112222333444444344776554 45667778999999999865443
No 178
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.46 E-value=0.015 Score=63.60 Aligned_cols=203 Identities=8% Similarity=-0.004 Sum_probs=120.4
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
..-.||+++|.. ..+-.....+++-+.++ . |+.+- +.++..++..-......+..+++++||-......
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVF--LLQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEE--EEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 446899999853 33434455566555543 2 44443 3455556655556666777778887774222222
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (914)
.......+...++|+|......+ ....+ .+...+..-+..+++.|...|.++++++..+.. ......+.+++
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRASY---LDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 23445566778999998753211 11222 255666777788888888889999999975432 22345678999
Q ss_pred HHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
++++.|+.+.....+............+.++.+. ++++|+ +.+...+..+++++++.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 9998887543221111111222223344444333 456655 4566777789999999998654
No 179
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.45 E-value=0.022 Score=61.85 Aligned_cols=203 Identities=11% Similarity=0.007 Sum_probs=119.2
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 108 (914)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..++..-.+....++..++++||- +....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 346899999853 33323445555555543 25666553 34445555555566677778888764 22222
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALG 186 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~ 186 (914)
....+ ..+...++|+|......+ ...++ .+..++...+..+++.+-..|.++|+++..... .+....+.++
T Consensus 130 ~~~~~-~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPFY-QRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHHH-HHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 22233 334567999998754322 11222 244666667777888887789999999975432 3455678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+++++.|+.+.... .......+-...+.++.+. .+++|+.. ....+..+++++++.|+..|+-+
T Consensus 203 ~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~di 268 (328)
T PRK11303 203 QALKDDPREVHYLY--ANSFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDL 268 (328)
T ss_pred HHHHHcCCCceEEE--eCCCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCce
Confidence 99999887543221 1111222223344454332 46776655 45567789999999998655433
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=97.41 E-value=0.028 Score=60.03 Aligned_cols=195 Identities=9% Similarity=-0.027 Sum_probs=110.7
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH-H
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVI-A 110 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~-~ 110 (914)
|||+++|.. ..+-.....+++-+.++ .|+.+.+...+...+...-......++.++|++||- |..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH--------LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 589999853 22222333445444443 156665544443345555566777788889998763 322222 2
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC-----CeEEEEEEEeC--CCccchHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-----WRNVIALYVDD--DHGRNGIA 183 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-----w~~v~ii~~d~--~~g~~~~~ 183 (914)
..+..+ . .++|+|.+..... .. ..+-.+..++..-+..+++.+.... -.++++++... .......+
T Consensus 73 ~~l~~~-~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQL-T-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHHH-h-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 333333 3 4899997633211 11 1234455666666677777665521 34699997543 33455678
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
.+++++++.|+++... ........+-...+.++.+ .++++| ++....+..+++++++.|.
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 9999999888876532 2111222333334455433 245754 4566678889999988876
No 181
>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=97.37 E-value=0.014 Score=61.05 Aligned_cols=198 Identities=13% Similarity=0.008 Sum_probs=120.2
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++....+....+...+|++||=.........
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVL--LQTNYDKEKELEYLELLKTKQVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCHHH
Confidence 478898863 444456667777776642 556544 455566666666677777778887764222222334
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l~ 190 (914)
+..+.+ .+ |+|......+ +..-.+.+++...+..+++.+...|.++++++..+. .......+.+++.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~-------~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS-------KNISSVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC-------CCCCEEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444444 34 8887653221 112235567777778888888888999999997542 344455788999999
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
+.|+.+.....+.......+-...+.++.+ ..+++|+ +++...+..+++++++.|+..++
T Consensus 142 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 142 EYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCc
Confidence 888654321111111122233344455543 3466654 55667788899999999986443
No 182
>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=97.36 E-value=0.014 Score=61.35 Aligned_cols=206 Identities=13% Similarity=0.077 Sum_probs=116.1
Q ss_pred EEEEEecC------CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002505 34 NIGAVFAL------NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (914)
Q Consensus 34 ~IG~i~~~------s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 106 (914)
.||+++|. +..+-.....+++-+.++. |+++.+. +... +..-.....+++.. ++++||-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 37889885 2333344556666555542 5666543 3332 33334556666654 6887664222
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC--ccchHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAA 184 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~--g~~~~~~ 184 (914)
... ......+...++|+|.+....+. .+.+..+...+..-+..+++.+...|.++++++.....+ .....+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 111 23344456789999987643221 012223445666677777887777799999999754332 3345778
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEe
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (914)
+++.+++.|+.+.............+....+.++.+. ++++|+. .....+..+++++++.|+..++ ..+++.
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig~ 218 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIGF 218 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 8999988875321111111112223333444454333 4666555 4566788899999999986544 334443
No 183
>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=97.36 E-value=0.018 Score=60.29 Aligned_cols=195 Identities=12% Similarity=0.013 Sum_probs=107.7
Q ss_pred EEEEEecCC----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 34 NIGAVFALN----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s----~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
|||++.|.. .++-.....|++.+.++ .|+.+.+. ++. ++..-.+....+.+.+|++||-... ..
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~-~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGF-LL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCc-ch
Confidence 689999852 22223445555555554 25665554 332 3333345566677779998885322 22
Q ss_pred HHHHHHhhccC-CccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-CCeEEEEEEEeCCCcc-chHHHHH
Q 002505 110 AHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GWRNVIALYVDDDHGR-NGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~-~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w~~v~ii~~d~~~g~-~~~~~~~ 186 (914)
........... ++|+|......+.. +.+-++...+..-+..++.++... |.++++++..+..... ...+.++
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23445555555 89999875432210 112234444444444445566543 8999999975432122 2236788
Q ss_pred HHHhhcc---cEEEEeeccCCCCC-hhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcC
Q 002505 187 DKLAEKR---CRLSHKVPLSPKGS-RNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (914)
Q Consensus 187 ~~l~~~g---~~v~~~~~~~~~~~-~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 246 (914)
+.+++.| ..+..........+ ..+-...+.++.+.++++|+.. ....+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 8888888 64432211111111 2233344556554558875554 5667778999999988
No 184
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.35 E-value=0.025 Score=61.37 Aligned_cols=205 Identities=10% Similarity=0.010 Sum_probs=117.2
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 108 (914)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+ .++..++..-......+.+++|++||= |....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE--------RGYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 446799999864 33333455666555554 1556544 455556665556666777778887763 22221
Q ss_pred HHHHHHHhhcc-CCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHH
Q 002505 109 IAHLVSHIANE-FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAAL 185 (914)
Q Consensus 109 ~~~~v~~~~~~-~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~ 185 (914)
. ........ .++|+|....... ....+ .+..++..-+..+++.+...|.+++++|..+. .......+.+
T Consensus 125 ~--~~~~~l~~~~~iPvV~i~~~~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 Q--PSREIMQRYPSVPTVMMDWAPF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred h--hhHHHHHhcCCCCEEEECCccC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 1 11122233 4899998754211 11111 23344445567777888888999999996432 3344567889
Q ss_pred HHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEE
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (914)
++++++.|+.+.....+.......+-...+.++.+. .+++|+. ++...+..+++++++.|+..|+-+-
T Consensus 197 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvs 266 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIA 266 (327)
T ss_pred HHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceE
Confidence 999999887543221111111112223344444332 4566554 4566777899999999987554333
No 185
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.35 E-value=0.025 Score=61.19 Aligned_cols=201 Identities=14% Similarity=0.063 Sum_probs=131.5
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
..-.||+++|.- ..+-.....|++.+.++ .|+.+-+ .++..++..-......+.+++|++||=.. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l--~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLL--ANTDDDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 467899999943 32222344555544443 1455444 44444777666667777777999887533 333
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe--CCCccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (914)
.......+...++|+|......+ + +.+-.+..++..-+..+++.+-..|.+++++|... ...+....+.+++
T Consensus 126 ~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 199 (333)
T COG1609 126 NDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRA 199 (333)
T ss_pred CHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHH
Confidence 34456677777999998766544 1 22345667788888889999999999999999975 3455777899999
Q ss_pred HHhhcccEE--EEeeccCCCCChhHHHHHHHHhccC--C-CeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 188 KLAEKRCRL--SHKVPLSPKGSRNQIIDTLLTVSSM--M-SRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 188 ~l~~~g~~v--~~~~~~~~~~~~~d~~~~l~~i~~~--~-~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
++++.|+.. .....-. ....+....+.++... . +++|++ ++...|..+++++++.|...|+
T Consensus 200 al~~~~~~~~~~~i~~~~--~~~~~g~~~~~~ll~~~~~~ptAif~-~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPINPEWIVEGD--FSEESGYEAAERLLARGEPRPTAIFC-ANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCCcceEEecC--CChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 999999875 2111111 2233444444444432 2 666554 5667888999999999987664
No 186
>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=97.34 E-value=0.0099 Score=63.30 Aligned_cols=185 Identities=11% Similarity=0.105 Sum_probs=111.1
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
|||++-..+.+.-.....|++-++++. |... ..+++.+.+..+|+..+.+.+.++..+++++|+-. ++..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 688888877654456677777777653 3323 56888999999999999999988888888888753 34445555
Q ss_pred HHhhccCCccEEeeccCCCCCcc----CCCC--ceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCCC-ccchHHH
Q 002505 114 SHIANEFQVPLLSFAATDPSLSS----LQYP--FFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH-GRNGIAA 184 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~----~~~~--~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~~-g~~~~~~ 184 (914)
....... +|+|-.+.++|.-.. ...| ++.=+. +......-.++++++ +-++++++|.++.- +....+.
T Consensus 75 ~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~ 151 (294)
T PF04392_consen 75 AKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQ 151 (294)
T ss_dssp HHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHH
T ss_pred HHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHH
Confidence 5554443 999877766664322 2222 332222 344455566666664 57999999976543 4456788
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
+++.+++.|+++... .++ +..++...+..+. .+.|++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~---~~~~~~~~~~~l~-~~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP---SSEDLEQALEALA-EKVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES---SGGGHHHHHHHHC-TT-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC---cHhHHHHHHHHhh-ccCCEEEEECCc
Confidence 888888899987754 333 5678888888875 457888876554
No 187
>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=97.32 E-value=0.029 Score=60.94 Aligned_cols=207 Identities=11% Similarity=0.025 Sum_probs=119.9
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 108 (914)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+. ++..++..-......+..++|+++|- |....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 356899999853 33333444555544443 25666544 44445555555566677778887763 33221
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALG 186 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~ 186 (914)
....+ ..+...++|+|......+. ...+ .+..++..-+..+++.+-..|.++++++..... ......+.++
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~~---~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLDD---EHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccCC---CCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22223 3445679999987653221 1122 244566666666777777789999999975432 3445678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC---CCeEEEEEeChhHHHHHHHHHHhcCCCCC-CeEEEEeC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (914)
+++++.|+.+... +.......+-...+.++... .+++|+.. ....+..+++++++.| ..| +...++.|
T Consensus 202 ~al~~~~~~~~~~--~~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsvigfd 273 (327)
T TIGR02417 202 QALKQATLEVEWV--YGGNYSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHLATFG 273 (327)
T ss_pred HHHHHcCCChHhE--EeCCCChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceEEEEC
Confidence 9999888753211 11111222223344554432 36776654 4567788999999999 555 44445444
No 188
>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=97.30 E-value=0.023 Score=59.52 Aligned_cols=206 Identities=10% Similarity=0.014 Sum_probs=116.3
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||+++|.. ..+-.....+++-+.++ . |+.+.+ .++..++..-......+.+++++++|--.+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~----~----gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG----S----GYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEE 70 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH----C----CCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHH
Confidence 478898863 33333344444443332 1 555544 445556665556666777778888763222211222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~~~l~ 190 (914)
+..+ . .++|+|......+. ...+ .+..++..-+..+++.+...|.++++++..+. .......+.+++.++
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~~---~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVPG---PGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2222 3 48999987654321 1122 34566777778888877777999999997542 333456788888888
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEeC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (914)
+.|..+.....+............+.++.+. ++++|+. ++...+..+++.+++.|+..++ ...++.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii~-~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 143 EAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIFA-ANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 8776542111111111122223344554432 4566554 4666788899999999986543 3444433
No 189
>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=97.30 E-value=0.024 Score=59.39 Aligned_cols=194 Identities=12% Similarity=0.054 Sum_probs=114.0
Q ss_pred EEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|. +..+-.....+++-+.++. |+++. +.++..++..-.+....+...++++||- +....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK--------GYKLI--LCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC--------CCeEE--EecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 47888874 3443344555555555442 55554 4555556666556666777778887763 32222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC---CccchHHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD---HGRNGIAALGDK 188 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~---~g~~~~~~~~~~ 188 (914)
. ..+...++|+|......+ ...+ .+.+++...+..+++.+...|.++++++..... ......+.+++.
T Consensus 68 -~-~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 -I-EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -H-HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1 233567999998765532 1222 345566667788888887789999999974332 344557889999
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
+++.|+.+.... ........+....+.++... ++++|+.. ....+..+++++++.|...++
T Consensus 139 l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 139 LKENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCCCCc
Confidence 988887542211 11111111123334444333 34554443 455677899999999986443
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=0.046 Score=58.41 Aligned_cols=210 Identities=10% Similarity=-0.063 Sum_probs=118.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
+||++.|.. ..+-.....+++-+.++. |.++.+. .++..++....+....++.+++++||- +..+....
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~--------g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL--------GVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh--------CCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 588888753 333334556666665551 4554432 244467776677777788888887764 33333223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-CC-eEEEEEEEeCC--CccchHHHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDDD--HGRNGIAALGD 187 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w-~~v~ii~~d~~--~g~~~~~~~~~ 187 (914)
.....+...++|+|.+....+. + . ..+......+...+..+++.+... +- ++++++..+.. ......+.+++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~--~-~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP--D-N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC--C-c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 3444556789999987643211 0 0 112334566777778888876655 44 69999875432 23345678899
Q ss_pred HHhhcccE-EEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 188 KLAEKRCR-LSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 188 ~l~~~g~~-v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
++++.|.. +.............+-...+.++.+. ++++|+. .....+..+++++++.|+. .+...++.+
T Consensus 148 ~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~-~dv~vvG~D 219 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGDDDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK-GKVAVTGLG 219 (298)
T ss_pred HHhhcCCCCeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC-CCEEEEEeC
Confidence 99888621 21111111111222222334444322 3455444 4456788899999999985 444444443
No 191
>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=97.26 E-value=0.026 Score=59.00 Aligned_cols=198 Identities=12% Similarity=0.099 Sum_probs=117.4
Q ss_pred EEEEEecCCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 002505 34 NIGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s~-~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 111 (914)
.||+++|... .+-.....+++.+.++ .|+++.+ .++..++..-......+...+++++|= |......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVIL--CNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 4899998752 3334456666666665 2566644 455556655555556676667776653 3222221
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC-CCccchHHHHHHHHh
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDKLA 190 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~-~~g~~~~~~~~~~l~ 190 (914)
... ....++|+|......+ +..+++ +..++..-+..+++.+...|.++++++..+. .......+.+++.++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 3456899998765432 122333 3456667777788888888999999987542 223455788899998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEE
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (914)
+.|+..... ... ....+....+.++... .+++| ++.....+..+++.+++.|+..++-+.
T Consensus 142 ~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~ 203 (263)
T cd06280 142 RHGLAPDAR-FVA--PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLA 203 (263)
T ss_pred HcCCCCChh-hcc--cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEE
Confidence 888654321 111 1222323334444332 46664 445667788899999999986554333
No 192
>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=97.25 E-value=0.031 Score=58.43 Aligned_cols=198 Identities=11% Similarity=0.012 Sum_probs=107.2
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
|||+++|... ........+..++++.-++. |+.+.+ .++. ++....+....+...+|++||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 6899998511 11233333444444433332 555444 4444 55554555666777788877643222 22344
Q ss_pred HHhhccC-CccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc-CCeEEEEEEEeC-CCccchHHHHHHHHh
Q 002505 114 SHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GWRNVIALYVDD-DHGRNGIAALGDKLA 190 (914)
Q Consensus 114 ~~~~~~~-~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~~~~~l~ 190 (914)
....+.. ++|++......+. +.. +-.+...+..-+..++.++... |.+++++|..+. .......+.+++.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~---~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPN---VASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCC---eeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555444 7898876543221 011 1123334444444445556555 889999997532 223344678889998
Q ss_pred hcccEEEEeeccCCCC-ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcC
Q 002505 191 EKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 246 (914)
+.|..+.......... +..+-...++++.+..+++| ++.....+..++++++++|
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 8876433211111111 12233345556555567775 5566677778999999988
No 193
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.25 E-value=0.028 Score=61.52 Aligned_cols=204 Identities=10% Similarity=0.053 Sum_probs=115.4
Q ss_pred CeEEEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 31 PVLNIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 31 ~~i~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
..-.||+++|. +..+-.....+++-+.++. |+.+ .+.++..++..-......++.++|+++|-......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT--------GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 45689999985 2333334445555444431 4444 44555556655555666777778887764221111
Q ss_pred HHHHHHhhccCCcc-EEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHH
Q 002505 110 AHLVSHIANEFQVP-LLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip-~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~ 186 (914)
...+..+.+ ++| +|......+. ...++ +...+..-+..+++.+...|.+++++|..+.. ......+.++
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~~---~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILPG---FENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCCC---CCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 223334433 577 6765433211 11122 45566666666777777789999999975432 3445678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+++++.|+.+.............+-...+.++.+. .+++|+. .....+..+++++++.|+..|+-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~G~~vP~di 267 (343)
T PRK10727 200 DALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVAC-YNDSMAAGAMGVLNDNGIDVPGEI 267 (343)
T ss_pred HHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcce
Confidence 99999887543211111111112222334444332 3566554 466778889999999998765433
No 194
>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=97.22 E-value=0.032 Score=58.57 Aligned_cols=204 Identities=11% Similarity=0.008 Sum_probs=114.7
Q ss_pred EEEEEecCC----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 34 NIGAVFALN----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 34 ~IG~i~~~s----~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
.||+++|.. ..+-.....+++-+.++. |.++.+...|. +...-......+...++++||-......
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~ 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKKY--------GYNLILKFVSD--EDEEEFELPSFLEDGKVDGIILLGGIST 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHHc--------CCEEEEEeCCC--ChHHHHHHHHHHHHCCCCEEEEeCCCCh
Confidence 389999872 333334455555554431 67776666553 3322223333456668888875222222
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC--ccchHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAALGD 187 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (914)
.....+...++|+|......+. ...++ +..++...+...++.+...|.++++++..+... .....+.+.+
T Consensus 71 --~~~~~l~~~~ipvV~~~~~~~~---~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 --EYIKEIKELGIPFVLVDHYIPN---EKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred --HHHHHHhhcCCCEEEEccCCCC---CCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 2244566789999987543321 11222 445566666667777777799999999765432 2345678899
Q ss_pred HHhhcccEEEEeeccCC-CCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEe
Q 002505 188 KLAEKRCRLSHKVPLSP-KGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (914)
Q Consensus 188 ~l~~~g~~v~~~~~~~~-~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (914)
.+++.|+++.....+.. ......+...+.... ..+++|+. +....+..+++++++.|+..++ ...++.
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~~-~~d~~a~g~~~a~~~~g~~~p~di~vig~ 212 (268)
T cd06277 143 ALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFFC-SNDGVAFLLIKVLKEMGIRVPEDVSVIGF 212 (268)
T ss_pred HHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCcceEEee
Confidence 99888876432211110 112233344443322 23666444 4556667888999999986443 334433
No 195
>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=97.20 E-value=0.019 Score=59.95 Aligned_cols=195 Identities=13% Similarity=0.038 Sum_probs=112.0
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 112 (914)
+||++.|.. ..+-.....+++-+.++ .|+.+.+...+ +.. .....+...+++++|-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~---~~~---~~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK--------NGYNMNVSITP---SLA---EAEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH--------cCCEEEEEecc---cHH---HHHHHHHHcCcCEEEEeCCCCChHH
Confidence 478999864 33334445555555543 25666665443 222 2234466668887763222222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHHHHHHh
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~~~~l~ 190 (914)
+ ..+...++|+|......+ ..++ .+..++...+..+++.+...|.++++++..... ........+++.++
T Consensus 67 ~-~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 Y-LYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred H-HHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2 445578899998754322 1122 355667777788888888889999999975433 33445678899998
Q ss_pred hcccEEEEeeccCCCCChhHHHHHHHHhccCC--CeEEEEEeChhHHHHHHHHHHhcCCCCCC
Q 002505 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESG 251 (914)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~ 251 (914)
+.|+.+..................+.++.+.. +++ |+++....+..+++++++.|+..++
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~ 200 (261)
T cd06272 139 ENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPE 200 (261)
T ss_pred HcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCC
Confidence 88864322111111112223334445544333 555 4445556677899999999986554
No 196
>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=97.19 E-value=0.033 Score=58.56 Aligned_cols=203 Identities=13% Similarity=0.020 Sum_probs=116.5
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEcCCCchHHH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALT-LLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~ 111 (914)
.||++.|.. ..+-.....++..+.++. |+.+.+...+. + ........+ +...+|++||=...... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~~--------gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLEQ--------RYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHHC--------CCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378898864 333344555666555552 56666654442 2 222333433 55567887764222222 2
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--C------CccchHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--D------HGRNGIA 183 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~------~g~~~~~ 183 (914)
.....+...++|+|......+ ..++ +.+++..-+..+++.+... .++++++..+. . .+....+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 334455678999998765321 1222 3467777777777877666 78999886432 2 3445588
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE-EEEeC
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV-WIVTD 258 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-~i~~~ 258 (914)
.+++.+++.|+++.....+.......+....+.++.+. ++++|+.. ....+..+++++++.|...++-+ .++.|
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vvg~d 216 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVVGFD 216 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 99999999887643211111111223334455555433 35655544 55677789999999998655443 44433
No 197
>PRK09492 treR trehalose repressor; Provisional
Probab=97.13 E-value=0.056 Score=58.29 Aligned_cols=191 Identities=14% Similarity=0.027 Sum_probs=114.1
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCC-Cch
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQ-FSV 108 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~-~s~ 108 (914)
..-+||+++|.- ..+-.....++.-++ ++. |+.+ .+.++..++.........+...+|+++|-.. +..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~---~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTMLPAF---YEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHHHHH---HHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 345799999853 333233444444333 332 4554 4556666776666666667777899887532 222
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe-C--CCccchHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAAL 185 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~~ 185 (914)
.. ......++|++...... +.+-.+..++..-+..+++.+...|.++++++... . ..+....+.+
T Consensus 131 ~~----~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf 198 (315)
T PRK09492 131 TE----EMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAY 198 (315)
T ss_pred cH----HHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHH
Confidence 22 22334567877654321 11223455666667777787778899999999632 2 2345667899
Q ss_pred HHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
++++++.|+.+... .. .....+-...+.++...++++|+.. +...+..+++++++.|+
T Consensus 199 ~~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 199 LAFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVCA-TDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 99999999865421 11 1111222234444444568887654 45778889999999997
No 198
>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=97.13 E-value=0.037 Score=58.23 Aligned_cols=201 Identities=14% Similarity=0.131 Sum_probs=119.9
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchH---
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVI--- 109 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~--- 109 (914)
||+++|.. +.+-.....+++-+.++ . |..+ .+.++..++....+....++..+|+++| .|..+..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSE----K----GYSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHH----c----CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888753 33323444555444443 2 4555 4456677887777788888888998886 3332211
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC-CCccchHHHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDK 188 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (914)
.......+...++|+|......+.. -+..+..++..-+..+++.+...|.++++++...+ ..+....+.+++.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~~------~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEEL------NFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCCC------CCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 1122234566799999876543211 12346667777778888888888999999887432 2334556788888
Q ss_pred HhhcccEEEEee--ccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCe
Q 002505 189 LAEKRCRLSHKV--PLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (914)
Q Consensus 189 l~~~g~~v~~~~--~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~ 252 (914)
+++.|..+.... .+............+.++.+ .++++|+ +.+...+..+++++++.|+..++-
T Consensus 146 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~-~~~d~~a~g~~~al~~~g~~~p~d 212 (273)
T cd01541 146 YREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIV-CYNDEIALRVIDLLKELGLKIPED 212 (273)
T ss_pred HHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCc
Confidence 888876432110 11111111233344555443 2466654 456677778999999999865543
No 199
>PRK09526 lacI lac repressor; Reviewed
Probab=97.11 E-value=0.074 Score=58.17 Aligned_cols=200 Identities=15% Similarity=0.075 Sum_probs=115.3
Q ss_pred eEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCCch
Q 002505 32 VLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG--PQFSV 108 (914)
Q Consensus 32 ~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG--p~~s~ 108 (914)
.-.||+++|.. ...-.....+++-+.++ .|+.+.+...+. .++..-......+..++|++||- +..+.
T Consensus 63 ~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~-~~~~~~~~~l~~l~~~~vdGiii~~~~~~~ 133 (342)
T PRK09526 63 SLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVER-SGVEACQAAVNELLAQRVSGVIINVPLEDA 133 (342)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCC-ChHHHHHHHHHHHHhcCCCEEEEecCCCcc
Confidence 45799999853 22223344555554443 266766653332 23333344556677778888764 43332
Q ss_pred HHHHHHHhh-ccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC--CccchHHHH
Q 002505 109 IAHLVSHIA-NEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAAL 185 (914)
Q Consensus 109 ~~~~v~~~~-~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~--~g~~~~~~~ 185 (914)
.. ..+. ...++|+|.+... + +.. +-.+..++..-+..+++.|...|.++++++..+.. ......+.+
T Consensus 134 ~~---~~~~~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 134 DA---EKIVADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred hH---HHHHhhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 22 2222 2358999987542 1 111 22355666667777888888889999999975432 234557789
Q ss_pred HHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
++++++.|+.+... +.......+-...+.++... .+++|+ ++....+..+++++++.|+..|+-+
T Consensus 204 ~~al~~~gi~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~di 270 (342)
T PRK09526 204 LEYLTDYQLQPIAV--REGDWSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQI 270 (342)
T ss_pred HHHHHHcCCCcceE--EeCCCchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 99999888764322 11111222222334444332 456655 4456777889999999998765433
No 200
>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=97.11 E-value=0.038 Score=58.60 Aligned_cols=201 Identities=13% Similarity=0.099 Sum_probs=116.3
Q ss_pred EEEEecCC------CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 002505 35 IGAVFALN------STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV 108 (914)
Q Consensus 35 IG~i~~~s------~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 108 (914)
||++.|.. .++-.....+++-+.++ .|..+.+...+. . ......+...+++++|-.....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCCC
Confidence 78999862 22223445555544443 256666654332 1 2234456666888887533222
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC-------------
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD------------- 175 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~------------- 175 (914)
.. .....+...++|+|......+ +.+-.+..++...+...++++...|.++++++..+.
T Consensus 68 ~~-~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 68 DD-PLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred Ch-HHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 22 234455678999998754322 112345667777888888888888999999997532
Q ss_pred ------CCccchHHHHHHHHhhcccEEEEeeccC-CCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcC
Q 002505 176 ------DHGRNGIAALGDKLAEKRCRLSHKVPLS-PKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLR 246 (914)
Q Consensus 176 ------~~g~~~~~~~~~~l~~~g~~v~~~~~~~-~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g 246 (914)
.......+.+++++++.|++......+. ......+....+.++..+ ++++|+ ++....+..+++++++.|
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~g 218 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVARELG 218 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcC
Confidence 1123456788888888875432111111 111223344455555433 355544 455667778999999999
Q ss_pred CCCCC-eEEEEeC
Q 002505 247 MMESG-YVWIVTD 258 (914)
Q Consensus 247 ~~~~~-~~~i~~~ 258 (914)
+..++ ...++.+
T Consensus 219 ~~ip~di~vig~d 231 (283)
T cd06279 219 LRVPEDLSVVGFD 231 (283)
T ss_pred CCCCCceEEeeeC
Confidence 86443 4444443
No 201
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=96.92 E-value=0.0069 Score=65.35 Aligned_cols=112 Identities=20% Similarity=0.232 Sum_probs=63.5
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhhhh---cCCCCCCc-ccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHh
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLTDE---LNIDKSRL-VPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLS 760 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~~~---~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 760 (914)
++|++++||. |++|++..|+..+.++... .+.....+ ..+.+..+...++.+ |++|+++...++......
T Consensus 119 s~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~----G~vDa~~~~ep~~~~~~~ 192 (314)
T PRK11553 119 SPIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQ----GNVDAWAIWDPYYSAALL 192 (314)
T ss_pred CCCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHc----CCCCEEEEcCcHHHHHHh
Confidence 4688999996 8889998887666655432 22221111 123466678899999 999999988877766555
Q ss_pred cCc-eEEEeccccccccceeeecCC--CCChhhHHHHHHhhhccC
Q 002505 761 TRC-EFSIIGQEFTRIGWGFAFPRD--SPLAVDMSIAILELSENG 802 (914)
Q Consensus 761 ~~~-~l~~~~~~~~~~~~~~~~~k~--spl~~~~~~~i~~l~e~G 802 (914)
+.. ++...+..+......+++.+. ....+.+++.+..+.+..
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A~ 237 (314)
T PRK11553 193 QGGVRVLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEAD 237 (314)
T ss_pred cCCcEEeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHHH
Confidence 432 233323333222323333221 124445555555555443
No 202
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.90 E-value=0.0073 Score=62.38 Aligned_cols=121 Identities=21% Similarity=0.292 Sum_probs=73.9
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhh------hhhhcCCCC---CCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhH
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENY------LTDELNIDK---SRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYM 755 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~------l~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 755 (914)
.+|++++||. |+++++...+....+ |.+..+... -+.+...+.+..+.+|.+ |.+|+.+......
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~~~~~~~~ 168 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLN----GKADAAAIPSDAF 168 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHT----TSSSEEEEEHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHc----CCccEEEEechhH
Confidence 4699999996 899998655432222 212223321 123345678889999999 8999998887776
Q ss_pred HHHHhcC----ceEEEeccccccccceeeecCCCC--ChhhHHHHHHhhhccCchHHHHHHH
Q 002505 756 EVFLSTR----CEFSIIGQEFTRIGWGFAFPRDSP--LAVDMSIAILELSENGDLQRIHDKW 811 (914)
Q Consensus 756 ~~~~~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~i~~l~e~G~~~~i~~~~ 811 (914)
+.+.... .+++++...-......++..++-| .++.+..+++.+..+-.-.++.+.+
T Consensus 169 ~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 169 ERLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 6665542 357776554333345677777765 9999999999999864444555544
No 203
>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=96.89 E-value=0.14 Score=54.93 Aligned_cols=197 Identities=10% Similarity=-0.019 Sum_probs=112.9
Q ss_pred EEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 002505 35 IGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (914)
Q Consensus 35 IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~ 112 (914)
||++.|- .+..-.....+++-+.++. |+.+ .+.++..++..-.+....++.++|++||= |..+.....
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~--------g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL--------GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc--------CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH
Confidence 5666653 2333334445555555442 4555 44577778777777777888888887653 333333334
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCe-EEEEEEEeCC--CccchHHHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWR-NVIALYVDDD--HGRNGIAALGDKL 189 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~-~v~ii~~d~~--~g~~~~~~~~~~l 189 (914)
....+...++|+|.+....+. .+....+..++..-+..+++.+...+-+ +++++..+.. ........+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~~-----~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIND-----ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCCC-----CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 445567789999987543221 1222345567777778888887666655 7888764322 2223456777777
Q ss_pred hhc----ccEEEEeeccCCCCChhHHHHHHHHhcc---CCCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 190 AEK----RCRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 190 ~~~----g~~v~~~~~~~~~~~~~d~~~~l~~i~~---~~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
++. ++.+... .+.......+....+.++.. .++++|+. .....+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGD-QWVDGWLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecC-cCCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 753 3554322 11111222333455555432 24566554 4555677899999999874
No 204
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.89 E-value=0.11 Score=55.74 Aligned_cols=208 Identities=9% Similarity=0.025 Sum_probs=119.2
Q ss_pred CCeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 002505 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV 108 (914)
Q Consensus 30 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 108 (914)
...-+||++.|.. ..+-.....+++-+.++. |..+.+ .++..+...-......+...+|++||=-.+..
T Consensus 33 ~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~ 102 (309)
T PRK11041 33 NESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRL 102 (309)
T ss_pred CCCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCC
Confidence 3446899999853 444455666776666652 455443 45555555555566677777888776321211
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCC--ccchHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAALG 186 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~--g~~~~~~~~ 186 (914)
...... .......|++......+. ...+ .+..++..-+..+++.+...|.+++++|...... .....+.|+
T Consensus 103 ~~~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 103 PFDASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred ChHHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 111111 122223467765443221 1122 3555667777778888777899999999754332 344578899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
+.+++.|+++..................+.++... .+++|+. +....+..+++++++.|+..++-+.|
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~v 245 (309)
T PRK11041 176 QALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSI 245 (309)
T ss_pred HHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEE
Confidence 99988887643211111111223333455555433 4677665 45666778999999999865443333
No 205
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.88 E-value=0.14 Score=55.67 Aligned_cols=205 Identities=10% Similarity=0.041 Sum_probs=118.1
Q ss_pred eEEEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 32 VLNIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 32 ~i~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
.-.||+++|. +..+-.....+++-+.++ .|+++.+ .++..++..-......++.++|++||-.......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~~ 132 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHTP 132 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCCH
Confidence 4579999985 333333445556555543 2555544 4455555554555566777788887742222122
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CccchHHHHHHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDKL 189 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-~g~~~~~~~~~~l 189 (914)
.....+...++|+|....... + ... ..+..++..-+..+++.|...|.++++++..... ......+.+++++
T Consensus 133 -~~~~~l~~~~iPvV~~~~~~~---~-~~~--~~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 133 -RTLKMIEVAGIPVVELMDSQS---P-CLD--IAVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred -HHHHHHHhCCCCEEEEecCCC---C-CCC--ceEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 233445668999997532211 1 111 1356677777777888888889999999964322 2334568889999
Q ss_pred hhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCCCCeEEE
Q 002505 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWI 255 (914)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 255 (914)
++.|+.... ..+.......+-...+.++... ++++|+. +....+..+++++++.|+..|+-+-|
T Consensus 206 ~~~g~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP~disv 271 (331)
T PRK14987 206 LDAGLVPYS-VMVEQSSSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVPDDMAI 271 (331)
T ss_pred HHcCCCccc-eeecCCCChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCccEE
Confidence 988863111 1111111112222344444332 4666554 45677888999999999876654433
No 206
>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=96.86 E-value=0.053 Score=56.79 Aligned_cols=201 Identities=12% Similarity=0.036 Sum_probs=116.8
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
+||++.|.+..+-.....+++-+.++. + |+.+.+. +. +. .+....|...+|+++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 589999965544445556666555542 2 4555442 22 11 3334445556888887533222 22
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-CccchHHHHHHHHhhc
Q 002505 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDKLAEK 192 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-~g~~~~~~~~~~l~~~ 192 (914)
...+...++|+|.+....+. +.+-++...+..-+..+++.+...|.++++++..... ......+.+++++++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 24455679999987654321 2233566777778888888888889999999875433 1223467889999998
Q ss_pred ccEEEEeecc-CC-CCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCCC-CCeEEEEeC
Q 002505 193 RCRLSHKVPL-SP-KGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMME-SGYVWIVTD 258 (914)
Q Consensus 193 g~~v~~~~~~-~~-~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~~-~~~~~i~~~ 258 (914)
|..+...... .. ..+..+....+.++.+. ++++| ++++...+..+++++++.|+.. ++...++.|
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGI-FACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcEE-EecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 8765211111 10 01112223334444322 45654 4446677888999999999854 345555544
No 207
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.85 E-value=0.14 Score=56.13 Aligned_cols=204 Identities=9% Similarity=-0.011 Sum_probs=115.0
Q ss_pred CeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 002505 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (914)
Q Consensus 31 ~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 109 (914)
..-.||+++|.. ..+-.....+++-+.++. |+.+ .+.++..++..-......+..+++++||-......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~ 127 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYV--LIGNSYHEAEKERHAIEVLIRQRCNALIVHSKALS 127 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEE--EEEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 345799999853 333334455555554432 4444 34455555655555566677778887764221111
Q ss_pred HHHHHHhhccCCcc-EEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeC--CCccchHHHHH
Q 002505 110 AHLVSHIANEFQVP-LLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip-~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (914)
...+..+.+ ++| +|......+. ...+ .+...+..-+..+++.+...|.+++++|.... .......+.++
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~~---~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVPG---YAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 222334444 355 6765443221 1122 24455665666677778888999999997543 23456678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCCCeE
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 253 (914)
+++++.|+.+..............-...+.++.+ ..+++|+. .....+..+++++++.|+..|+-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~di 267 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHL 267 (346)
T ss_pred HHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 9999998754321111111111222233444433 24676554 566778889999999998765433
No 208
>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=96.71 E-value=0.0086 Score=64.11 Aligned_cols=107 Identities=15% Similarity=0.129 Sum_probs=62.2
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhhh---hcCCCCC--CcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHH
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLTD---ELNIDKS--RLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFL 759 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~~---~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 759 (914)
..|++++||. |++||+..++..+.++.. ..+.... +++.. +..+...++.+ |++|+++...++...+.
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----G~vDa~~~~~p~~~~~~ 162 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQR----GDIDAAYVWPPALSELL 162 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHc----CCcCEEEEecHHHHHHH
Confidence 4699999996 999999877755543322 2233222 23322 45678999999 99999999888776555
Q ss_pred hcCceEEEeccc--cc-cccceeeecCC----CC-ChhhHHHHHHhh
Q 002505 760 STRCEFSIIGQE--FT-RIGWGFAFPRD----SP-LAVDMSIAILEL 798 (914)
Q Consensus 760 ~~~~~l~~~~~~--~~-~~~~~~~~~k~----sp-l~~~~~~~i~~l 798 (914)
.....+...... .. ....+++++++ .| ..+.|.+++.+.
T Consensus 163 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~a~~~a 209 (300)
T TIGR01729 163 KSGKVISDSEQVGAWGAPTFDGWVVRKDFAEKNPEFVAAFTKVLADA 209 (300)
T ss_pred hcCcEEecchhccccCCCceeEEEECHHHHHHCHHHHHHHHHHHHHH
Confidence 443222111111 11 11124555443 44 666666665543
No 209
>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=96.67 E-value=0.23 Score=53.41 Aligned_cols=190 Identities=13% Similarity=0.011 Sum_probs=109.6
Q ss_pred eEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH
Q 002505 32 VLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVI 109 (914)
Q Consensus 32 ~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~ 109 (914)
.-.||+++|.- ..+-.....++.-+.++ .|+.+- +.++..++..-......+...+++++|- |.....
T Consensus 59 ~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~--i~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~~ 128 (311)
T TIGR02405 59 DKVVAVIVSRLDSPSENLAVSGMLPVFYT--------AGYDPI--IMESQFSPQLTNEHLSVLQKRNVDGVILFGFTGCD 128 (311)
T ss_pred CCEEEEEeCCcccccHHHHHHHHHHHHHH--------CCCeEE--EecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCC
Confidence 44799999852 22222233344333332 255543 4455556655444555566668887764 222111
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe-C--CCccchHHHHH
Q 002505 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAALG 186 (914)
Q Consensus 110 ~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~~~ 186 (914)
.. .....++|+|......+ . +-.+.+++..-+..+++.+...|.+++++|..+ . ..+....+.++
T Consensus 129 ~~----~l~~~~~p~V~i~~~~~-----~---~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~ 196 (311)
T TIGR02405 129 EE----ILESWNHKAVVIARDTG-----G---FSSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYL 196 (311)
T ss_pred HH----HHHhcCCCEEEEecCCC-----C---ccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHH
Confidence 11 22345778887654211 1 123556667677777888888899999999732 2 23456678899
Q ss_pred HHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 187 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
+++++.|+..... .. .....+....+.++...++++|+ +++...+..+++++++.|.
T Consensus 197 ~a~~~~gi~~~~~--~~-~~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 197 AYCESANLEPIYQ--TG-QLSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHcCCCceee--eC-CCCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 9999999863211 11 11222223334444334577765 5566778889999999886
No 210
>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=96.65 E-value=0.5 Score=50.50 Aligned_cols=198 Identities=10% Similarity=0.020 Sum_probs=103.7
Q ss_pred EEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 002505 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (914)
Q Consensus 35 IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~ 112 (914)
||++.|.. ..+-.....+++-+.++. |....+...++..++..-.+....++.+++++||- |..+.....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~ 72 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSVYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVP 72 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCeeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 57777653 333334455666655543 32212222345567777777788888888887653 443333333
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcH-HHHHHHHHHH-HHc-CCeEEEEEEEeCCCc--cchHHHHHH
Q 002505 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDL-YQMAAIADIV-DYF-GWRNVIALYVDDDHG--RNGIAALGD 187 (914)
Q Consensus 113 v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~-~~~~a~~~~l-~~~-~w~~v~ii~~d~~~g--~~~~~~~~~ 187 (914)
....+...++|+|.+....+. + .....+...|. ..+...++.+ +++ +-.+|+++..+.... ....+.+++
T Consensus 73 ~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~ 147 (302)
T TIGR02637 73 ALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147 (302)
T ss_pred HHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHH
Confidence 445566789999987643321 1 12233433333 3344444543 333 336899887543221 223466777
Q ss_pred HHhhc---ccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 188 KLAEK---RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 188 ~l~~~---g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
.+++. +.++..... . .....+-...+.++... ++++|+. .....+...++++++.|..
T Consensus 148 ~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 148 ELKDPKYPKVKLVATVY-G-DDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHhhccCCCCEEEeeec-C-CchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 77654 334332211 1 12223333344444333 3455554 3456777788888888864
No 211
>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=96.40 E-value=0.15 Score=52.97 Aligned_cols=193 Identities=12% Similarity=-0.000 Sum_probs=103.6
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
|||+++|-. .....+..++..+++++.++. |.++ .+.+...++........+++++++.+||+ .+.....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~--~~~e~~~~~~~~~~~i~~~~~~g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEV--TYVENVPEGADAERVLRELAAQGYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeE--EEEecCCchHhHHHHHHHHHHcCCCEEEE-CchhhhHHH
Confidence 578888732 112234444445555554442 4444 44455546777888889999999999998 444555566
Q ss_pred HHhhccC-CccEEeeccCCCCCccCCCCceEeccCCcH---HHHHHHHHHHHHcCCeEEEEEEEeCC-CccchHHHHHHH
Q 002505 114 SHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDL---YQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDK 188 (914)
Q Consensus 114 ~~~~~~~-~ip~is~~a~~~~l~~~~~~~~~r~~p~~~---~~~~a~~~~l~~~~w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (914)
..++.++ ++.++...+.. . .|++........ ..+-.+|..+. +-.+|++|..... ........|.+-
T Consensus 73 ~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhh--cCCcEEEEcCcccHHHHHHHHHHHHH
Confidence 6777666 34444332211 1 133333322211 22333333333 3358999975432 222344566665
Q ss_pred Hhhc--ccEEEEeeccCCCC-ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 189 LAEK--RCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 189 l~~~--g~~v~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
++.. ++++.. .+.... +...-......+.+.++|+|+-.+ ....+++++++.|.
T Consensus 145 ~~~~~p~~~v~~--~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 145 ARSVNPDATVKV--IWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKGV 201 (258)
T ss_pred HHHHCCCcEEEE--EEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhCC
Confidence 5543 333332 222111 222224444555667999888777 23468888888763
No 212
>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=96.24 E-value=0.27 Score=51.58 Aligned_cols=199 Identities=11% Similarity=0.031 Sum_probs=108.4
Q ss_pred EEEEEecCCC--ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHH
Q 002505 34 NIGAVFALNS--TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~s~--~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~ 110 (914)
|||++.+.+. .........+..++++..++. |+.+.+...+ .+. ....++++++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 5899988552 222223333333444433332 5666554332 211 12345777665 222222
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCC-------CccchHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-------HGRNGIA 183 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~-------~g~~~~~ 183 (914)
.....+...++|+|......+ +...+ .+...+...+..+++.+...|.++++++..... ......+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~~~---~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSNPA---PDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCCCC---CCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 233445567899998754321 22223 355677777777888888889999999986542 2344577
Q ss_pred HHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc-cC---CCeEEEEEeChhHHHHHHHHHHhcCCCCCC-eEEEEe
Q 002505 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS-SM---MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (914)
Q Consensus 184 ~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~-~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (914)
.+++++++.|.. .....+....+..+....+.++. +. .+++|+. +....+..+++++++.|+..++ ..+++.
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~v~g~ 214 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMAIGALRALQEAGIKVPEDVSVISF 214 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEEE
Confidence 888999888731 10001111112222223334433 22 3565444 5677888899999999987554 344443
No 213
>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=96.19 E-value=0.75 Score=48.50 Aligned_cols=203 Identities=10% Similarity=-0.041 Sum_probs=106.4
Q ss_pred EEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-ch-HH
Q 002505 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF-SV-IA 110 (914)
Q Consensus 34 ~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~-s~-~~ 110 (914)
+||++.|.. ..+-.....+++-+.++. |+++ .+.++..++..-.+....++.++|++||=... .. ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 588888853 323234445555544432 4544 44566667766666777777778887764222 12 12
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHc--CCeEEEEEEEeCC-Ccc---chHHH
Q 002505 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGR---NGIAA 184 (914)
Q Consensus 111 ~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~v~ii~~d~~-~g~---~~~~~ 184 (914)
..+ ..+...++|+|......+.-....-..+-.+...+..-+..+++.|-.. |.++++++..... ... ...+.
T Consensus 72 ~~~-~~~~~~~iPvV~~d~~~~~~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~ 150 (280)
T cd06315 72 AEL-ELAQKAGIPVVGWHAGPEPGPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKE 150 (280)
T ss_pred HHH-HHHHHCCCCEEEecCCCCCCcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHH
Confidence 333 3455689999987553211000000013346666777778888877666 8899998864321 111 23334
Q ss_pred HHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc---CCCeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 185 ~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~---~~~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
+.++++..+ +..................++++.. ..+++ |++++...+..+++.+++.|+..+
T Consensus 151 ~~~a~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 151 IIEACKGCT--VLSIEDVPISRTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHhCCCCE--EEEecccCcchhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 444433333 3111111111111111123334332 23565 444556677789999999998654
No 214
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=96.09 E-value=0.02 Score=59.50 Aligned_cols=74 Identities=22% Similarity=0.247 Sum_probs=49.5
Q ss_pred CCCCChHHhhh-----CCCCeEE-EeCchhhhhhh---hhcCCCC---CCcccCCCHHHHHHHHhcCCCCCCeEEEEech
Q 002505 685 SPIKDIQSLVA-----SSDPIGY-QRGSFAENYLT---DELNIDK---SRLVPLNTAEEYEKALTDGPKNGGVSAVIDER 752 (914)
Q Consensus 685 ~~i~s~~dL~~-----~~~~i~~-~~~s~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~ 752 (914)
+.+++++||.+ .|++|++ ..|+.....++ +..+... -+++..+. .+...++.. |++|+++...
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~----g~iDa~~~~e 178 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRA----GEIDAAVLWE 178 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHT----TS-SEEEEET
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhC----CCcCEEEecC
Confidence 57899999943 3788998 56665444332 2333332 45555555 899999999 9999999999
Q ss_pred hhHHHHHhcCc
Q 002505 753 AYMEVFLSTRC 763 (914)
Q Consensus 753 ~~~~~~~~~~~ 763 (914)
++......+..
T Consensus 179 P~~~~~~~~g~ 189 (252)
T PF13379_consen 179 PFASQAEAKGI 189 (252)
T ss_dssp THHHHHHHTTS
T ss_pred CHHHHHHhccC
Confidence 99888776654
No 215
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.94 E-value=0.29 Score=51.34 Aligned_cols=119 Identities=20% Similarity=0.220 Sum_probs=77.9
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhh------hhhhhcCCCC---CCcccCC-CHHHHHHHHhcCCCCCCeEEEEechhh
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAEN------YLTDELNIDK---SRLVPLN-TAEEYEKALTDGPKNGGVSAVIDERAY 754 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~------~l~~~~~~~~---~~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 754 (914)
++|++++||. |+++++..-+.... +|....+.+. -.-+.+. +-+..+.+|.+ |.+|+.......
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~n----G~vDva~~~~~~ 207 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVAN----GQVDVAAVNSSA 207 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHc----CCceEEeccHHH
Confidence 7899999996 99999864443332 2222221221 1112233 37889999999 899988877665
Q ss_pred HHHHHhc--C---ceEEEeccccccccceeeecCCCC--ChhhHHHHHHhhhccCchHHHHH
Q 002505 755 MEVFLST--R---CEFSIIGQEFTRIGWGFAFPRDSP--LAVDMSIAILELSENGDLQRIHD 809 (914)
Q Consensus 755 ~~~~~~~--~---~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~i~~l~e~G~~~~i~~ 809 (914)
...+... . .++.++...-...+..++++++-| +++++..+++.+.+......+.+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~~~~~~~l~~ 269 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAKTEDKKILLD 269 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCccccchHHHH
Confidence 5544433 1 357777766555567788888877 99999999999987322333433
No 216
>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=95.62 E-value=0.055 Score=58.06 Aligned_cols=68 Identities=13% Similarity=0.168 Sum_probs=49.3
Q ss_pred CCChHHhhhCCCCeEEEeCchhhhhhhhh---cCCC--CCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhc
Q 002505 687 IKDIQSLVASSDPIGYQRGSFAENYLTDE---LNID--KSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLST 761 (914)
Q Consensus 687 i~s~~dL~~~~~~i~~~~~s~~~~~l~~~---~~~~--~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~ 761 (914)
|++++||. |++|++..|+..+.++.+. .+.. .-+++.. +..+...++.+ |.+||.+...++......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~----G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFIT----KDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhc----CCCcEEEEcCchHHHHHhC
Confidence 89999997 9999999998766555432 2332 2344444 44678899999 9999999988887655544
No 217
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=95.43 E-value=1.2 Score=48.26 Aligned_cols=205 Identities=12% Similarity=-0.017 Sum_probs=102.8
Q ss_pred CCeEEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCC-ChHHHHHHHHHHHhcCcEEEEcC
Q 002505 30 PPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNY-SRFLGMVEALTLLENETVAIIGP 104 (914)
Q Consensus 30 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D-~~~-~~~~a~~~a~~li~~~v~aiiGp 104 (914)
....+++++.+-. ..+.+....|.+.+-++ . |.+++..... ... +.....+...++.+++...|+|.
T Consensus 33 ~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~----~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~ 104 (345)
T COG1744 33 GKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKE----L----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGT 104 (345)
T ss_pred ccceEEEEEecCCCCccchhHHHHHHHHHHHHH----h----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEe
Confidence 4455555555432 22233444455433333 2 4455554333 222 35566667777888888888874
Q ss_pred CCchHHHHHHHhhccC-CccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEE-eCCCccchH
Q 002505 105 QFSVIAHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYV-DDDHGRNGI 182 (914)
Q Consensus 105 ~~s~~~~~v~~~~~~~-~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~-d~~~g~~~~ 182 (914)
+.....++..++.++ ++.++-..+.-+.-. .-..+.||..-.....+.+.+...+ -.+++.+.. +-+--..+.
T Consensus 105 -gf~~~d~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~egayL~G~~AA~~sk---~~~vG~vgg~~~p~v~~f~ 179 (345)
T COG1744 105 -GFAFSDALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGAYLAGVAAAKMSK---SGKVGFVGGMDIPEVNRFI 179 (345)
T ss_pred -ccchhhHHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHHHHHHHHHHHhhc---CCceeEEecccchhhHHHH
Confidence 344445566666666 444443333221110 2234556665443333333333333 345665553 333334455
Q ss_pred HHHHHHHhhcccEEEEeeccCCCC-ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 183 AALGDKLAEKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 183 ~~~~~~l~~~g~~v~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
..|..-.+..+-.+.....+.... +...-......+.+.++|||+-.+.+.... ++.+|++.|..
T Consensus 180 ~gF~~Gak~~np~i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~~A~~~~~~ 245 (345)
T COG1744 180 NGFLAGAKSVNPDIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQAAKELGAY 245 (345)
T ss_pred HHHHHHHHhhCCCccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHHHHHHhCCC
Confidence 666666655443332222222111 223334466777788999998887665444 33367776653
No 218
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.07 E-value=4.6 Score=41.60 Aligned_cols=206 Identities=9% Similarity=-0.003 Sum_probs=118.2
Q ss_pred CCCCCeEEEEEEecCC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEc
Q 002505 27 STIPPVLNIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVA-IIG 103 (914)
Q Consensus 27 ~~~~~~i~IG~i~~~s--~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiG 103 (914)
++......||+..|.- ..+ ..-..++.-+.|.+ |.+. .+.+-.++...-......++++++.+ ||+
T Consensus 20 aa~~~d~~IGis~~d~~~eRW-~~D~~~~~~~~e~~--------g~k~--~~q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 20 AAAAKDGVIGISMPDLRSERW-IKDRDAFVKKAEAL--------GAKV--DVQSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhccCCeEEEEcCChhHhhh-hhhhHHHHHHHHhc--------cchh--hhhhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 4456778999998864 222 23344444444443 3333 34455567777778899999997764 578
Q ss_pred CCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcH----HHHHHHHHHHHHcC---CeEEEEEE-E-e
Q 002505 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDL----YQMAAIADIVDYFG---WRNVIALY-V-D 174 (914)
Q Consensus 104 p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~----~~~~a~~~~l~~~~---w~~v~ii~-~-d 174 (914)
+.++.....+...+...+||+|+|.-.-. +.... |.+..... .|+.++.+-++.-. -..+.++. + +
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaYDRlI~---n~dvd--~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~ 163 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAYDRLIN---NADVD--FYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPD 163 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEeecccc---cCCcc--EEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCC
Confidence 99999999999999999999998743322 22223 33334444 35555544443332 33454554 2 2
Q ss_pred CC----CccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc---CCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 175 DD----HGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 175 ~~----~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~---~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
|. +-...+..++.....-.++++.+...+ ....+.-...++.+.. .+.|.|+...+ ..+...+.+++.+|+
T Consensus 164 DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d-~W~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl 241 (341)
T COG4213 164 DNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTD-GWLPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGL 241 (341)
T ss_pred CcchHHHHhcHHHHHHHHhhCCceEEeeecccc-ccCHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhccc
Confidence 21 222334555555554456665554443 2333333333333322 34555555444 677788999999998
Q ss_pred CCC
Q 002505 248 MES 250 (914)
Q Consensus 248 ~~~ 250 (914)
.++
T Consensus 242 ~g~ 244 (341)
T COG4213 242 AGK 244 (341)
T ss_pred CCC
Confidence 744
No 219
>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=94.78 E-value=1.2 Score=44.01 Aligned_cols=197 Identities=17% Similarity=0.172 Sum_probs=120.3
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+||||+... +. ..+..+++..+.+..+ .++++... ++...+++.|.+|++|+++...
T Consensus 6 ~~l~Ig~~~~--~~------------~~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASPS--FA------------SSLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEHH--HH------------HHTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEhH--HH------------HHHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 4688888751 11 2455678888888876 35566655 5578999999999999998754
Q ss_pred EEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchh
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIG 629 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (914)
.. ....+. ..++....+++++++..+...
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~----------------------------------------------- 92 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ----------------------------------------------- 92 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTSGGGT-----------------------------------------------
T ss_pred ec---cccccc-cccccceeeeeeeeccccccc-----------------------------------------------
Confidence 43 222232 567778888999887652111
Q ss_pred hHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEE-eCchh
Q 002505 630 TILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQ-RGSFA 708 (914)
Q Consensus 630 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~-~~s~~ 708 (914)
...+ +++||. +.++... .+...
T Consensus 93 ------------------------------------------------------~~~i-~~~dL~--~~~~i~~~~~~~~ 115 (209)
T PF03466_consen 93 ------------------------------------------------------KKPI-TLEDLA--DYPLILLSPGSPY 115 (209)
T ss_dssp ------------------------------------------------------TSSS-SGGGGT--TSEEEEESTTTSH
T ss_pred ------------------------------------------------------cccc-hhhhhh--hcccccccccccc
Confidence 0334 789996 5555443 34434
Q ss_pred hhhhhhh---cCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccccccccceeeecCCC
Q 002505 709 ENYLTDE---LNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQEFTRIGWGFAFPRDS 785 (914)
Q Consensus 709 ~~~l~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s 785 (914)
...+.+. .+.........++.+.....+.. |..-+++-+.....+.....-....+...-....++++.+++.
T Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~ 191 (209)
T PF03466_consen 116 RDQLDRWLREHGFSPNIVIEVDSFESILSLVAS----GDGIAILPDSLAQDELESGELVFLPLPDPPLPRPIYLVWRKDR 191 (209)
T ss_dssp HHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHT----TSEBEEEEHHHHHHHHHCTTEEEEEESSSTEEEEEEEEEETTG
T ss_pred ccccccccccccccccccccccchhhhcccccc----ccceeecCcccccccccCCCEEEEECCCCCCceEEEEEEECCC
Confidence 4444322 23322334557888999999988 5555555544433443222223233444223377888999988
Q ss_pred CChhhHHHHHHhhhc
Q 002505 786 PLAVDMSIAILELSE 800 (914)
Q Consensus 786 pl~~~~~~~i~~l~e 800 (914)
+....+...+..+++
T Consensus 192 ~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 192 PLSPAIQWFIDLLRE 206 (209)
T ss_dssp TTHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 777776666655543
No 220
>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=94.35 E-value=2.2 Score=41.05 Aligned_cols=70 Identities=23% Similarity=0.296 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..++++.+.++.+ ++++++.. .....++..+.+|++|+++..... ....++ ..++....+++++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 455667777877764 35566554 446789999999999999865433 222333 446667778888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 221
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=94.33 E-value=0.15 Score=55.02 Aligned_cols=61 Identities=21% Similarity=0.139 Sum_probs=39.2
Q ss_pred CCCCChHHhhhCCCCeEEEeC-chhhhhh---hhhcCCCCCC--cccCCCHHHHHHHHhcCCCCCCeEEEEec
Q 002505 685 SPIKDIQSLVASSDPIGYQRG-SFAENYL---TDELNIDKSR--LVPLNTAEEYEKALTDGPKNGGVSAVIDE 751 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~-s~~~~~l---~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~ 751 (914)
.++++++||. ++++++... +.....+ .+..+..... .+.+.+..+...+|.+ |++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVLKAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHHHHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 4678999996 777776533 3222211 1223333222 3567788889999999 899999987
No 222
>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=94.24 E-value=0.44 Score=50.43 Aligned_cols=71 Identities=15% Similarity=0.240 Sum_probs=47.6
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhhh---hcCCCCCCc-ccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHh
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLTD---ELNIDKSRL-VPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLS 760 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 760 (914)
.+|++++||. |++|++..++.....+.. ..+.+...+ ..+.+..+...++.+ |.+|+++...++...+..
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~----g~vda~~~~~p~~~~~~~ 164 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAA----GQVDAWAIWEPWGSALVE 164 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHC----CCCCEEEeccchHhHHhh
Confidence 5789999996 888998877654443322 223332222 222456788899999 899999998887766554
Q ss_pred c
Q 002505 761 T 761 (914)
Q Consensus 761 ~ 761 (914)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 4
No 223
>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=94.19 E-value=4.6 Score=42.20 Aligned_cols=155 Identities=12% Similarity=0.032 Sum_probs=90.0
Q ss_pred HHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEE
Q 002505 93 LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALY 172 (914)
Q Consensus 93 li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~ 172 (914)
+...+|+++|-.........+. .+...++|+|......+. +...++ +...+..-+..+++.+...|.+++++|.
T Consensus 52 l~~~~vdgiIi~~~~~~~~~~~-~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 52 LDALDIDGAILVEPMADDPQVA-RLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred hhccCcCeEEEecCCCCCHHHH-HHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 3345888766321111122233 345579999987653210 112232 3456666667777888888999999996
Q ss_pred EeC--CCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC--CCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 173 VDD--DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 173 ~d~--~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
... .......+.+++++++.|+...... .....+..+-...+.++.+. ++++|+. .+...+..+++++++.|+.
T Consensus 126 ~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~gvl~al~~~gl~ 203 (269)
T cd06287 126 GSARRNSYLEAEAAYRAFAAEHGMPPVVLR-VDEAGGEEAGYAACAQLLAQHPDLDALCV-PVDAFAVGAVRAATELGRA 203 (269)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCcceeE-ecCCCChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 432 2334557789999998887532211 11112223333444554332 4666554 4667888899999999987
Q ss_pred CCCeEEE
Q 002505 249 ESGYVWI 255 (914)
Q Consensus 249 ~~~~~~i 255 (914)
.|+-+=|
T Consensus 204 vP~dvsv 210 (269)
T cd06287 204 VPDQLRV 210 (269)
T ss_pred CCCceEE
Confidence 6654433
No 224
>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=94.18 E-value=3.5 Score=39.81 Aligned_cols=70 Identities=20% Similarity=0.138 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++...+++.+.+|++|+++... +.....+ ...++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCc-EEEEeecCcEEEEecC
Confidence 556788899988875 24555554 5577899999999999997532 2222222 2456667777887776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 54
No 225
>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=94.09 E-value=2.7 Score=41.33 Aligned_cols=73 Identities=19% Similarity=0.212 Sum_probs=49.0
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .+++.... ++...+++.|.+|++|+++........-...+. +.++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeC
Confidence 456678899988874 35566654 568899999999999999864322100012333 356777788888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 55
No 226
>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=93.86 E-value=0.96 Score=45.92 Aligned_cols=95 Identities=13% Similarity=0.074 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCC-------CChhHHHHHHHHhccCC
Q 002505 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTVSSMM 222 (914)
Q Consensus 150 ~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~i~~~~ 222 (914)
..-+.|+.+.++++|.++++++.. |-....+.+++.+++.|++|+....+... .+...+.+.+.++...+
T Consensus 105 tt~~~A~~~AL~alg~~RIalvTP---Y~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~ 181 (239)
T TIGR02990 105 VTPSSAAVDGLAALGVRRISLLTP---YTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPD 181 (239)
T ss_pred eCHHHHHHHHHHHcCCCEEEEECC---CcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCC
Confidence 334678899999999999999974 77888999999999999999876544321 23355666666666789
Q ss_pred CeEEEEEeChhHHHHHHHHHHh-cCC
Q 002505 223 SRILILHTYDIWGLEVLNAAKH-LRM 247 (914)
Q Consensus 223 ~~viil~~~~~~~~~il~~a~~-~g~ 247 (914)
+|+|++.|..-....++.++.+ +|.
T Consensus 182 aDAifisCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 182 ADALFLSCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred CCEEEEeCCCchhHHHHHHHHHHHCC
Confidence 9999999998888889988865 453
No 227
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=93.81 E-value=2.7 Score=44.88 Aligned_cols=83 Identities=12% Similarity=0.163 Sum_probs=55.6
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++|++... . ..++-..++..+.+..+ .+++.... ++-+.++++|.+|++|+++...
T Consensus 91 g~l~i~~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPT--V------------GPYLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecch--h------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 4688888752 1 12445567777777665 35566654 4578899999999999998643
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... ...+ .+.++....+++++++..
T Consensus 149 ~~~---~~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 149 VKE---SEAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred CCC---CCCe-EEEEeccCcEEEEecCCC
Confidence 222 1222 457888888899887655
No 228
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.67 E-value=3.8 Score=43.79 Aligned_cols=86 Identities=19% Similarity=0.191 Sum_probs=54.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.++|||+... . ...+..+++..+.+..+ .+.+.+.. +....++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--T------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--c------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 4699998751 1 12345567788877765 24455543 4578899999999999998632
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
....+....+ ...++....+++++++..
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2111111122 356777888888887755
No 229
>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=93.61 E-value=4.1 Score=39.55 Aligned_cols=70 Identities=16% Similarity=0.165 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...++.+|.+|++|+++...... ...+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecC
Confidence 455678888888874 34455543 4467889999999999998643221 22232 356777778887765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 230
>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=93.55 E-value=4.8 Score=38.85 Aligned_cols=70 Identities=17% Similarity=0.200 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++...+.+.+.+|++|+++.... .....+ -+.++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEP---EADPDL-EFEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCC---CCCCCe-eEEEeecccEEEEecC
Confidence 556778888888775 35566554 45788999999999999976322 222223 2356777788888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 231
>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=93.44 E-value=2.8 Score=40.97 Aligned_cols=70 Identities=17% Similarity=0.141 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++.+.+..+|.+|++|+++..... ....+ .+.|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l-~~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGF-FQQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccc-eEEEeecCceEEEEcC
Confidence 445678888888875 35566554 456688999999999999864321 12233 3567788888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 232
>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=93.40 E-value=5.6 Score=38.49 Aligned_cols=70 Identities=17% Similarity=0.169 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..++++.+.+..+ .++++... ++...++..|.+|++|+++..... ....+ -..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEF-DSQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCc-eeEEeccccEEEEecC
Confidence 456778889988875 35566654 557788999999999999864322 12223 2356667788888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 233
>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=93.29 E-value=5.6 Score=38.65 Aligned_cols=70 Identities=20% Similarity=0.211 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... .+...+...|.+|++|+++... +.....+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecC
Confidence 455678888888875 35566554 3467889999999999997532 2222222 3466777788888766
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 54
No 234
>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=93.21 E-value=5 Score=39.00 Aligned_cols=70 Identities=24% Similarity=0.292 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+-.+++..+.+..+ .++++... ++...+++++.+|++|+++... +.....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEeCC
Confidence 345678888888774 35565554 4577899999999999997532 22223333 467778888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 235
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=93.19 E-value=4.7 Score=43.58 Aligned_cols=152 Identities=11% Similarity=0.002 Sum_probs=85.8
Q ss_pred cCcEEEEc-CCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe
Q 002505 96 NETVAIIG-PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD 174 (914)
Q Consensus 96 ~~v~aiiG-p~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d 174 (914)
.+|+++|- |..+. .....+...++|+|......+ +..++ .+..++..-+..+++.+...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 57777664 22222 233445667899998654321 11223 2555666666778888888899999999643
Q ss_pred CC--CccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc--CCCeEEEEEeChhHHHHHHHHHHhcCCCCC
Q 002505 175 DD--HGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 175 ~~--~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~ 250 (914)
.. ......+.+++.++..|+. .....+.......+....+.++.. ..+++|+. +....+..++++++++|...|
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~vP 261 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKALFV-ASDSIAIGVLRAIHERGLNIP 261 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCC
Confidence 32 3344567788888877761 111111111122222333444433 24566444 456778889999999998655
Q ss_pred C-eEEEEeC
Q 002505 251 G-YVWIVTD 258 (914)
Q Consensus 251 ~-~~~i~~~ 258 (914)
+ ...++.|
T Consensus 262 ~di~vigfD 270 (327)
T PRK10339 262 QDISLISVN 270 (327)
T ss_pred CceEEEeeC
Confidence 3 3334433
No 236
>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=93.18 E-value=0.41 Score=48.22 Aligned_cols=60 Identities=33% Similarity=0.370 Sum_probs=38.3
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhh---hhcCCCCCCcccC-CCHHHHHHHHhcCCCCCCeEEEEe
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLT---DELNIDKSRLVPL-NTAEEYEKALTDGPKNGGVSAVID 750 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~i~ 750 (914)
+.|+++.||. |++|++..++....++. +..+...+.+... .+..+...+|.+ |++|+.+.
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~~ 146 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAIL 146 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEEE
Confidence 4699999997 99999988775444432 2334433333322 235667779999 89998883
No 237
>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=93.14 E-value=5.2 Score=38.80 Aligned_cols=71 Identities=15% Similarity=0.102 Sum_probs=48.6
Q ss_pred eeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEe
Q 002505 496 SGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (914)
Q Consensus 496 ~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~ 575 (914)
..+..+++..+.+..+ +++++... ++..++++++.+|++|+++... +.....+ ...|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDI-AFEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCccc-ceeeeeccceEEEec
Confidence 3566788888888875 34555554 5578899999999999997632 1122233 246777788888876
Q ss_pred ccC
Q 002505 576 IKK 578 (914)
Q Consensus 576 ~~~ 578 (914)
+..
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 238
>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=92.75 E-value=6.8 Score=40.32 Aligned_cols=143 Identities=6% Similarity=-0.052 Sum_probs=85.8
Q ss_pred HHHHHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHH--cCCeE
Q 002505 90 ALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRN 167 (914)
Q Consensus 90 a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~ 167 (914)
..++.+.+|+++|=-.+...........+..++|+|......+. ...++ .+...+..-+..+++.+-. .|.++
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~ 119 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKK 119 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCE
Confidence 33444567776663111111112344556578999987643221 11122 3555667777778787777 89999
Q ss_pred EEEEEEeC-CCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcC
Q 002505 168 VIALYVDD-DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (914)
Q Consensus 168 v~ii~~d~-~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 246 (914)
+++|.... ..+....+.+++++++.|+.... .. ... + . .+ .++++ |++.+...+..+++++++.|
T Consensus 120 Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~~~--~--~---~~--~~~~a-i~~~~d~~A~g~~~~l~~~g 185 (247)
T cd06276 120 LILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-DYE--N--R---EI--EKGDL-YIILSDTDLVFLIKKARESG 185 (247)
T ss_pred EEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-ccc--h--h---hc--cCCcE-EEEeCHHHHHHHHHHHHHcC
Confidence 99997543 34456688899999999976432 11 001 0 0 01 12455 55567788889999999999
Q ss_pred CCCCC
Q 002505 247 MMESG 251 (914)
Q Consensus 247 ~~~~~ 251 (914)
+..|+
T Consensus 186 ~~iP~ 190 (247)
T cd06276 186 LLLGK 190 (247)
T ss_pred CcCCc
Confidence 86554
No 239
>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=92.61 E-value=3.9 Score=40.08 Aligned_cols=69 Identities=19% Similarity=0.234 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+...++..+.+..+ .+++.... ++. .+++.|.+|++|+++..-... ...+. ..|+....++++++.
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcC
Confidence 344567777877775 34565553 345 899999999999998632211 12233 446777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 55
No 240
>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=92.48 E-value=7 Score=38.46 Aligned_cols=71 Identities=13% Similarity=0.268 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++++... ++...++++|.+|++|+++..... ..+.++ ..++.+..+++++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEeC
Confidence 566788999988875 345655531 246789999999999999863221 112233 367778888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (203)
T cd08463 82 DH 83 (203)
T ss_pred CC
Confidence 65
No 241
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=92.39 E-value=4.6 Score=43.37 Aligned_cols=84 Identities=17% Similarity=0.138 Sum_probs=53.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+... . ...+..+++..+.++.+ .+.+.... ++...++..|.+|++|+++..-
T Consensus 93 g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~~ 150 (313)
T PRK12684 93 GNLTIATTHT--Q------------ARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIATE 150 (313)
T ss_pred CeEEEEechH--H------------HHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEeec
Confidence 4699999751 1 12445677888887764 34555554 5578899999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.... ...+ -..|+....++++++...
T Consensus 151 ~~~~--~~~l-~~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 151 AIAD--YKEL-VSLPCYQWNHCVVVPPDH 176 (313)
T ss_pred CCCC--CCCc-eEEEeccceEEEEeCCCC
Confidence 1111 1122 246677777888877654
No 242
>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=92.33 E-value=8.5 Score=37.35 Aligned_cols=72 Identities=24% Similarity=0.260 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...+..+|.+|++|+++...... .....+ ...++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKEL-ISEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCcce-eEEeecCCceEEEeCC
Confidence 455677888888875 35566654 5578899999999999998632111 111223 3456667778888765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 243
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=92.30 E-value=6.6 Score=41.64 Aligned_cols=83 Identities=12% Similarity=0.166 Sum_probs=56.1
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+++||+... . ...+..+++..+.++.+ .+.++... +....++..+.+|++|+++...
T Consensus 91 ~~i~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTPT--F------------TAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEeccc--h------------hhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 4699988741 1 12445678888888865 45566654 4578889999999999998532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
+.....+ .+.++....+++++++..
T Consensus 149 ---~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 ---PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred ---CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222333 357777888888887754
No 244
>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=92.26 E-value=4.7 Score=39.23 Aligned_cols=70 Identities=26% Similarity=0.295 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...+...+.+|++|+++.... .....+ -..++....++++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecC
Confidence 455677888888764 34455543 55788999999999999986322 222233 2467778888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 245
>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=92.26 E-value=9.4 Score=36.72 Aligned_cols=70 Identities=20% Similarity=0.233 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+...++..+.+..+ .++++... +....++.++.+|++|+++.... .....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 455667888888764 24555543 45778899999999999975332 2223333 356777788888766
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 246
>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=92.11 E-value=9 Score=37.35 Aligned_cols=71 Identities=17% Similarity=0.182 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
++..+++..+.+..+ .+.+.... ++...+++.+.+|++|+++..-.. .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (198)
T cd08444 13 YALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVPV 81 (198)
T ss_pred hhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEecC
Confidence 566788899988875 35555554 557789999999999999853211 111223 3467777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (198)
T cd08444 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 247
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=91.93 E-value=10 Score=39.93 Aligned_cols=83 Identities=19% Similarity=0.181 Sum_probs=52.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++||+... . ...+..+++..+.+..+ .++++... +....++..+.+|++|+++...
T Consensus 89 g~l~i~~~~~--~------------~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASST--I------------GNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecch--h------------HhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 4689998852 1 12345567788888864 24455543 4577899999999999998532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... ...+ ...++....+++++++..
T Consensus 147 ~~~---~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 PCH---SPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred CCC---CCce-eEEEeecceEEEEEcCCC
Confidence 211 1222 235666777888877654
No 248
>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=91.74 E-value=5.5 Score=41.08 Aligned_cols=119 Identities=13% Similarity=0.082 Sum_probs=68.5
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhh----hhhhcCC--------------------CCCCcccCCCHHHHHHHHhcCC
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENY----LTDELNI--------------------DKSRLVPLNTAEEYEKALTDGP 740 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~----l~~~~~~--------------------~~~~~~~~~~~~~~~~~l~~~~ 740 (914)
..+++++||. .|.+|++.++...... | +..+. ..-+++.. ...+...++.+
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L-~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~-- 180 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLL-QKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDD-- 180 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHH-HHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhc--
Confidence 6899999995 4889999876543332 2 22222 11223333 34556788888
Q ss_pred CCCCeEEEEechhhHHHHHhcC--ceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHH
Q 002505 741 KNGGVSAVIDERAYMEVFLSTR--CEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKW 811 (914)
Q Consensus 741 ~~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~ 811 (914)
|.+|+.+...+++.-..-.. ..+.. ...-.++-..++++.+..=.+.+.+.+..+++...-+.|.++|
T Consensus 181 --g~vDaa~v~~~~~~~agl~~~~~~i~~-e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 181 --PKVDLAVINTTYAGQVGLNPQDDGVFV-EDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred --ccccEEEEChHHHHHcCCCcCcCceee-cCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 88999999888765542221 11221 1111122235566665445667777777777777666666654
No 249
>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=91.74 E-value=13 Score=35.90 Aligned_cols=70 Identities=20% Similarity=0.262 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... +....++.++.+|++|+++....... ..+ ...++....++++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecC
Confidence 355677888888864 24555554 45778899999999999985322111 112 3466777888888765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 54
No 250
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=91.74 E-value=5.9 Score=42.30 Aligned_cols=83 Identities=18% Similarity=0.142 Sum_probs=51.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..|+||+.. +.. ...+..+++..+.+..+ .+++.+.. +....+...|.+|++|+++...
T Consensus 91 g~l~I~~~~--~~~-----------~~~~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~~ 149 (305)
T PRK11233 91 GQVSIGLAP--GTA-----------ASSLTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIYE 149 (305)
T ss_pred ceEEEEccc--chh-----------hHHHHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEcC
Confidence 469998864 110 11344557888888764 34555544 4467889999999999998532
Q ss_pred EEecCcceeeeeccceeecceEEEEecc
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
.. ....+ ...|+.+..+++++++.
T Consensus 150 ~~---~~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 150 HS---PVAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred Cc---CCCCc-EEEEEeeeeEEEEEcCc
Confidence 21 11223 34577778888777654
No 251
>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=91.59 E-value=12 Score=36.24 Aligned_cols=70 Identities=11% Similarity=0.047 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...+++++.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 445677888887764 34555553 456789999999999999853221 112232 466777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 252
>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=91.57 E-value=10 Score=36.65 Aligned_cols=70 Identities=13% Similarity=0.099 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... +...++..++.+|++|+++..... ....+ .+.|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL---DHPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC---CCCcc-eeeeecccceEEEEcC
Confidence 556788899988875 35566554 557789999999999999853221 12222 3567777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (196)
T cd08415 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 253
>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=91.48 E-value=12 Score=40.04 Aligned_cols=199 Identities=11% Similarity=0.005 Sum_probs=102.9
Q ss_pred EEEEEEecCC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCCch
Q 002505 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQFSV 108 (914)
Q Consensus 33 i~IG~i~~~s---~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~s~ 108 (914)
.++++++|-. ..+.+....|++-+.++ . +|. ++...+... ++........++.+++...||+ .+..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~----~---~~i--~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~-~g~~ 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKE----L---DGI--EIIYVENVPETDADYEEAIRQLADQGYDLIIG-HGFE 71 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHH----C---TTE--EEEEEES-S-TCHHHHHHHHHHHHTT-SEEEE-ESGG
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHH----c---CCc--eEEEEecCCccHHHHHHHHHHHHHcCCCEEEE-ccHH
Confidence 4677777654 22223344444444444 2 233 444444443 5666677778888889999997 4445
Q ss_pred HHHHHHHhhccC-CccEEeeccCCCCCccCCCCceEeccCCcH---HHHHHHHHHHHHcCCeEEEEEE---E-eCCCccc
Q 002505 109 IAHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDL---YQMAAIADIVDYFGWRNVIALY---V-DDDHGRN 180 (914)
Q Consensus 109 ~~~~v~~~~~~~-~ip~is~~a~~~~l~~~~~~~~~r~~p~~~---~~~~a~~~~l~~~~w~~v~ii~---~-d~~~g~~ 180 (914)
...++..++.++ ++-++...+..... .+++........ ..+-.+|.++.+- .+++.+. . +...-..
T Consensus 72 ~~~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~ 145 (306)
T PF02608_consen 72 YSDALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNR 145 (306)
T ss_dssp GHHHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHH
T ss_pred HHHHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhHHH
Confidence 556777888877 56555544433221 145544444322 2333333334333 5778777 4 3333445
Q ss_pred hHHHHHHHHhhcccEEEEeeccCCCC-ChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCCC
Q 002505 181 GIAALGDKLAEKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMM 248 (914)
Q Consensus 181 ~~~~~~~~l~~~g~~v~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~~ 248 (914)
....|..-++..+-.+.....+.... +...-...-..+-..++|+|+-.+.. ....++++|++.|..
T Consensus 146 ~~~gF~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 146 FINGFIAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTHE
T ss_pred HHHHHHHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCCc
Confidence 56677777665543333322332222 23333444455556899999886554 455588899987753
No 254
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=91.46 E-value=10 Score=40.66 Aligned_cols=207 Identities=11% Similarity=0.100 Sum_probs=124.2
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..||||+... + ...+..++++.+.+..+ .+.+.... ++...++++|.+|++|+++...
T Consensus 93 g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 93 GVLTIATTHT--Q------------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred ceEEEEechH--h------------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEecc
Confidence 4699999751 1 12556678888888765 34555543 5577899999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchh
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIG 629 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (914)
.. .....+. +.++....+++++++..+...
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~v~~~~hpl~~----------------------------------------------- 180 (316)
T PRK12679 151 RL--SNDPQLV-AFPWFRWHHSLLVPHDHPLTQ----------------------------------------------- 180 (316)
T ss_pred cC--CCCCCce-EEEccCCcEEEEecCCCcccc-----------------------------------------------
Confidence 21 1112333 357778888888876552110
Q ss_pred hHHHHHHHHhhhcCccccccchhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCe-EEEeCchh
Q 002505 630 TILWFSFSTLFFSHKERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPI-GYQRGSFA 708 (914)
Q Consensus 630 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i-~~~~~s~~ 708 (914)
...-+++||. +.++ ....+...
T Consensus 181 -------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~~ 203 (316)
T PRK12679 181 -------------------------------------------------------ITPLTLESIA--KWPLITYRQGITG 203 (316)
T ss_pred -------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCcH
Confidence 1223678886 4443 33334322
Q ss_pred ----hhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEec--cccccccceeeec
Q 002505 709 ----ENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIG--QEFTRIGWGFAFP 782 (914)
Q Consensus 709 ----~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~ 782 (914)
..++. ..+.........++.+...+.+.. |..-+++-... ... . +..++..+. .......++++.+
T Consensus 204 ~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~v~~----g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~~ 275 (316)
T PRK12679 204 RSRIDDAFA-RKGLLADIVLSAQDSDVIKTYVAL----GLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGLK 275 (316)
T ss_pred HHHHHHHHH-HcCCCceEEEEeccHHHHHHHHHc----CCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEEe
Confidence 22332 223332334556788888888888 55555554433 332 1 333455443 2333456888999
Q ss_pred CCCCChhhHHHHHHhhhccCchHHHHHHHcC
Q 002505 783 RDSPLAVDMSIAILELSENGDLQRIHDKWLT 813 (914)
Q Consensus 783 k~spl~~~~~~~i~~l~e~G~~~~i~~~~~~ 813 (914)
++.+....+...+..+.+.--.+.+.++-+.
T Consensus 276 ~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 276 RGQLQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred CCchhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 9988888888888777666667777776654
No 255
>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=91.36 E-value=1.1 Score=46.41 Aligned_cols=102 Identities=15% Similarity=0.131 Sum_probs=61.8
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHH-HhcCc
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVF-LSTRC 763 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~-~~~~~ 763 (914)
.+|++++||. |+++.+..++.....++ .++ ...+ ..+..|...+|++ |.+|+.+.....+..+ +.+..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~-~~G---a~~v-~~~~~e~~~aL~~----G~vDg~~~~~~~~~~~~~~ev~ 194 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFK-ALG---ANPE-PMAFSEVYTALQT----GVVDGQENPLSNVYSSKFYEVQ 194 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHH-HcC---Cccc-ccCHHHHHHHHHc----CCcccccCCHHHHhhcchhhhc
Confidence 5799999996 99999877766666664 333 2333 5577899999999 8999988765443221 11112
Q ss_pred eEEEeccccccccceeeecCC--CCChhhHHHHHHhh
Q 002505 764 EFSIIGQEFTRIGWGFAFPRD--SPLAVDMSIAILEL 798 (914)
Q Consensus 764 ~l~~~~~~~~~~~~~~~~~k~--spl~~~~~~~i~~l 798 (914)
++..... .......+.+.++ ..|-+....+|...
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 195 KYLSMTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred chheecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 2222222 2234455667665 22556655555544
No 256
>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=91.31 E-value=3.1 Score=40.73 Aligned_cols=70 Identities=17% Similarity=0.226 Sum_probs=47.3
Q ss_pred eeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEe
Q 002505 496 SGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (914)
Q Consensus 496 ~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~ 575 (914)
..+..+++..+.++.+ .++++... ++. .+++.+.+|++|+++..... ....+. ..|+.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3566778888888875 35566553 345 78899999999999863221 112233 46777888888887
Q ss_pred ccC
Q 002505 576 IKK 578 (914)
Q Consensus 576 ~~~ 578 (914)
+..
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 655
No 257
>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=91.19 E-value=14 Score=37.57 Aligned_cols=206 Identities=11% Similarity=0.062 Sum_probs=115.4
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEe-cC-CCChHHHHHHHHHHHhc-CcEEEEc-CCCc
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVH-DT-NYSRFLGMVEALTLLEN-ETVAIIG-PQFS 107 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~-D~-~~~~~~a~~~a~~li~~-~v~aiiG-p~~s 107 (914)
..+||++.+-.+. +....+|++..+++--+. .|.-+++ |. ..+-.........|..+ .+-|||- ..-+
T Consensus 2 ~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TTT--HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 5789999875443 456677777777765322 5555554 32 34666777777777777 5666653 3444
Q ss_pred hHHHHHHHhhc-cCCccEEeeccCC-CCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccch----
Q 002505 108 VIAHLVSHIAN-EFQVPLLSFAATD-PSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG---- 181 (914)
Q Consensus 108 ~~~~~v~~~~~-~~~ip~is~~a~~-~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~---- 181 (914)
+.+.++..+=+ +-.|.+|+-.+.. |..-++..+ +-+.+.....+..++...+.+|-++++-++....-+...
T Consensus 74 Gt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~R 151 (275)
T PF12683_consen 74 GTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARR 151 (275)
T ss_dssp --HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHH
T ss_pred chHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHH
Confidence 55555555554 3467777533222 211111122 344577778899999999999999999887554433333
Q ss_pred HHHHHHHHhhcccEEEEeeccCCCCCh--hH-----HHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 182 IAALGDKLAEKRCRLSHKVPLSPKGSR--NQ-----IIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 182 ~~~~~~~l~~~g~~v~~~~~~~~~~~~--~d-----~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
.+.+++..++.|++.+....-.|..+. .. ...+-+.+++-+.++-+.++.......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 456667777889998877554432111 11 1233455666789999999999999999999998774
No 258
>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=91.14 E-value=8.4 Score=37.39 Aligned_cols=70 Identities=14% Similarity=0.076 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+-.+++..+.+..+ .++++... ++...++..+.+|++|+++.... .....+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPE---YAPDGL-RSRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCc---cCCccc-eeeeeecCcEEEEEcC
Confidence 455678888888875 34455543 34567899999999999975321 112223 2567777888888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 259
>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=91.05 E-value=0.98 Score=46.88 Aligned_cols=87 Identities=17% Similarity=0.109 Sum_probs=69.2
Q ss_pred EEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 002505 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (914)
Q Consensus 34 ~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 113 (914)
+||++.+...+.......|+...++..| |+.++...+..+-.|+.++.+.+..|+++++++|.+.. +. ..+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~-~~--~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT-DS--PGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC-CC--hHH
Confidence 7999988876555667789999998888 56777777777888999999999999999999888765 22 345
Q ss_pred HHhhccCCccEEeecc
Q 002505 114 SHIANEFQVPLLSFAA 129 (914)
Q Consensus 114 ~~~~~~~~ip~is~~a 129 (914)
...+++.++..|.+..
T Consensus 193 ~~aa~~~g~~~IG~d~ 208 (258)
T cd06353 193 IQAAEEKGVYAIGYVS 208 (258)
T ss_pred HHHHHHhCCEEEeecc
Confidence 6777788999997653
No 260
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=90.75 E-value=7.3 Score=42.02 Aligned_cols=84 Identities=15% Similarity=0.061 Sum_probs=54.2
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..|+||+... + ...+..+++..+.+..+ ++++.... ++...++..+.+|++|+++...
T Consensus 93 g~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~~ 150 (324)
T PRK12681 93 GSLYIATTHT--Q------------ARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIATE 150 (324)
T ss_pred CeEEEEechh--H------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 5699999751 1 12455667788887765 35566654 5688999999999999998632
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
. ......+. ..|+....+++++++..
T Consensus 151 ~--~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 151 A--LHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred c--ccCCCCeE-EEEeccceeEEEeCCCC
Confidence 1 11122233 34666677777776544
No 261
>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=90.62 E-value=8.6 Score=37.37 Aligned_cols=70 Identities=17% Similarity=0.166 Sum_probs=48.0
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... ++...++.+|.+|++|+++... +.....+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSF-KSELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCc-eeeeecccceEEEEeC
Confidence 455678888888875 35566654 5677899999999999998532 2222233 2457777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 262
>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=90.41 E-value=14 Score=36.03 Aligned_cols=70 Identities=16% Similarity=0.149 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... +....+++.|.+|++|+++... +.....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEEcC
Confidence 455678888888875 35566654 4566889999999999998532 11122233 357778888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 54
No 263
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=90.34 E-value=9.1 Score=40.95 Aligned_cols=84 Identities=19% Similarity=0.195 Sum_probs=53.6
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+... .. ..+...++..+.++.+ .+++.... +.+++++..|.+|++|+++...
T Consensus 93 g~l~Ig~~~~--~~------------~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~ 150 (309)
T PRK12683 93 GHLTVATTHT--QA------------RYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATE 150 (309)
T ss_pred ceEEEEeccc--hH------------HHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecC
Confidence 4699999751 11 1344567788877764 34555554 5689999999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. .....+.+ .|+....+++++++..
T Consensus 151 ~~--~~~~~l~~-~~l~~~~~~~v~~~~h 176 (309)
T PRK12683 151 AL--DREPDLVS-FPYYSWHHVVVVPKGH 176 (309)
T ss_pred CC--CCCCCceE-EEcccCeEEEEecCCC
Confidence 11 11223333 3666777888877654
No 264
>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=89.98 E-value=17 Score=34.84 Aligned_cols=71 Identities=20% Similarity=0.135 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ ++.++... ++...+++.+.+|++|+++..... .....+ ...++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGL-ASRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCc-EEEEeecceEEEEecC
Confidence 456677888888775 35566554 457788999999999999864322 122223 2456667777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 265
>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=89.83 E-value=1.1 Score=42.54 Aligned_cols=100 Identities=16% Similarity=0.166 Sum_probs=64.3
Q ss_pred HHHHHHcCCeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHH-HHhccCCCeEEEEEeChh
Q 002505 157 ADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTL-LTVSSMMSRILILHTYDI 233 (914)
Q Consensus 157 ~~~l~~~~w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~~~viil~~~~~ 233 (914)
++.+...|.+++++|..+ ..+.....+.+++++++.|+.......... ....+..... ..+++..+++||+ ++..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~pdaii~-~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSD-DDSEDAREAQLLWLRRLRPDAIIC-SNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEES-SSHHHHHHHHHHHHHTCSSSEEEE-SSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecC-CcchhHHHHHHHHHhcCCCcEEEE-cCHH
Confidence 456778899999999933 334556678899999999988654443332 2222232222 2333346776655 7778
Q ss_pred HHHHHHHHHHhcCCCCCC-eEEEEeC
Q 002505 234 WGLEVLNAAKHLRMMESG-YVWIVTD 258 (914)
Q Consensus 234 ~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (914)
.+..+++++++.|+..++ ...++.+
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred HHHHHHHHHHHcCCcccccccEEEec
Confidence 899999999999996553 4444433
No 266
>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=89.77 E-value=14 Score=35.80 Aligned_cols=70 Identities=14% Similarity=0.176 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...+++.+.+|++|+++..... ....+ -..++.+..++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGL-EEEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCc-eEEEeeccceEEEecC
Confidence 355677888888765 34566554 557889999999999999753221 11222 2345667777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 54
No 267
>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=89.69 E-value=13 Score=36.25 Aligned_cols=71 Identities=18% Similarity=0.129 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++++.. +....+++.+.+|++|+++..... .....+. +.+..+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecC
Confidence 455678888888875 35566654 557889999999999999853211 1122233 467778888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 55
No 268
>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=89.42 E-value=20 Score=35.22 Aligned_cols=71 Identities=13% Similarity=0.111 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++...++..|.+|++|+++.......+-...+ ...|+.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 455677888888774 35566654 66899999999999999975322111100111 2447777777776654
No 269
>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=89.35 E-value=0.49 Score=38.71 Aligned_cols=55 Identities=24% Similarity=0.372 Sum_probs=45.1
Q ss_pred CCchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHhhhhccccceeeeeee
Q 002505 625 RRQIGTILWFSFSTLFFSH--KERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILT 679 (914)
Q Consensus 625 ~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt 679 (914)
..++.+++|+++.++...| .-.|.+..+|++.+.+.+.++.+.....+.+++.++
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 5678999999999998775 447888889999999999999999888887776553
No 270
>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=89.26 E-value=16 Score=35.25 Aligned_cols=70 Identities=11% Similarity=0.104 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+...++..+.++.+ .+.+.... .....+.+.+.+|++|+++... +.....+ ...++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDI-DAQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCc-EEEEeccccEEEEecC
Confidence 345678888888765 45566654 4467889999999999998532 2222223 2466777788888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 54
No 271
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=89.13 E-value=19 Score=38.44 Aligned_cols=84 Identities=17% Similarity=0.127 Sum_probs=55.1
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..|+||+.+ .+ ...+..+++..+.+..+ .+++.... ++.+.+++.+.+|++|+++...
T Consensus 93 g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTH--TQ------------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCc--hH------------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 358998874 11 12455677888888775 34555543 4567899999999999998632
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. .....++ +.|+....++++++...
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 151 SL--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred cc--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 21 1122333 35777888888887655
No 272
>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=89.12 E-value=18 Score=34.80 Aligned_cols=72 Identities=22% Similarity=0.230 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+-.+++..+.+..+ .++++... ++.+.+++.+.+|++|+++...... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEEECC
Confidence 455678888888775 34566554 5578899999999999998632111 101223 2456677788888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 273
>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=88.67 E-value=9.9 Score=37.15 Aligned_cols=70 Identities=16% Similarity=0.166 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
++..+++..+.++.+ .++++... ++..+++++|.+|++|+++...... ...+.. .++.+..+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 556678888877765 35566554 5688999999999999998633211 223332 46667788888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 274
>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=88.54 E-value=18 Score=35.87 Aligned_cols=70 Identities=14% Similarity=0.168 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... .+...+.+.+.+|++|+++.... .....+. ..|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeC
Confidence 445677888888765 34555554 45778999999999999986332 2223343 467777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 54
No 275
>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=88.46 E-value=22 Score=34.31 Aligned_cols=69 Identities=17% Similarity=0.210 Sum_probs=44.8
Q ss_pred eeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 498 ~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
+-..++..+.+..+- +++.... ++...+..+|.+|++|+++..-.. ....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 446788888888752 4555543 457789999999999999853221 112222 3456667777777654
Q ss_pred C
Q 002505 578 K 578 (914)
Q Consensus 578 ~ 578 (914)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 276
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=88.31 E-value=22 Score=38.38 Aligned_cols=84 Identities=15% Similarity=0.061 Sum_probs=56.5
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..||||+... . ...+..++++.+.+..+ .+.+.+.. +..+.++++|.+|++|+++...
T Consensus 93 g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHT--Q------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecch--h------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 4699999852 1 12455678888888886 34566554 5578999999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. ....... ..|+....++++++...
T Consensus 151 ~~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 151 AG--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CC--CCCCcce-EEEeeccceEEEEeCCC
Confidence 11 1111222 46788888888887654
No 277
>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=88.25 E-value=5.8 Score=39.81 Aligned_cols=73 Identities=10% Similarity=-0.012 Sum_probs=41.6
Q ss_pred ccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccc-cccccceeeecCCCCChhhHHHHHHhhhcc
Q 002505 724 VPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQE-FTRIGWGFAFPRDSPLAVDMSIAILELSEN 801 (914)
Q Consensus 724 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~k~spl~~~~~~~i~~l~e~ 801 (914)
+...+..+..+.+.+ |++++.+......... ........++.. .....+++++.|+++-.+.-.+.|..|.+.
T Consensus 133 ~~~~~~~~~~~~~~~----Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s~ 206 (216)
T TIGR01256 133 VYGEDVRQALQFVET----GNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKSP 206 (216)
T ss_pred eecCcHHHHHHHHHc----CCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcCH
Confidence 334466778888888 8888877655432221 122333334433 223456889999887655555555444433
No 278
>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=87.92 E-value=26 Score=33.64 Aligned_cols=72 Identities=14% Similarity=0.053 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+...++..+.+..+ .+++.... +....+++.+.+|++|+++....... +...+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 456678888888875 35566654 45788999999999999985332210 122222 356677777877765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 279
>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=87.86 E-value=19 Score=34.66 Aligned_cols=73 Identities=15% Similarity=0.084 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEe--cCcceeeeeccceeecceEEEE
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAIT--TERTKMVDFTQPYIESGLVVVA 574 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~--~~r~~~~dft~p~~~~~~~~lv 574 (914)
.+..+++..+.+..+ .+++.... ++...++..+.+|++|+++...... ......+ ...++.+..+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 83 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVL 83 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEe
Confidence 455678888888875 35566554 4567889999999999998532110 1122223 35667778888888
Q ss_pred eccC
Q 002505 575 PIKK 578 (914)
Q Consensus 575 ~~~~ 578 (914)
++..
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 7654
No 280
>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=87.71 E-value=22 Score=34.40 Aligned_cols=70 Identities=14% Similarity=0.165 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
++...++..+.++.+ .++++... +....++..+.+|++|+++.... .....+ -..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFG---ELPAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCC---CCcccc-eeeeecccceEEEEeC
Confidence 455677888888864 35566554 44667889999999999985321 112233 3456777777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 43
No 281
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=87.68 E-value=2.8 Score=45.14 Aligned_cols=68 Identities=15% Similarity=0.114 Sum_probs=45.4
Q ss_pred CCCCChHHhhhCCCCeEEEeCchhhhhhh---hhcCCCCCC--cccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHH
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSFAENYLT---DELNIDKSR--LVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFL 759 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~~~~~l~---~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 759 (914)
+.|++++||. |++|++..++....++. +..+.+.+. ++.. ...+...++.+ |.+|+++...++.....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~Al~~----G~VDAa~~~~p~~~~~~ 184 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNL-QPPAIIAAWQR----GDIDGAYVWAPAVNALE 184 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEEC-CcHHHHHHHHc----CCcCEEEEcchHHHHHH
Confidence 3599999996 99999977665443322 233443333 3333 35778899999 89999888777765443
No 282
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=87.06 E-value=21 Score=38.18 Aligned_cols=85 Identities=19% Similarity=0.292 Sum_probs=55.3
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++||+... .. ..+..+++..+.+..+ .+++.... +....++.+|.+|++|+++...
T Consensus 97 ~~l~ig~~~~--~~------------~~~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 154 (312)
T PRK10341 97 VDVSFGFPSL--IG------------FTFMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTL 154 (312)
T ss_pred eEEEEEechH--Hh------------HhhHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecC
Confidence 3588888741 11 1344577888888765 35666665 5578999999999999998532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... ..... -...|+.+..+++++++..
T Consensus 155 ~~~-~~~~~-l~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 155 SNE-MKLQD-LHVEPLFESEFVLVASKSR 181 (312)
T ss_pred Ccc-cccCC-eeEEEEecccEEEEEcCCC
Confidence 211 11122 2456778888888887654
No 283
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=86.96 E-value=5.7 Score=43.13 Aligned_cols=93 Identities=8% Similarity=-0.018 Sum_probs=75.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY- 231 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~- 231 (914)
...+.+.++.+|++++.++....-......+.+.+.|++.|+.+.....+.+++..+.....+..+++.++|.||-.+.
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGG 96 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGG 96 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 3556677888999999999977766677899999999999988777777777778888999999999999999998854
Q ss_pred -hhHHHHHHHHHHhc
Q 002505 232 -DIWGLEVLNAAKHL 245 (914)
Q Consensus 232 -~~~~~~il~~a~~~ 245 (914)
.-|+.+.+.-....
T Consensus 97 S~~D~AK~i~~~~~~ 111 (377)
T COG1454 97 SVIDAAKAIALLAEN 111 (377)
T ss_pred cHHHHHHHHHHHhhC
Confidence 45666666665553
No 284
>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=86.93 E-value=1.2 Score=47.22 Aligned_cols=102 Identities=14% Similarity=0.207 Sum_probs=60.1
Q ss_pred ccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEE
Q 002505 668 SSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSA 747 (914)
Q Consensus 668 ~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a 747 (914)
..|......+.+ ...+|++++||. |+++.+..+.....++ +.++.. .+.. ...|...+|++ |.+|+
T Consensus 112 ~~~~~g~~~~~~---~~~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa~---pv~i-p~~evy~aLq~----G~vDg 177 (286)
T PF03480_consen 112 GWFPGGPRQFFS---TKKPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGAS---PVPI-PWSEVYQALQQ----GVVDG 177 (286)
T ss_dssp EEEEEEEEEEEE---SSS--SSGGGGT--TEEEEETSSHHHHHHH-HHCTSE---EEE--TGGGHHHHHHT----TSSSE
T ss_pred EEecCCceEEEe---cccCCccHhhHh--hCeEEecCCHHHHHHH-HHcCCe---eecC-cHHHHHHHHhc----CCcCe
Confidence 334444455555 236799999996 8888886555555565 444432 2322 44578999999 89999
Q ss_pred EEechhhHHHH-HhcCceEEEeccccccccceeeecCC
Q 002505 748 VIDERAYMEVF-LSTRCEFSIIGQEFTRIGWGFAFPRD 784 (914)
Q Consensus 748 ~i~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~k~ 784 (914)
........... +.+.+++..... ....++.+++.+.
T Consensus 178 ~~~~~~~~~~~~~~ev~~y~~~~~-~~~~~~~~~~n~~ 214 (286)
T PF03480_consen 178 AENSASSIYSLGLYEVAKYFTDTN-HGWSPYAVIMNKD 214 (286)
T ss_dssp EEEEHHHHHHTTGGGTSSEEEEEE-EEEEEEEEEEEHH
T ss_pred EecCHHHHHhcChhhhCCeeEeec-ccCcceEEEEcHH
Confidence 99877665332 122345444333 3345566666654
No 285
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=86.88 E-value=25 Score=37.40 Aligned_cols=85 Identities=9% Similarity=0.148 Sum_probs=56.1
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..|+||+... . ...+..+++..+.+..+ .+++.... ++..+++.+|.+|++|+++...
T Consensus 95 g~l~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~~ 152 (302)
T PRK09791 95 GQINIGMGAS--I------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINTY 152 (302)
T ss_pred eEEEEEechH--H------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEec
Confidence 5699999852 1 12455677888887776 34555543 4578999999999999997622
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... .....+. ..|+....+++++++..
T Consensus 153 ~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 153 YQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred CCc-cccccee-EEEeccceEEEEEcCCC
Confidence 111 1112343 36788888888887655
No 286
>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=86.72 E-value=26 Score=34.06 Aligned_cols=70 Identities=10% Similarity=0.055 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .+++.... ++...+++.|.+|++|+++... ......+. +.++.+..+++++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRF---FPRHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecC---CCCCCceE-EEEEeeccEEEEecC
Confidence 455678888888874 35666654 5688999999999999998532 11112232 456667788888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 287
>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=86.63 E-value=31 Score=33.16 Aligned_cols=70 Identities=20% Similarity=0.241 Sum_probs=47.1
Q ss_pred eeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 498 ~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
+..++++.+.++.+ .++++... ++..+++..+.+|++|+++...... ....+ .+.++....++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 56678888988875 34555554 5578899999999999998532211 11222 34667778888887655
Q ss_pred C
Q 002505 578 K 578 (914)
Q Consensus 578 ~ 578 (914)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 288
>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=86.58 E-value=25 Score=33.84 Aligned_cols=70 Identities=13% Similarity=0.097 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... +....+++++.+|++|+++.... .....+ -+.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTL---HEPPGI-ERERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecC---CCCCCe-eEEEeeccCeEEEecC
Confidence 456678888888875 35566654 45778899999999999985321 112222 2456677788877765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 44
No 289
>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=86.58 E-value=27 Score=37.04 Aligned_cols=85 Identities=16% Similarity=0.176 Sum_probs=54.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..|+||+... . ...+..+++..+.++.+ .+.+.... ++...++.++.+|++|++++..
T Consensus 93 ~~l~I~~~~~--~------------~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (300)
T TIGR02424 93 PTVRIGALPT--V------------AARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGRL 150 (300)
T ss_pred ceEEEecccH--H------------HHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEec
Confidence 4689988741 1 12344567788888776 35566654 5578899999999999998633
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. ......+ ...|+....+++++++..
T Consensus 151 ~~-~~~~~~~-~~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 151 GA-PETMQGL-SFEHLYNEPVVFVVRAGH 177 (300)
T ss_pred CC-cccccce-eeeeecCCceEEEEcCCC
Confidence 22 1112223 245677788888887654
No 290
>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=86.35 E-value=32 Score=32.98 Aligned_cols=70 Identities=9% Similarity=-0.007 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... +...++...+.+|++|+++... ......+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGL-SARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCc-eEEEEecCcEEEEeeC
Confidence 456678888888874 34566554 5588899999999999997522 2222233 3466777788877765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 291
>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=86.14 E-value=33 Score=32.99 Aligned_cols=72 Identities=21% Similarity=0.197 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+-.+++..+.+..+ +++++... ++...+++++.+|++|+++..... ..+...+ ...|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLAD-DEQPPDL-ASEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecCc-ccCCCCc-EEEEcccCcEEEEEeC
Confidence 345677888888765 45566553 457889999999999999753211 1112233 2457777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 54
No 292
>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=86.08 E-value=34 Score=32.99 Aligned_cols=70 Identities=19% Similarity=0.163 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... +...++...+.+|++|+++.... .....+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADGP---LEERQGF-LIETRSLPAVVAVPM 80 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEeccC---CCCCCcE-EEEeccCCeEEEeeC
Confidence 456678889988875 35565554 33568889999999999975322 1122222 345667777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (196)
T cd08457 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 293
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=86.03 E-value=5.7 Score=43.91 Aligned_cols=88 Identities=7% Similarity=-0.032 Sum_probs=65.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+|.+++.+++..........+.+.+.|++.|+.+.....+.+.++.++....++.+++.++|+||-.+.+
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS 99 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGS 99 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCch
Confidence 4467778999999999888543334456788999999999876555455555677888999999999999999977543
Q ss_pred -hHHHHHHHH
Q 002505 233 -IWGLEVLNA 241 (914)
Q Consensus 233 -~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 100 ~iD~AK~ia~ 109 (383)
T PRK09860 100 PHDCAKGIAL 109 (383)
T ss_pred HHHHHHHHHH
Confidence 466666554
No 294
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=86.02 E-value=27 Score=37.53 Aligned_cols=81 Identities=11% Similarity=0.114 Sum_probs=53.8
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+... . ...+...++..+.+..+ ++++... .++++++.|.+|++|+++...
T Consensus 117 ~~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~ 172 (317)
T PRK11482 117 RTITIATTPS--V------------GALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDTH 172 (317)
T ss_pred ceEEEEecHH--H------------HHHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEecc
Confidence 4799999852 1 11345667788888775 3444432 256789999999999998643
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. ....+. +.++....++++++...
T Consensus 173 ~~---~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 173 SC---SNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred CC---CCCceE-EEEEecCcEEEEEeCCC
Confidence 22 223344 36778888888887665
No 295
>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=86.01 E-value=35 Score=33.11 Aligned_cols=72 Identities=18% Similarity=0.145 Sum_probs=47.9
Q ss_pred eeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEe
Q 002505 496 SGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (914)
Q Consensus 496 ~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~ 575 (914)
..+..+++..+.+..+ .+++.... ++...+...+.+|++|+++..... .....+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEc
Confidence 3566778888888775 34555554 557789999999999999853211 1122333 46677788888877
Q ss_pred ccC
Q 002505 576 IKK 578 (914)
Q Consensus 576 ~~~ 578 (914)
+..
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 654
No 296
>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=85.94 E-value=7.9 Score=39.27 Aligned_cols=194 Identities=17% Similarity=0.083 Sum_probs=115.2
Q ss_pred eeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhC-cccEEeeceEEecCcc---eeee--eccceeecc
Q 002505 496 SGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEE-VYDAAVGDFAITTERT---KMVD--FTQPYIESG 569 (914)
Q Consensus 496 ~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g-~~Di~~~~~~~~~~r~---~~~d--ft~p~~~~~ 569 (914)
.+..-++++.+.++.|+++++.+. .-..++..|..| ++|+.+..-....++. ..++ -..|+..+.
T Consensus 10 ~~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 10 APALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 445667888888888866555543 367788888877 6888877532221221 2333 667888899
Q ss_pred eEEEEeccCCCcCccceeccCchhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhhHHHHHHHHhhhcCcccccc
Q 002505 570 LVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGTILWFSFSTLFFSHKERTVN 649 (914)
Q Consensus 570 ~~~lv~~~~~~~~~~~~l~PF~~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s 649 (914)
+++++++...
T Consensus 81 ~vl~~~~~~~---------------------------------------------------------------------- 90 (230)
T PF13531_consen 81 LVLAVPKGNP---------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEEETTST----------------------------------------------------------------------
T ss_pred eEEEeccCcc----------------------------------------------------------------------
Confidence 9999987661
Q ss_pred chhhHHHHHHHHHHhhhhccccceeeeeeecccccCCCCChHHhhhCCCCeEEEeCch------hhhhhhhhcC---C--
Q 002505 650 SLSRLVLIIWLFVVLILTSSYTASLTSILTVEQLSSPIKDIQSLVASSDPIGYQRGSF------AENYLTDELN---I-- 718 (914)
Q Consensus 650 ~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~------~~~~l~~~~~---~-- 718 (914)
..+.+++||.+.+.++++..... ....+.+ .+ .
T Consensus 91 -----------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~-~g~~~~~~ 134 (230)
T PF13531_consen 91 -----------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAA-AGGQELLD 134 (230)
T ss_dssp -----------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHH-HTHCHHHH
T ss_pred -----------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHHH-cccHHHHH
Confidence 46788888887776788765321 1112211 11 0
Q ss_pred -CCCCcc-cCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCc--eEEEeccccc--cccceeeecCCCCChhhHH
Q 002505 719 -DKSRLV-PLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRC--EFSIIGQEFT--RIGWGFAFPRDSPLAVDMS 792 (914)
Q Consensus 719 -~~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~--~~~~~~~~~k~spl~~~~~ 792 (914)
-..++. ..++..+....+.+ |..++.+.....+.+. .... .+..+++... ...+.+++.++++-.+.-.
T Consensus 135 ~l~~~~~~~~~~~~~~~~~v~~----g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 209 (230)
T PF13531_consen 135 ALQKNIVQYVPSTSQVLSAVAS----GEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAAR 209 (230)
T ss_dssp HHHHTEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHH
T ss_pred HHHHhCcccccchHHHHHHHHc----CCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHH
Confidence 012333 34677888888988 8889888776655332 2222 3334444444 3457788888887666666
Q ss_pred HHHHhhhccCchHHHHHH
Q 002505 793 IAILELSENGDLQRIHDK 810 (914)
Q Consensus 793 ~~i~~l~e~G~~~~i~~~ 810 (914)
..+..|.... -+++..+
T Consensus 210 ~f~~~L~s~~-~q~~l~~ 226 (230)
T PF13531_consen 210 AFIDFLLSPE-GQQILAK 226 (230)
T ss_dssp HHHHHHTSHH-HHHHHHH
T ss_pred HHHHHHCCHH-HHHHHHH
Confidence 6666666544 3444443
No 297
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=85.69 E-value=32 Score=36.46 Aligned_cols=85 Identities=11% Similarity=0.014 Sum_probs=53.2
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++||+.. .+. ..+..+++..+.++.. .+++.... ++...+++++.+|++|++++..
T Consensus 92 g~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~ 149 (300)
T PRK11074 92 GQLSIAVDN--IVR------------PDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGAT 149 (300)
T ss_pred ceEEEEEcC--ccc------------hhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEecC
Confidence 469999875 111 2344577788887776 24455544 4567899999999999998632
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
.. ......+ -..++....+++++++..
T Consensus 150 ~~-~~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 150 RA-IPVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred cc-CCccccc-ceeecccceEEEEEcCCC
Confidence 21 1111122 244566777788776654
No 298
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=85.60 E-value=22 Score=35.06 Aligned_cols=128 Identities=16% Similarity=0.105 Sum_probs=71.9
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCCchHHHHHHHh-hccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHH
Q 002505 82 SRFLGMVEALTLLEN-ETVAIIGPQFSVIAHLVSHI-ANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (914)
Q Consensus 82 ~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~~v~~~-~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~ 159 (914)
++...+..+.+-+++ |+..|+=|. .+++.+++- -+.-++|+|+ ..++-++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~--NT~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPT--NTMHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeC--CcHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 455555444444444 888888544 445555554 4467899885 24556677
Q ss_pred HHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHH-hccCCCeEEEEEeChhHHHHH
Q 002505 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLT-VSSMMSRILILHTYDIWGLEV 238 (914)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~-i~~~~~~viil~~~~~~~~~i 238 (914)
+++.|.++|+++.....-- ..-.++.+.++|++++. |.......+.+.+.+ ++ .-.+...+-.--..+
T Consensus 112 ik~~g~kkvgLLgT~~Tm~---~~fY~~~l~~~gievvv----Pdd~~q~~v~~iIy~El~----~G~~~~~sr~~~~~i 180 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTME---QGFYRKRLEEKGIEVVV----PDDDEQAEVNRIIYEELC----QGIVKDASRELYLAV 180 (230)
T ss_pred HHhcCCceeEEeeccchHH---hHHHHHHHHHCCceEec----CCHHHHHHHHHHHHHHHh----cccchHHHHHHHHHH
Confidence 8888999999998654321 22356788888977653 311122222222222 33 222333334455566
Q ss_pred HHHHHhcCC
Q 002505 239 LNAAKHLRM 247 (914)
Q Consensus 239 l~~a~~~g~ 247 (914)
++.+.+.|-
T Consensus 181 i~~l~~~Ga 189 (230)
T COG1794 181 IERLAERGA 189 (230)
T ss_pred HHHHHHcCC
Confidence 666666653
No 299
>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=85.53 E-value=35 Score=32.69 Aligned_cols=70 Identities=16% Similarity=0.159 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... ++...+..++.+|++|+++..... ....+ -..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPP---DPPGL-ASRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCC---CCCCe-eEEEEeeccEEEEecC
Confidence 345677788888764 34555553 457789999999999999863222 12223 2466777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 300
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=85.47 E-value=17 Score=37.93 Aligned_cols=120 Identities=11% Similarity=0.126 Sum_probs=64.3
Q ss_pred CCCCChHHhhhCCCCeEEEeCc-hhhhhhh--hhcCC--------------------CCCCcccCCCHHHHHHHHhcCCC
Q 002505 685 SPIKDIQSLVASSDPIGYQRGS-FAENYLT--DELNI--------------------DKSRLVPLNTAEEYEKALTDGPK 741 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s-~~~~~l~--~~~~~--------------------~~~~~~~~~~~~~~~~~l~~~~~ 741 (914)
..|+|++||. .|.+|++.++. .....+. +..+. ..-++++. ...+...++.+
T Consensus 119 ~~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~--- 193 (271)
T PRK11063 119 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDD--- 193 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccc---
Confidence 5799999995 48899998633 2222221 11111 11223333 45567778877
Q ss_pred CCCeEEEEechhhHHHHHhcC-c-eEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHH
Q 002505 742 NGGVSAVIDERAYMEVFLSTR-C-EFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKW 811 (914)
Q Consensus 742 ~g~~~a~i~~~~~~~~~~~~~-~-~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~ 811 (914)
|.+|+.+...+++....... . .+..-... .++-..+++++...=.+.+.+.+.-+++...-+.|.++|
T Consensus 194 -g~vDaa~i~~~~a~~a~~~~~~~~l~~e~~~-~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 194 -AQIALAVINTTYASQIGLTPAKDGIFVEDKD-SPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred -ccccEEEEChHHHHHcCCCCCCCeeEECCCC-CCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 89999999988876543222 1 22221111 122234566655434445555555556555555555554
No 301
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=85.18 E-value=14 Score=39.58 Aligned_cols=84 Identities=10% Similarity=0.124 Sum_probs=55.9
Q ss_pred CceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeec
Q 002505 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (914)
Q Consensus 469 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 548 (914)
++.++||+... . ..++..+++..+.+..+ .+.+.+.. ++...++++|.+|++|+++..
T Consensus 111 ~~~i~i~~~~~--~------------~~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~ 168 (314)
T PRK09508 111 ERVFNLCICSP--L------------DIRLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISY 168 (314)
T ss_pred ccEEEEEechh--H------------HHHHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEec
Confidence 45688888641 1 12466788889988875 24566554 456788999999999999864
Q ss_pred eEEecCcceeeeeccceeecceEEEEeccC
Q 002505 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 549 ~~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... ....+. ..++....++++++...
T Consensus 169 ~~~---~~~~l~-~~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 169 EEF---DRPEFT-SVPLFKDELVLVASKNH 194 (314)
T ss_pred CCC---Cccccc-eeeeecCceEEEEcCCC
Confidence 321 122333 34667788888887654
No 302
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=84.92 E-value=3.1 Score=44.70 Aligned_cols=65 Identities=11% Similarity=0.089 Sum_probs=45.3
Q ss_pred HHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcce-eeeeccceee
Q 002505 500 IDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTK-MVDFTQPYIE 567 (914)
Q Consensus 500 ~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~-~~dft~p~~~ 567 (914)
..+.+++.++.|-++++...|.+. =|.-..++++|..|.+||...+......+.. .--|+.||..
T Consensus 47 ~~fa~~v~ekt~G~l~i~vfP~~q---LG~~~~~ie~l~~G~id~~~~s~~~l~~~~P~~~v~~lPflf 112 (332)
T COG1638 47 KKFAELVEEKTGGRLKIEVFPNSQ---LGGEAEMIEQLRSGTLDIGVVSLGFLAGLVPEFGVFDLPFLF 112 (332)
T ss_pred HHHHHHHHHHhCCeEEEEECCCcc---cCcHHHHHHHHhcCCeeEEeccchhhcccCCcceeecCCeee
Confidence 456778889999998888776432 2457889999999999999887665554432 2235555544
No 303
>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=84.64 E-value=41 Score=32.68 Aligned_cols=70 Identities=19% Similarity=0.254 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... +....++..+.+|++|+++...... ...+. ..++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeC
Confidence 566778888888775 35565554 4578899999999999998532211 12232 456777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 54
No 304
>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=84.44 E-value=15 Score=35.26 Aligned_cols=99 Identities=8% Similarity=-0.020 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEE
Q 002505 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILIL 228 (914)
Q Consensus 151 ~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil 228 (914)
+....+.+.+...+ .++.++..+.+ ..+.+.+.+++. |+.|+....-+ .+..+...+++.|+++++|+|++
T Consensus 35 dl~~~l~~~~~~~~-~~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~v 107 (172)
T PF03808_consen 35 DLFPDLLRRAEQRG-KRIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVFV 107 (172)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEE
Confidence 34555555555555 47888886554 355566666655 67777654332 36678899999999999999999
Q ss_pred EeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 229 HTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 229 ~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
.+..+.-..++.+.++.. ... +|+..++
T Consensus 108 glG~PkQE~~~~~~~~~l--~~~-v~i~vG~ 135 (172)
T PF03808_consen 108 GLGAPKQERWIARHRQRL--PAG-VIIGVGG 135 (172)
T ss_pred ECCCCHHHHHHHHHHHHC--CCC-EEEEECc
Confidence 988887777887777633 222 6776664
No 305
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=84.43 E-value=7.1 Score=43.30 Aligned_cols=89 Identities=9% Similarity=-0.035 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+|.+++.++...........+.+.+.|++.|+.+.....+.++++..+....++..++.++|+||-.+.+
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS 117 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGS 117 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChH
Confidence 4566778889988888776444444456788999999999887655455555667788898999999999999988654
Q ss_pred -hHHHHHHHHH
Q 002505 233 -IWGLEVLNAA 242 (914)
Q Consensus 233 -~~~~~il~~a 242 (914)
-|+.+.+...
T Consensus 118 ~iD~AKaia~~ 128 (395)
T PRK15454 118 VLDAAKAVALL 128 (395)
T ss_pred HHHHHHHHHHH
Confidence 3555554443
No 306
>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=84.15 E-value=18 Score=35.45 Aligned_cols=103 Identities=19% Similarity=0.154 Sum_probs=62.9
Q ss_pred CCCCChHHhhhCCCCeEE-EeCchhhhhhhhhc---CCCCCCccc----CCCHHHHHHHHhcCCCCCCeEEEEechhhHH
Q 002505 685 SPIKDIQSLVASSDPIGY-QRGSFAENYLTDEL---NIDKSRLVP----LNTAEEYEKALTDGPKNGGVSAVIDERAYME 756 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~-~~~s~~~~~l~~~~---~~~~~~~~~----~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 756 (914)
..|++++||.+.+.++.- ..||-...+|.+.+ ++....+.. ..+..+....|.. |..|+-+.....+.
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~----G~AD~G~g~~~~A~ 156 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVAS----GKADAGIGIRAAAE 156 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHc----CCCCEEeehHHHHH
Confidence 479999999866665433 46676666654332 233333332 3567788899998 89998887655553
Q ss_pred HHHhcCceEEEeccccccccceeeecCCCCChhhHHHHHHh
Q 002505 757 VFLSTRCEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILE 797 (914)
Q Consensus 757 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~ 797 (914)
.+ ..-++.. +....|-+++++..-..+.+...|.-
T Consensus 157 ~~--~gL~Fvp----l~~E~~dlv~~~~~~~~~~vq~ll~~ 191 (193)
T PF12727_consen 157 EF--YGLDFVP----LAEERYDLVIRREDLEDPAVQALLDF 191 (193)
T ss_pred hh--cCCCcEE----ccccceEEEEEhhHcCCHHHHHHHHH
Confidence 21 0112222 23356788898877666666665543
No 307
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=83.87 E-value=48 Score=35.31 Aligned_cols=71 Identities=11% Similarity=0.112 Sum_probs=46.0
Q ss_pred eeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 498 ~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
+-.+++..+.++.+. +++.... ++..++.+.|.+|++|++++... .......+ -..++....+++++++.
T Consensus 107 ~l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l-~~~~l~~~~~~~v~~~~ 176 (308)
T PRK10094 107 AVAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGVTG-TEALANTF-SLDPLGSVQWRFVMAAD 176 (308)
T ss_pred HHHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEeccc-CccccCCe-eEEEecceeEEEEECCC
Confidence 345788888888763 4566554 45678889999999999976211 11112233 24577777888887655
Q ss_pred C
Q 002505 578 K 578 (914)
Q Consensus 578 ~ 578 (914)
.
T Consensus 177 h 177 (308)
T PRK10094 177 H 177 (308)
T ss_pred C
Confidence 4
No 308
>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=83.75 E-value=17 Score=34.99 Aligned_cols=127 Identities=16% Similarity=0.144 Sum_probs=76.5
Q ss_pred ChHHHHHHHHHH-HhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH
Q 002505 82 SRFLGMVEALTL-LENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (914)
Q Consensus 82 ~~~~a~~~a~~l-i~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 160 (914)
+-..++..+.++ ..+++++||+ ....+.. +-+..++|+|. ..++..+...++....
T Consensus 18 ~~e~~v~~a~~~~~~~g~dViIs--RG~ta~~---lr~~~~iPVV~------------------I~~s~~Dil~al~~a~ 74 (176)
T PF06506_consen 18 SLEEAVEEARQLLESEGADVIIS--RGGTAEL---LRKHVSIPVVE------------------IPISGFDILRALAKAK 74 (176)
T ss_dssp -HHHHHHHHHHHHTTTT-SEEEE--EHHHHHH---HHCC-SS-EEE------------------E---HHHHHHHHHHCC
T ss_pred cHHHHHHHHHHhhHhcCCeEEEE--CCHHHHH---HHHhCCCCEEE------------------ECCCHhHHHHHHHHHH
Confidence 556788899999 7789999995 2333333 33344889886 2233444455554433
Q ss_pred HHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHH
Q 002505 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLN 240 (914)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~ 240 (914)
.++ ++++++...+.. .....+.+.+ |..+..... .+..++...+.++++.+.++||-... ..+
T Consensus 75 -~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~~----~~~~e~~~~i~~~~~~G~~viVGg~~------~~~ 137 (176)
T PF06506_consen 75 -KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYPY----DSEEEIEAAIKQAKAEGVDVIVGGGV------VCR 137 (176)
T ss_dssp -CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEEE----SSHHHHHHHHHHHHHTT--EEEESHH------HHH
T ss_pred -hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEEE----CCHHHHHHHHHHHHHcCCcEEECCHH------HHH
Confidence 333 899999876654 2355566666 555554322 35689999999999999999886532 356
Q ss_pred HHHhcCCC
Q 002505 241 AAKHLRMM 248 (914)
Q Consensus 241 ~a~~~g~~ 248 (914)
.|++.|+.
T Consensus 138 ~A~~~gl~ 145 (176)
T PF06506_consen 138 LARKLGLP 145 (176)
T ss_dssp HHHHTTSE
T ss_pred HHHHcCCc
Confidence 67888874
No 309
>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=83.60 E-value=43 Score=32.15 Aligned_cols=71 Identities=20% Similarity=0.145 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... ++...+++++.+|++|+++...... ....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeC
Confidence 556678899999885 34566554 5688899999999999997532111 112232 355667777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (199)
T cd08430 82 IA 83 (199)
T ss_pred Cc
Confidence 54
No 310
>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=83.28 E-value=45 Score=32.12 Aligned_cols=72 Identities=8% Similarity=0.034 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... +....+++.|.+|++|+++.... .......+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~ 82 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSK 82 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecC
Confidence 345678888888875 35566654 55788999999999999985321 111223333 456777888888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 54
No 311
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=82.79 E-value=43 Score=35.93 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=53.0
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+... .. ..+..+++..+.+..+ .+.++... +.-..+...|.+|++|+++..-
T Consensus 89 g~l~Ig~~~~--~~------------~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~ 146 (317)
T PRK15421 89 TRLRIAIECH--SC------------IQWLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD 146 (317)
T ss_pred eeEEEEeccc--ch------------HHHHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC
Confidence 3689988641 11 1234567788877764 34555543 3456789999999999998532
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
+.....+. ..++....++++++...
T Consensus 147 ---~~~~~~~~-~~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 147 ---ILPRSGLH-YSPMFDYEVRLVLAPDH 171 (317)
T ss_pred ---cccCCCce-EEEeccceEEEEEcCCC
Confidence 22223343 36777788888887654
No 312
>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=82.40 E-value=10 Score=41.70 Aligned_cols=90 Identities=7% Similarity=-0.072 Sum_probs=66.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.+|.+++.+++..........+.+.+.|++.|+++.....+.+.++..+....+...+..++|.||-.+.+
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 92 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGS 92 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4466778888989998888655444446788999999989887644445555677888898999988999999977543
Q ss_pred -hHHHHHHHHHH
Q 002505 233 -IWGLEVLNAAK 243 (914)
Q Consensus 233 -~~~~~il~~a~ 243 (914)
-|+.+++....
T Consensus 93 viD~aK~ia~~~ 104 (370)
T cd08192 93 ALDLAKAVALMA 104 (370)
T ss_pred HHHHHHHHHHHH
Confidence 56666665543
No 313
>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=82.31 E-value=49 Score=31.89 Aligned_cols=73 Identities=15% Similarity=0.090 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... +....+..++.+|++|+++............+ -+.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 455678888888774 35566554 45778999999999999975321111011222 2566777888888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 314
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=81.65 E-value=43 Score=35.41 Aligned_cols=85 Identities=13% Similarity=0.167 Sum_probs=51.7
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..||||+... + ..++..+++..+.+..+ .+++.... ++...++.+|.+|++|+++...
T Consensus 93 g~l~i~~~~~--~------------~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVADA--L------------SKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecch--h------------hHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 3699999751 1 12566677788777654 34555443 4588899999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEecc
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
.........+ ...|+....++++++.+
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~~ 177 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTNP 177 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecCC
Confidence 2111111222 33566666666666543
No 315
>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=81.60 E-value=11 Score=42.08 Aligned_cols=87 Identities=10% Similarity=-0.017 Sum_probs=64.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.+|.+++.+++....+.....+.+.+.+++.|+.+.....+.+.++.+.....++..++.++|+||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGS 91 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 4566778889999999998666555556788999999889877654444445667788888888889999999988654
Q ss_pred -hHHHHHHH
Q 002505 233 -IWGLEVLN 240 (914)
Q Consensus 233 -~~~~~il~ 240 (914)
-|+.+.+.
T Consensus 92 viD~AKaia 100 (414)
T cd08190 92 VIDTAKAAN 100 (414)
T ss_pred HHHHHHHHH
Confidence 45555554
No 316
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=81.28 E-value=70 Score=34.04 Aligned_cols=70 Identities=17% Similarity=0.159 Sum_probs=43.6
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... .+-..++..+.+|++|+++...... ...+. ..++.....+++++.
T Consensus 107 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~ 174 (309)
T PRK11013 107 SLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTETLHT---PAGTE-RTELLTLDEVCVLPA 174 (309)
T ss_pred hhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcCCCC---CCCce-eeeecceeEEEEEcC
Confidence 456678888888774 35566554 3466788999999999997532211 11222 335555666666665
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 175 ~~ 176 (309)
T PRK11013 175 GH 176 (309)
T ss_pred CC
Confidence 44
No 317
>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=81.27 E-value=12 Score=41.24 Aligned_cols=92 Identities=9% Similarity=0.013 Sum_probs=66.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
...+.+.++.+|-+++.+++....+.....+.+.+.+++.|+.+.....+.+..+.+.....++.++..++|+||-.+.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34566778888888998888655444445788999999989877655455555677888899999999999999977543
Q ss_pred --hHHHHHHHHHHh
Q 002505 233 --IWGLEVLNAAKH 244 (914)
Q Consensus 233 --~~~~~il~~a~~ 244 (914)
-|+.+++.....
T Consensus 94 S~~D~aK~ia~~~~ 107 (374)
T cd08189 94 SVIDCAKAIAARAA 107 (374)
T ss_pred cHHHHHHHHHHHHh
Confidence 566666554433
No 318
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=81.05 E-value=8.9 Score=41.56 Aligned_cols=72 Identities=22% Similarity=0.248 Sum_probs=49.5
Q ss_pred CCCCChHHhhhCCCCeEEEeCch-hhhhhh---hhcCCCC--CCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHH
Q 002505 685 SPIKDIQSLVASSDPIGYQRGSF-AENYLT---DELNIDK--SRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVF 758 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s~-~~~~l~---~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~ 758 (914)
..|++++||. |+++|+..++. ...+++ ..-+... ..++.+ ...+...++.. |.+|+++...++....
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----g~vda~~~~ep~~~~~ 198 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNL-PPADAVAALAA----GQVDAFVVWEPWNAAA 198 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEee-CcHHHHHHHhc----CCcceEEecCCchhhh
Confidence 6788999995 99999998875 333332 2223333 333333 44478888988 8999999988887776
Q ss_pred HhcCc
Q 002505 759 LSTRC 763 (914)
Q Consensus 759 ~~~~~ 763 (914)
..+..
T Consensus 199 ~~~~~ 203 (335)
T COG0715 199 EGEGG 203 (335)
T ss_pred hccCC
Confidence 66553
No 319
>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=80.84 E-value=55 Score=31.51 Aligned_cols=70 Identities=21% Similarity=0.183 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... ++..++...+.+|++|+++...... ...+ -+.++.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEecC
Confidence 445678888888875 35566554 4567789999999999998633221 1222 2356677778888765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 44
No 320
>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=80.53 E-value=24 Score=33.80 Aligned_cols=100 Identities=11% Similarity=-0.041 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEE
Q 002505 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI 227 (914)
Q Consensus 150 ~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~vii 227 (914)
.+....+.+.+...+ .+|.++....+. .+.+.+.+++. |+.++....-+ ....+-...+++|.+++||+|+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~~----~~~~~~~l~~~yp~l~i~g~~~g~--~~~~~~~~i~~~I~~~~pdiv~ 104 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPEV----LEKAAERLRARYPGLKIVGYHHGY--FGPEEEEEIIERINASGADILF 104 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHHH----HHHHHHHHHHHCCCcEEEEecCCC--CChhhHHHHHHHHHHcCCCEEE
Confidence 334555555555444 678888765543 44444555544 77777643322 3445555589999999999999
Q ss_pred EEeChhHHHHHHHHHHhcCCCCCCeEEEEeCc
Q 002505 228 LHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (914)
Q Consensus 228 l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (914)
+.+..+.-..++.+.++.. +.-++++.++
T Consensus 105 vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 105 VGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 9988888888887777644 3345665544
No 321
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=80.45 E-value=33 Score=33.26 Aligned_cols=91 Identities=8% Similarity=0.030 Sum_probs=63.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCC----C---hhHHHHHHHHhccCCCeEE
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKG----S---RNQIIDTLLTVSSMMSRIL 226 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~----~---~~d~~~~l~~i~~~~~~vi 226 (914)
.|+++-|+.++.+++.++. .|-.+..+...+.++.+|++|+......... + ....-..-.++...++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 5677889999999999986 3666677788889999999988655432111 1 1222334455566789999
Q ss_pred EEEeChhHHHHHHHHHHh-cCC
Q 002505 227 ILHTYDIWGLEVLNAAKH-LRM 247 (914)
Q Consensus 227 il~~~~~~~~~il~~a~~-~g~ 247 (914)
++.|..--...++....+ .|.
T Consensus 184 FiSCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 184 FISCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred EEEeeccccHHHHHHHHHHhCC
Confidence 999887777777777654 343
No 322
>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=80.23 E-value=13 Score=40.92 Aligned_cols=89 Identities=8% Similarity=-0.016 Sum_probs=65.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.++.+++.+++..........+.+.+.+++.|+++.....+.+.++.++....++.+++.++|.||-.+.+
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGs 94 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGGS 94 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4566778888989998888554334446788999999999877644445555677888899999999999999988654
Q ss_pred -hHHHHHHHHH
Q 002505 233 -IWGLEVLNAA 242 (914)
Q Consensus 233 -~~~~~il~~a 242 (914)
-|+.+++...
T Consensus 95 ~iD~aK~ia~~ 105 (376)
T cd08193 95 SMDVAKLVAVL 105 (376)
T ss_pred HHHHHHHHHHH
Confidence 4666565544
No 323
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=80.05 E-value=4.9 Score=40.16 Aligned_cols=104 Identities=13% Similarity=0.151 Sum_probs=49.3
Q ss_pred CCCCeEEEeCchhhhhhhhhcCCCCCC--cccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEec--c-
Q 002505 696 SSDPIGYQRGSFAENYLTDELNIDKSR--LVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIG--Q- 770 (914)
Q Consensus 696 ~~~~i~~~~~s~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~- 770 (914)
.|++||+...|..+..+.+.. +...+ ++. -+..++++.+.+ |.+||.+-+.-. .. .+..++...+ .
T Consensus 113 dGmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Ve-i~Y~q~~~~l~~----g~IDA~IWN~d~--i~-~~~~~l~~~~l~~~ 183 (232)
T PF14503_consen 113 DGMRVGIDPSSIDQKILTEAE-FEGKNVEFVE-IPYNQLLELLRS----GEIDAAIWNYDE--IE-DKNFGLKYVPLKDD 183 (232)
T ss_dssp ---EEEE-TT-HHHHHHHHHH-HTTS--EEEE---HHHHHHHHHH----TS--EEEEE--H--HC-CHHCTEEEEE--SS
T ss_pred eeeEeecCCCCccHHHHHHHH-hCCCceEEEE-ecHHHHHHHHHC----CCccEEEECCcc--cc-cccCCeeEEeCCch
Confidence 388999999998877775432 22222 332 356789999999 999999987651 11 1122333322 2
Q ss_pred cc--ccccceeeecCCCC-ChhhHHHHHHhhhccCchHHHHHHHc
Q 002505 771 EF--TRIGWGFAFPRDSP-LAVDMSIAILELSENGDLQRIHDKWL 812 (914)
Q Consensus 771 ~~--~~~~~~~~~~k~sp-l~~~~~~~i~~l~e~G~~~~i~~~~~ 812 (914)
.. ....-.++++|+.+ +...+++.| ....+-+++++-.
T Consensus 184 ~~~~~~seAVivi~~~~~~i~~ll~~~i----d~~~vl~iQ~~V~ 224 (232)
T PF14503_consen 184 PMSKDASEAVIVIRKDNEPIKALLRKLI----DVEKVLEIQKKVL 224 (232)
T ss_dssp CHHHHTT-EEEEEETT-HHHHHHHHHH------HHHHHHHHHHHH
T ss_pred HHHHhcCeeEEEEeCCCHHHHHHHHHhc----CHHHHHHHHHHHH
Confidence 11 12345678888876 554444443 2233444444443
No 324
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=79.78 E-value=8.2 Score=42.69 Aligned_cols=89 Identities=11% Similarity=0.040 Sum_probs=64.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
...+.+.++.+|.+++.+++.....-....+.+.+.+++.|+++.....+.+.++.++....++.+++.++|+||-.+.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 34567778889999998888654444446788999999999877654445444566788888888888999999977543
Q ss_pred --hHHHHHHHH
Q 002505 233 --IWGLEVLNA 241 (914)
Q Consensus 233 --~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 98 S~iD~aK~ia~ 108 (382)
T PRK10624 98 SPQDTCKAIGI 108 (382)
T ss_pred HHHHHHHHHHH
Confidence 455555443
No 325
>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=79.32 E-value=61 Score=31.09 Aligned_cols=72 Identities=14% Similarity=0.122 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
++..+++..+.+..+ .+++.... +....++..+.+|++|+++..... +.....+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEECC
Confidence 556778888888875 24555554 446778999999999999863221 0011222 3456677778888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 54
No 326
>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=79.17 E-value=8.4 Score=41.14 Aligned_cols=89 Identities=13% Similarity=0.040 Sum_probs=64.3
Q ss_pred EEEEEe---cCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 002505 34 NIGAVF---ALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~---~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 110 (914)
++|++. ....+.-.....|+...++.+| |+.++...+..+-.||..+.+.+..|+.+++++|.. ......
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCCc
Confidence 556666 6665555677899999999998 678888888888889999999999999999999886 333444
Q ss_pred HHHHHhhccCCcc--EEeecc
Q 002505 111 HLVSHIANEFQVP--LLSFAA 129 (914)
Q Consensus 111 ~~v~~~~~~~~ip--~is~~a 129 (914)
..+...+++.+.. .|....
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEES
T ss_pred hHHHHHHHHcCCceEEEEecc
Confidence 5567778888877 776544
No 327
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=79.08 E-value=12 Score=38.92 Aligned_cols=95 Identities=8% Similarity=-0.014 Sum_probs=73.9
Q ss_pred CCCceEeccCCcHHHHHH----HHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHH
Q 002505 138 QYPFFVRTTQSDLYQMAA----IADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIID 213 (914)
Q Consensus 138 ~~~~~~r~~p~~~~~~~a----~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~ 213 (914)
..++-|-+.|+....+.. +.+-++..|.+++.++...+.--.......++.|+++|+.+.......+.++..++..
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~~ 118 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVTA 118 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHHH
Confidence 345666666666655443 3445889999999999977776667788899999999999887666666678889999
Q ss_pred HHHHhccCCCeEEEEEeCh
Q 002505 214 TLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 214 ~l~~i~~~~~~viil~~~~ 232 (914)
.++-.+....|.+|..+.+
T Consensus 119 alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 119 ALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHhcccceEEEEcCc
Confidence 9999999999998877554
No 328
>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=79.08 E-value=15 Score=40.45 Aligned_cols=90 Identities=8% Similarity=-0.010 Sum_probs=65.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.++.+++.+++....+.....+.+.+.+++.|+++.....+.+..+..+....+..++..++|+||-.+.+
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs 91 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGS 91 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4566778888889999998655444466778999999888877644445545677888999999988899999977554
Q ss_pred -hHHHHHHHHHH
Q 002505 233 -IWGLEVLNAAK 243 (914)
Q Consensus 233 -~~~~~il~~a~ 243 (914)
-|+.+++....
T Consensus 92 ~~D~AK~va~~~ 103 (370)
T cd08551 92 VLDTAKAIALLA 103 (370)
T ss_pred HHHHHHHHHHHH
Confidence 46666665443
No 329
>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=78.54 E-value=17 Score=40.08 Aligned_cols=88 Identities=7% Similarity=-0.019 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.++.+++.+|+....+.....+.+.+.|++.|+.+.....+.+.++..+....+..++..++|.||-.+.+
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGS 91 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4455667777889999998655554446788999999999887655555555677888899999999999999987554
Q ss_pred -hHHHHHHHH
Q 002505 233 -IWGLEVLNA 241 (914)
Q Consensus 233 -~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 92 ~~D~AKaia~ 101 (375)
T cd08194 92 PIDTAKAIAV 101 (375)
T ss_pred HHHHHHHHHH
Confidence 455555543
No 330
>TIGR00035 asp_race aspartate racemase.
Probab=78.52 E-value=6.7 Score=39.80 Aligned_cols=87 Identities=14% Similarity=0.110 Sum_probs=47.2
Q ss_pred ChHHHHHHHHH-HHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH
Q 002505 82 SRFLGMVEALT-LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (914)
Q Consensus 82 ~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 160 (914)
++...+..+.+ |.+.++++|+=+.++.... +..+-+..++|+|+. .++.++.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~ 112 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAV 112 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHH
Confidence 34444444444 4344899887666554443 455556678888862 12222333
Q ss_pred HHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEE
Q 002505 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLS 197 (914)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~ 197 (914)
+..+.++|+++.....- ....+++.+++.|+++.
T Consensus 113 ~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 113 KEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 44566777777644321 12335566666665544
No 331
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=77.44 E-value=39 Score=36.60 Aligned_cols=74 Identities=15% Similarity=0.011 Sum_probs=60.4
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.-+||++..+..+.-.....|+.+.++.+|. ..++...+..+=.||..+..++..|++++|++|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np------~i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNP------DIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCC------CccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 4568888877766667778999999999994 4777888888888999999999999999999999765555444
No 332
>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=77.21 E-value=10 Score=41.86 Aligned_cols=89 Identities=13% Similarity=0.056 Sum_probs=64.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
...+.+.++.+|.+++.+++.....-....+.+.+.+++.|+++.....+.+.++.++.....+.+++.++|+||..+.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGG 96 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGG 96 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 34566778888989999888554433346788999999989876654445444567888888888888999999987654
Q ss_pred --hHHHHHHHH
Q 002505 233 --IWGLEVLNA 241 (914)
Q Consensus 233 --~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 97 SviD~aKaia~ 107 (379)
T TIGR02638 97 SPIDTAKAIGI 107 (379)
T ss_pred HHHHHHHHHHH
Confidence 455555443
No 333
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=76.50 E-value=48 Score=34.56 Aligned_cols=121 Identities=9% Similarity=0.084 Sum_probs=65.2
Q ss_pred CCCCChHHhhhCCCCeEEEeCc--hhhhhh-hhh---------cCC-----------CCCCcccCCCHHHHHHHHhcCCC
Q 002505 685 SPIKDIQSLVASSDPIGYQRGS--FAENYL-TDE---------LNI-----------DKSRLVPLNTAEEYEKALTDGPK 741 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~~~s--~~~~~l-~~~---------~~~-----------~~~~~~~~~~~~~~~~~l~~~~~ 741 (914)
..|+|++||. .|.+|++.++. ..+.++ .+. .+. ..-+++. -...+...++.+
T Consensus 120 ~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve-~~~~q~~~al~d--- 194 (272)
T PRK09861 120 KKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIME-LEGAQLPRVLDD--- 194 (272)
T ss_pred cCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEE-cCHHHhHhhccC---
Confidence 6799999995 58899998632 222221 121 111 1112222 245567777877
Q ss_pred CCCeEEEEechhhHHHHHhcC-ceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccCchHHHHHHH
Q 002505 742 NGGVSAVIDERAYMEVFLSTR-CEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENGDLQRIHDKW 811 (914)
Q Consensus 742 ~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G~~~~i~~~~ 811 (914)
|.+|+++...+++.-.--+. .+-........++-..++++.+..=.+.+.+.+..++....-+.|.++|
T Consensus 195 -g~vD~a~i~~~~~~~ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 195 -PKVDVAIISTTYIQQTGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred -cccCEEEEchhHHHHcCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 78999988877764311111 1111111111112234556655445667777777777776666666654
No 334
>PRK10200 putative racemase; Provisional
Probab=76.48 E-value=25 Score=35.64 Aligned_cols=86 Identities=15% Similarity=0.048 Sum_probs=50.1
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH
Q 002505 82 SRFLGMVEALTLLEN-ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (914)
Q Consensus 82 ~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 160 (914)
+|........+.+.+ ++.+|+=|.++..+. ...+-+..++|+|+. .++.++.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 566666666555544 899888766666655 456666778888851 11222334
Q ss_pred HHcCCeEEEEEEEeCCCccchHHHHHHHHhhc-ccEE
Q 002505 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEK-RCRL 196 (914)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~-g~~v 196 (914)
+..+-++|+++....-. ....+++.+++. |+++
T Consensus 113 ~~~~~~~VglLaT~~Ti---~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYTM---EQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHHH---HHhHHHHHHHHhcCCeE
Confidence 44466778887754322 223445555543 6655
No 335
>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=76.00 E-value=11 Score=41.34 Aligned_cols=89 Identities=8% Similarity=0.028 Sum_probs=67.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+| ++.+|+..........+.+.+.|++.|+.+.....+.+..+..++...+..+++.++|.||-.+.+
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 44566777777 998888663333346899999999999998776666666788999999999999999999988765
Q ss_pred -hHHHHHHHHHHh
Q 002505 233 -IWGLEVLNAAKH 244 (914)
Q Consensus 233 -~~~~~il~~a~~ 244 (914)
-++.+++.....
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 466666666554
No 336
>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=75.94 E-value=1e+02 Score=31.94 Aligned_cols=69 Identities=14% Similarity=0.148 Sum_probs=45.5
Q ss_pred eeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 498 ~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
+-.+++..+.+..+ .++++... +....++..+.+|++|+++..-... ...+ -..|+....+++++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRL-DRVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCce-EEEEcCCceEEEEECCC
Confidence 44567788887765 24455543 4578899999999999998532222 1222 23666777888888765
Q ss_pred C
Q 002505 578 K 578 (914)
Q Consensus 578 ~ 578 (914)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 337
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=74.93 E-value=98 Score=32.58 Aligned_cols=81 Identities=17% Similarity=0.161 Sum_probs=55.4
Q ss_pred EEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEE
Q 002505 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (914)
Q Consensus 472 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~ 551 (914)
|+||+... .. ..+..+++..+.+..+ .+.+.... .+..+++..+.+|++|+++.....
T Consensus 92 l~Ig~~~~--~~------------~~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~ 149 (296)
T PRK09906 92 LTIGFVPS--AE------------VNLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHPV 149 (296)
T ss_pred EEEEEecc--hh------------hhHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCCC
Confidence 88888751 11 2345567777888765 35566654 457889999999999999864332
Q ss_pred ecCcceeeeeccceeecceEEEEeccC
Q 002505 552 TTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 552 ~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
....+. +.|+....+++++++..
T Consensus 150 ---~~~~l~-~~~l~~~~~~~v~~~~~ 172 (296)
T PRK09906 150 ---YSDEID-YLELLDEPLVVVLPVDH 172 (296)
T ss_pred ---CCCCce-EEEEecccEEEEecCCC
Confidence 233344 36888889999987655
No 338
>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=74.50 E-value=24 Score=38.94 Aligned_cols=88 Identities=3% Similarity=-0.017 Sum_probs=63.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCC-ccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDH-GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~-g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
..+.+.++.+| +++.+|+..... .....+.+.+.+++.|+++.....+.+.++..+.......+++.++|+||-.+.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 44566777788 899888865542 4566788999999999887654455555677888888888888999999977543
Q ss_pred --hHHHHHHHHH
Q 002505 233 --IWGLEVLNAA 242 (914)
Q Consensus 233 --~~~~~il~~a 242 (914)
-|+.+.+...
T Consensus 94 S~iD~aK~ia~~ 105 (380)
T cd08185 94 SSMDTAKAIAFM 105 (380)
T ss_pred cHHHHHHHHHHH
Confidence 4666665544
No 339
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. 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 th
Probab=73.12 E-value=92 Score=30.04 Aligned_cols=70 Identities=13% Similarity=0.108 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... ++-++++.+|.+|++|+++...... ...+. +.++.+..+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 455677888877764 35566554 4577899999999999998632211 12232 456666777776654
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 43
No 340
>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=73.10 E-value=29 Score=37.93 Aligned_cols=87 Identities=7% Similarity=0.060 Sum_probs=62.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCcc-chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGR-NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~-~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
..+.++++.+| +++.+++....+-. ...+.+.+.+++.|+++.....+.+.++.++.....+.+++.++|+||-.+.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34556778888 88888875554332 34678899999999887655455555677888899999999999999988654
Q ss_pred --hHHHHHHHH
Q 002505 233 --IWGLEVLNA 241 (914)
Q Consensus 233 --~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 94 SviD~aK~ia~ 104 (357)
T cd08181 94 SPLDAAKAIAV 104 (357)
T ss_pred hHHHHHHHHHH
Confidence 455555443
No 341
>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=72.67 E-value=8.2 Score=39.81 Aligned_cols=78 Identities=12% Similarity=0.006 Sum_probs=59.2
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEE-eChhHHHHHHHHHHh
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH-TYDIWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~-~~~~~~~~il~~a~~ 244 (914)
|+++.. ++.|.....+.+++++++.|..+... .+...+.......++++.+.++|.||+. ..+.....+++++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~ 78 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKA 78 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhh
Confidence 345553 45577788899999999999988775 2222455667788888888899999988 455677899999999
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 887
No 342
>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=72.44 E-value=18 Score=40.01 Aligned_cols=89 Identities=9% Similarity=-0.008 Sum_probs=62.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
...+.++++.+|.+++.+++..........+.+.+.+++.|+.+.....+.+.+...+....+..++..++|+||-.+.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 95 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGG 95 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34566778888989999888544333345788889998888876544444444566778888888888999999987654
Q ss_pred --hHHHHHHHH
Q 002505 233 --IWGLEVLNA 241 (914)
Q Consensus 233 --~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 96 sviD~AK~ia~ 106 (377)
T cd08188 96 SPIDCAKGIGI 106 (377)
T ss_pred hHHHHHHHHHH
Confidence 455555443
No 343
>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=72.44 E-value=32 Score=38.14 Aligned_cols=89 Identities=12% Similarity=0.065 Sum_probs=60.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.+| +++.+++....+.....+.+.+.+++.|+++.......+.....+....+...++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS 90 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGS 90 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 34566788888 8888888444333466788999999989876544334323455667777777788899999987654
Q ss_pred -hHHHHHHHHHH
Q 002505 233 -IWGLEVLNAAK 243 (914)
Q Consensus 233 -~~~~~il~~a~ 243 (914)
-|+.+++....
T Consensus 91 ~iD~aK~ia~~~ 102 (386)
T cd08191 91 CIDLAKIAGLLL 102 (386)
T ss_pred HHHHHHHHHHHH
Confidence 46666665443
No 344
>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=71.75 E-value=16 Score=40.43 Aligned_cols=88 Identities=11% Similarity=0.054 Sum_probs=63.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+|-+++.+++....+.....+.+.+.+++.|+.+.....+.+.++........+.+++.++|+||-.+.+
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 96 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGS 96 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 4566778888888888887544333356788999999888876554445445667778888888888999999987654
Q ss_pred -hHHHHHHHH
Q 002505 233 -IWGLEVLNA 241 (914)
Q Consensus 233 -~~~~~il~~ 241 (914)
-|+.+.+..
T Consensus 97 ~iD~aK~ia~ 106 (377)
T cd08176 97 PHDCAKAIGI 106 (377)
T ss_pred HHHHHHHHHH
Confidence 455555543
No 345
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=71.54 E-value=72 Score=32.93 Aligned_cols=69 Identities=12% Similarity=0.071 Sum_probs=45.3
Q ss_pred HHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCc-ccEEeeceEEecCc---c--eeeeeccceeecceEEEE
Q 002505 501 DVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEV-YDAAVGDFAITTER---T--KMVDFTQPYIESGLVVVA 574 (914)
Q Consensus 501 dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~-~Di~~~~~~~~~~r---~--~~~dft~p~~~~~~~~lv 574 (914)
+|.+.+.+..|-++.+++ +.-..+..++.+|. +|+.+..-..+... . -.-+...+|....+++++
T Consensus 46 ~i~~~F~~~~~~~V~~~f---------~gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~ 116 (258)
T COG0725 46 EIAKQFEKETGVKVEVEF---------GGSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAV 116 (258)
T ss_pred HHHHHHHHHHCCeEEEEe---------cchHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEE
Confidence 677888888876655555 34667888888886 88876643322211 1 123366778888888888
Q ss_pred eccC
Q 002505 575 PIKK 578 (914)
Q Consensus 575 ~~~~ 578 (914)
++..
T Consensus 117 ~~~~ 120 (258)
T COG0725 117 PKGS 120 (258)
T ss_pred eCCC
Confidence 8765
No 346
>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=70.95 E-value=32 Score=37.79 Aligned_cols=86 Identities=10% Similarity=0.047 Sum_probs=61.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+|.+++.+|+....+ ....+.+.+++.|+.+.....+.+.++.+.....+..+++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs 88 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGS 88 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcH
Confidence 445677888888999999855544 4566788888888776544445544566778888888888899999977554
Q ss_pred -hHHHHHHHHH
Q 002505 233 -IWGLEVLNAA 242 (914)
Q Consensus 233 -~~~~~il~~a 242 (914)
-|+.+++...
T Consensus 89 ~~D~aK~ia~~ 99 (367)
T cd08182 89 VLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHH
Confidence 4666666554
No 347
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=70.44 E-value=1.3e+02 Score=31.05 Aligned_cols=70 Identities=21% Similarity=0.139 Sum_probs=45.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .+++.... +...+++.++.+|++|+++..... .....+. ..++....++++++.
T Consensus 80 ~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 148 (269)
T PRK11716 80 SHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAKPE--TLPASVA-FSPIDEIPLVLIAPA 148 (269)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEecCC--CCCcceE-EEEcccceEEEEEcC
Confidence 355678888888875 24555554 557789999999999999853221 1111222 355667777777765
Q ss_pred c
Q 002505 577 K 577 (914)
Q Consensus 577 ~ 577 (914)
.
T Consensus 149 ~ 149 (269)
T PRK11716 149 L 149 (269)
T ss_pred C
Confidence 4
No 348
>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=70.17 E-value=1e+02 Score=29.35 Aligned_cols=70 Identities=19% Similarity=0.149 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..++++.+.+..+ .++++... ++...++..+.+|++|+++...... ...+ ...++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEIQ---SDGI-DYQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCCC---CCCc-EEEEEEccceEEEecC
Confidence 456678888888876 35566654 4577899999999999997532111 1223 2466777788888876
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 349
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=69.60 E-value=1.5e+02 Score=31.03 Aligned_cols=152 Identities=20% Similarity=0.218 Sum_probs=93.2
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.=.|+.||..++. +.+.+++.|+.+. .|..+-+--.|++-...+.+.-..+-+..=+++|.-=..+..
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~~~-- 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFSHE-- 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecccHH--
Confidence 3468999998874 6788899998876 245555555555443333344444555555666664344443
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH---HHcC---CeEEEEEEEeCCCccchHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV---DYFG---WRNVIALYVDDDHGRNGIAAL 185 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l---~~~~---w~~v~ii~~d~~~g~~~~~~~ 185 (914)
.+..+++...||+|. .|++..+| .+++++++ +++| -.+++.+... .+..+.+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 678999999999995 34443323 46677763 5554 4666666532 6678888
Q ss_pred HHHHhhcccEEEEeeccCCCCChhHHHHHHHHh
Q 002505 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTV 218 (914)
Q Consensus 186 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i 218 (914)
-......|..+.....-.. ....++-...+++
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~-~p~~~~~~~a~~~ 201 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGY-EPDPEVVEKAKEN 201 (310)
T ss_pred HHHHHHhCCeEEEECCCcC-CcCHHHHHHHHHH
Confidence 8888888987765432221 1234454544443
No 350
>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=69.36 E-value=76 Score=30.59 Aligned_cols=87 Identities=9% Similarity=-0.047 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEE
Q 002505 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI 227 (914)
Q Consensus 150 ~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~vii 227 (914)
.+....+.+.....+ .++.++....+ .++.+.+.+++. |++|+....+ ....+-..++++|.++++|+++
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~~g~---f~~~~~~~i~~~I~~s~~dil~ 105 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGAFGP---LEPEERKAALAKIARSGAGIVF 105 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEECCC---CChHHHHHHHHHHHHcCCCEEE
Confidence 345556666555556 57888875544 455555555544 6777765221 3445567789999999999999
Q ss_pred EEeChhHHHHHHHHHHh
Q 002505 228 LHTYDIWGLEVLNAAKH 244 (914)
Q Consensus 228 l~~~~~~~~~il~~a~~ 244 (914)
+.+..+.-..++.+.++
T Consensus 106 VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 106 VGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEcCCcHhHHHHHHhHH
Confidence 99887777777766544
No 351
>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=69.15 E-value=1.1e+02 Score=29.26 Aligned_cols=70 Identities=13% Similarity=0.119 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.++.+ .++++... +.+..+...+.+|++|+++..... ....+ -+.++....+++++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeC
Confidence 355678888888875 35566554 568889999999999999853211 11222 2456677788888776
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 54
No 352
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=68.73 E-value=1.2e+02 Score=29.88 Aligned_cols=107 Identities=20% Similarity=0.227 Sum_probs=62.5
Q ss_pred CCCCChHHhhhCCCCeE-EEeCchhhhhhhh---hcCCCCCCcccC----CCHHHHHHHHhcCCCCCCeEEEEechhhHH
Q 002505 685 SPIKDIQSLVASSDPIG-YQRGSFAENYLTD---ELNIDKSRLVPL----NTAEEYEKALTDGPKNGGVSAVIDERAYME 756 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~-~~~~s~~~~~l~~---~~~~~~~~~~~~----~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 756 (914)
..|++++||.+.+.++- -.+||=.+..+.. ..+.....+.-| .+-.....++.. |+.|+-+.-...++
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~----G~AD~GvGlr~~A~ 162 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVAS----GRADAGVGLRHAAE 162 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHc----CCCCccccHHHHHH
Confidence 45899999996655432 2456655554432 233333445444 344556788888 89999888544443
Q ss_pred HHHhcCceEEEeccccccccceeeecCCCCChhhHHHHHHhhhccC
Q 002505 757 VFLSTRCEFSIIGQEFTRIGWGFAFPRDSPLAVDMSIAILELSENG 802 (914)
Q Consensus 757 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~i~~l~e~G 802 (914)
.+ .-+|. ++....|-|+.+|+.-=.+.+...+..|.+.+
T Consensus 163 ~~---gL~Fi----pl~~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 163 KY---GLDFI----PLGDEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred Hc---CCceE----EcccceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 22 11333 23455788899987555555555555555544
No 353
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=68.39 E-value=1.2e+02 Score=34.64 Aligned_cols=141 Identities=13% Similarity=0.103 Sum_probs=77.5
Q ss_pred EEcCCCchHHHHHHHhhc-cCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe-CCCc
Q 002505 101 IIGPQFSVIAHLVSHIAN-EFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-DDHG 178 (914)
Q Consensus 101 iiGp~~s~~~~~v~~~~~-~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d-~~~g 178 (914)
|++|.+.....++..+.+ ...+=+|.++. . -++|. ..........++++...-+++.|+|.. +...
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H-G---------~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH-G---------VVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-C---------ceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 678887776666666654 23455555433 1 12442 222223333444444345789988832 3334
Q ss_pred cchHHHHHHHHhhc--ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh------hHHHHHHHHHHhcCCCCC
Q 002505 179 RNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD------IWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 179 ~~~~~~~~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~------~~~~~il~~a~~~g~~~~ 250 (914)
...++.+.+.+++. |+++.... +. ..+...++..+. +++.|++.+.. +....++.......+.++
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~~-v~----~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~gK 338 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIFN-VA----RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRNK 338 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEE-CC----CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcCCC
Confidence 56688899999876 45544332 22 233445555543 56788877542 346667777766665554
Q ss_pred CeEEEEeCcc
Q 002505 251 GYVWIVTDWL 260 (914)
Q Consensus 251 ~~~~i~~~~~ 260 (914)
....+++.+|
T Consensus 339 ~~~vFGSygw 348 (479)
T PRK05452 339 RASAFGSHGW 348 (479)
T ss_pred EEEEEECCCc
Confidence 4444555444
No 354
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=67.97 E-value=52 Score=33.57 Aligned_cols=88 Identities=9% Similarity=-0.078 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhh-cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEE
Q 002505 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILIL 228 (914)
Q Consensus 150 ~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil 228 (914)
.+....+.+.....| .+|.++..+.+ .++.+.+.+++ .|+.++....=+ .+..+...++++|.++++|++++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gy--f~~~e~~~i~~~I~~s~~dil~V 163 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGY--FTPEQRQALFERIHASGAKIVTV 163 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCC--CCHHHHHHHHHHHHhcCCCEEEE
Confidence 345556666666666 67888876554 34444444432 377776543211 24456677899999999999999
Q ss_pred EeChhHHHHHHHHHHh
Q 002505 229 HTYDIWGLEVLNAAKH 244 (914)
Q Consensus 229 ~~~~~~~~~il~~a~~ 244 (914)
.+..+.-..++...++
T Consensus 164 glG~PkQE~~~~~~~~ 179 (243)
T PRK03692 164 AMGSPKQEIFMRDCRL 179 (243)
T ss_pred ECCCcHHHHHHHHHHH
Confidence 9887777777766555
No 355
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=67.43 E-value=1.2e+02 Score=31.84 Aligned_cols=65 Identities=14% Similarity=0.017 Sum_probs=41.1
Q ss_pred HHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEeccC
Q 002505 501 DVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 501 dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
..+..+.+.-+ +.++... +...+++.+|.+|++|+++..... ....+. +.|+....++++++...
T Consensus 107 ~~l~~~~~~~~--i~i~~~~-------~~~~~~~~~L~~~~~d~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 171 (294)
T PRK13348 107 PALAAVLAGER--ILLELIV-------DDQDHTFALLERGEVVGCVSTQPK---PMRGCL-AEPLGTMRYRCVASPAF 171 (294)
T ss_pred HHHHHHHhCCC--eEEEEEE-------cchHHHHHHHhcCCeEEEEecCCc---ccCCcc-cccccccceEEEEccch
Confidence 34555544433 4455443 457889999999999998753221 223444 57778888888876543
No 356
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=67.32 E-value=41 Score=36.34 Aligned_cols=88 Identities=8% Similarity=0.021 Sum_probs=60.6
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh--
Q 002505 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-- 232 (914)
Q Consensus 155 a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-- 232 (914)
.+.+.++.++.+++.+|+....+. ...+.+.+.+++. +.+.......+..+.++....+..+++.++|.||..+.+
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~ 90 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST 90 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH
Confidence 355677788889999998544433 6677888888876 655444334333566778888888888899999977554
Q ss_pred hHHHHHHHHHHh
Q 002505 233 IWGLEVLNAAKH 244 (914)
Q Consensus 233 ~~~~~il~~a~~ 244 (914)
-|+.+++.....
T Consensus 91 ~D~aK~ia~~~~ 102 (332)
T cd07766 91 LDTAKAVAALLN 102 (332)
T ss_pred HHHHHHHHHHhc
Confidence 466666655443
No 357
>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=67.11 E-value=17 Score=39.61 Aligned_cols=85 Identities=8% Similarity=0.004 Sum_probs=60.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.++ +++.+++....+. ...+.+.+.+++.|+.+.+. .+.+.++..+....++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 34566677776 8888888444443 67788899999999887644 34445567788888888888999999887654
Q ss_pred -hHHHHHHHH
Q 002505 233 -IWGLEVLNA 241 (914)
Q Consensus 233 -~~~~~il~~ 241 (914)
-|+.+++..
T Consensus 89 ~iD~aK~ia~ 98 (351)
T cd08170 89 TLDTAKAVAD 98 (351)
T ss_pred hhHHHHHHHH
Confidence 455555543
No 358
>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=66.99 E-value=1.2e+02 Score=28.91 Aligned_cols=71 Identities=14% Similarity=0.021 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++.+.++.++.+|++|+++..... .....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEcC
Confidence 556788889988875 24566554 446688999999999999753211 111122 3456666777777766
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 54
No 359
>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=66.26 E-value=45 Score=36.89 Aligned_cols=89 Identities=11% Similarity=0.056 Sum_probs=62.5
Q ss_pred HHHHHHHHHc---CCeEEEEEEEeCCCc-cchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEE
Q 002505 154 AAIADIVDYF---GWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (914)
Q Consensus 154 ~a~~~~l~~~---~w~~v~ii~~d~~~g-~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~ 229 (914)
..+.++++.+ |.+++.+++...... ....+.+.+.+++.|+++.....+.+.++.++....++.++..++|+||..
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 91 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAI 91 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 3455667776 778998888544443 334678889999889876554445555677888888999998999999977
Q ss_pred eCh--hHHHHHHHHH
Q 002505 230 TYD--IWGLEVLNAA 242 (914)
Q Consensus 230 ~~~--~~~~~il~~a 242 (914)
+.+ -|+.+++...
T Consensus 92 GGGS~iD~aK~ia~~ 106 (383)
T cd08186 92 GGGSPIDSAKSAAIL 106 (383)
T ss_pred CCccHHHHHHHHHHH
Confidence 543 4666665443
No 360
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=65.38 E-value=95 Score=27.19 Aligned_cols=85 Identities=13% Similarity=0.062 Sum_probs=45.4
Q ss_pred HHHHcCCeEEEEEEEeCCC-ccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHH
Q 002505 159 IVDYFGWRNVIALYVDDDH-GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLE 237 (914)
Q Consensus 159 ~l~~~~w~~v~ii~~d~~~-g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~ 237 (914)
-+...|.+.|.-+..|++- +......+++.+++.|+...+.-......+..++....+.+......|.+.|..+.-+..
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~ 101 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASA 101 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHH
Confidence 3566999999988877653 455677788999999998765433333345566666655565554445555555555555
Q ss_pred HHHHHH
Q 002505 238 VLNAAK 243 (914)
Q Consensus 238 il~~a~ 243 (914)
+...++
T Consensus 102 l~~l~~ 107 (110)
T PF04273_consen 102 LWALAQ 107 (110)
T ss_dssp HHHHHH
T ss_pred HHHHHh
Confidence 544433
No 361
>PRK07475 hypothetical protein; Provisional
Probab=65.17 E-value=30 Score=35.50 Aligned_cols=83 Identities=17% Similarity=0.093 Sum_probs=47.4
Q ss_pred CChHHHHHHH-HHHHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHH
Q 002505 81 YSRFLGMVEA-LTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (914)
Q Consensus 81 ~~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~ 159 (914)
.++......+ .+|...++++|+.+. .........+.+..++|+++. +.+.+..
T Consensus 61 ~~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~ 114 (245)
T PRK07475 61 PSLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVPL 114 (245)
T ss_pred ccHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHH
Confidence 3455444444 445455999998744 333444556666788998851 1222223
Q ss_pred HHHc--CCeEEEEEEEeCCCccchHHHHHHHHhhcccE
Q 002505 160 VDYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCR 195 (914)
Q Consensus 160 l~~~--~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~ 195 (914)
++.. +-++|+++..+... -.++.+++.|++
T Consensus 115 l~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~ 146 (245)
T PRK07475 115 IQALLPAGQKVGILTADASS------LTPAHLLAVGVP 146 (245)
T ss_pred HHHhccCCCeEEEEeCCchh------hhHHHHHhCCCC
Confidence 4333 35788888865542 224567777764
No 362
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=64.52 E-value=46 Score=34.13 Aligned_cols=99 Identities=9% Similarity=0.152 Sum_probs=55.8
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhH
Q 002505 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW 234 (914)
Q Consensus 155 a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~ 234 (914)
.+-+++++++.+++.+|...+.| ....+.+++.++..|+++..........+..+......+++..+.|+||-.+.+.
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~- 86 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGT- 86 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHH-
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcH-
Confidence 35567888888999999865543 3445788889999998887443222223555666667777667888888777653
Q ss_pred HHHHHH-HHHhcCCCCCCeEEEEeC
Q 002505 235 GLEVLN-AAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 235 ~~~il~-~a~~~g~~~~~~~~i~~~ 258 (914)
+.++.| .|.+.|+ .|+-|-|.
T Consensus 87 i~D~~K~~A~~~~~---p~isVPTa 108 (250)
T PF13685_consen 87 IIDIAKYAAFELGI---PFISVPTA 108 (250)
T ss_dssp HHHHHHHHHHHHT-----EEEEES-
T ss_pred HHHHHHHHHHhcCC---CEEEeccc
Confidence 333333 3455553 45555443
No 363
>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=64.36 E-value=28 Score=38.49 Aligned_cols=87 Identities=9% Similarity=0.094 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCc-cchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g-~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
..+.+.++.++ +++.+|.....+- ....+.+.+.+++.|+++.....+.+.++..+....+..++..++|+||-.+.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 96 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGG 96 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCh
Confidence 34566677775 8888887543332 345778999999989887655455545567888888899999999999977554
Q ss_pred --hHHHHHHHH
Q 002505 233 --IWGLEVLNA 241 (914)
Q Consensus 233 --~~~~~il~~ 241 (914)
-|+.+++..
T Consensus 97 S~iD~aK~ia~ 107 (382)
T cd08187 97 SVIDSAKAIAA 107 (382)
T ss_pred HHHHHHHHHHh
Confidence 455555533
No 364
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=63.94 E-value=1.7e+02 Score=30.77 Aligned_cols=81 Identities=17% Similarity=0.099 Sum_probs=51.7
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
.+|+||+... .. ..+...++..+.+.. .++++... +.-..++..+.+|++|+++..-
T Consensus 90 g~l~I~~~~~--~~------------~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~ 146 (294)
T PRK03635 90 LTLSIAVNAD--SL------------ATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE 146 (294)
T ss_pred eEEEEeecch--hH------------HHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc
Confidence 4589998741 11 123344667777664 45566654 4466789999999999997532
Q ss_pred EEecCcceeeeeccceeecceEEEEecc
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
......+ .+.++.+..++++++..
T Consensus 147 ---~~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 147 ---PQPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred ---CCCCCCc-eeeecccceEEEEEcch
Confidence 2222223 56778888888888754
No 365
>cd08428 PBP2_IciA_ArgP The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold. The inhibitor of chromosomal replication (iciA) protein encoded by Mycobacterium tuberculosis, which is implicated in chromosome replication initiation in vitro, has been identified as arginine permease (ArgP), a LysR-type transcriptional regulator for arginine outward transport, based on the same amino sequence and similar DNA binding targets. Arp has been shown to regulate various targets including DnaA (replication), ArgO (arginine export), dapB (lysine biosynthesis), and gdhA (glutamate biosynthesis). With abundant nutrition, ArgP activates the DnaA gene (to increase replication) and the ArgO (to export redundant molecules). However, when nutrition supply is limited, it is suggested that ArgP might function as an inhibitor of chromosome replication in order to slow replication. This substrate-
Probab=63.92 E-value=1.4e+02 Score=28.52 Aligned_cols=66 Identities=9% Similarity=0.034 Sum_probs=41.1
Q ss_pred eHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 499 CIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 499 ~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
...++..+.++. .+++.... ++...+.+++.+|++|+++..- ......+ .+.++.....+++++..
T Consensus 15 l~~~l~~f~~~~--~v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~ 80 (195)
T cd08428 15 FLPALAPVLKRE--RILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASPD 80 (195)
T ss_pred hHHHHHHHHhCc--CeEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECCc
Confidence 445677777773 46666654 4577889999999999876421 1122222 34566666777666543
No 366
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=63.06 E-value=47 Score=31.68 Aligned_cols=91 Identities=14% Similarity=0.236 Sum_probs=52.2
Q ss_pred HHHHHhc--CcEEEEcCCCch---HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC
Q 002505 90 ALTLLEN--ETVAIIGPQFSV---IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG 164 (914)
Q Consensus 90 a~~li~~--~v~aiiGp~~s~---~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~ 164 (914)
+.+++.+ +...++|..... ....+..+++..++|+++.......+.++. ..|. ....-.+..++..-+
T Consensus 27 aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kg------v~~~-~~~lg~lg~~~~~p~ 99 (171)
T PRK00945 27 AAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKG------VDAK-YINLHELTNYLKDPN 99 (171)
T ss_pred HHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCC------ccCC-cccHHHHHhhccCch
Confidence 3344444 899999986643 677789999999999998655444454422 1111 112233444443333
Q ss_pred C---------eEEEEEEEeCCCccchHHHHHH
Q 002505 165 W---------RNVIALYVDDDHGRNGIAALGD 187 (914)
Q Consensus 165 w---------~~v~ii~~d~~~g~~~~~~~~~ 187 (914)
| .-|.++..+..+....+..++.
T Consensus 100 ~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~ 131 (171)
T PRK00945 100 WKGLDGNGNYDLVIFIGVTYYYASQGLSALKH 131 (171)
T ss_pred hhhhcCCCCcCEEEEecCCchhHHHHHHHHhh
Confidence 3 3445555666665555555544
No 367
>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=62.39 E-value=29 Score=37.70 Aligned_cols=87 Identities=8% Similarity=0.098 Sum_probs=59.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.++ +++.+|+....+ ....+.+.+.+++.|+.+.....+.+.++.++.....+..+..++|+||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs 89 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGK 89 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcH
Confidence 44556677777 888888754443 344677888888888876544445444566777888888888899999987654
Q ss_pred -hHHHHHHHHH
Q 002505 233 -IWGLEVLNAA 242 (914)
Q Consensus 233 -~~~~~il~~a 242 (914)
-|+.+++...
T Consensus 90 ~~D~aK~ia~~ 100 (345)
T cd08171 90 AIDTVKVLADK 100 (345)
T ss_pred HHHHHHHHHHH
Confidence 4555555443
No 368
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=61.88 E-value=76 Score=32.78 Aligned_cols=71 Identities=20% Similarity=0.137 Sum_probs=41.9
Q ss_pred eHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCc-ccEEeeceEEecCcc---eeee-ec-cceeecceEE
Q 002505 499 CIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEV-YDAAVGDFAITTERT---KMVD-FT-QPYIESGLVV 572 (914)
Q Consensus 499 ~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~-~Di~~~~~~~~~~r~---~~~d-ft-~p~~~~~~~~ 572 (914)
.-++.+.+.++.|.++.+.+ +.-..+..++.+|. +|+.+.+-....++. ..+. .+ .++....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~---------~~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSF---------ASSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEe---------cccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 34566777777776655443 22346777888877 999987542222221 1221 11 3577778888
Q ss_pred EEeccC
Q 002505 573 VAPIKK 578 (914)
Q Consensus 573 lv~~~~ 578 (914)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 887754
No 369
>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=61.72 E-value=31 Score=35.75 Aligned_cols=77 Identities=9% Similarity=-0.017 Sum_probs=54.4
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-hhHHHHHHHHHHh
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~ 244 (914)
|+++.. ++.|.....+.+.+++++.|..+..... ..+.......++.+...+.|.||+... ......+++.+++
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~ 78 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALD 78 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHH
Confidence 566654 4667778889999999999998776422 123445566777777778999999753 3445677888888
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|+
T Consensus 79 ~~i 81 (273)
T cd06305 79 AGI 81 (273)
T ss_pred cCC
Confidence 775
No 370
>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=61.70 E-value=1.5e+02 Score=28.31 Aligned_cols=70 Identities=11% Similarity=0.084 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+..+++..+.+..+ .++++... ++...++.+|.+|++|+++.. .......+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~ 80 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALPK 80 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEeC
Confidence 345678888888775 35566554 557889999999999999752 122222333 356667777777765
Q ss_pred cC
Q 002505 577 KK 578 (914)
Q Consensus 577 ~~ 578 (914)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 44
No 371
>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=61.27 E-value=1.4e+02 Score=29.61 Aligned_cols=124 Identities=11% Similarity=0.085 Sum_probs=70.7
Q ss_pred HHHHhcCcEEEEcCCCchHHHHHHHhh-ccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEE
Q 002505 91 LTLLENETVAIIGPQFSVIAHLVSHIA-NEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVI 169 (914)
Q Consensus 91 ~~li~~~v~aiiGp~~s~~~~~v~~~~-~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ 169 (914)
.++...++++|+-+.++. ...+..+- +..++|+++.. ++.++-+.. +-++|+
T Consensus 59 ~~l~~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~~-------------------------~a~~~~~~~-~~~ri~ 111 (216)
T PF01177_consen 59 EKLEKAGVDAIVIACNSA-HPFVDELRKERVGIPVVGIV-------------------------EAALEAAKA-GGKRIG 111 (216)
T ss_dssp HHHHHTTESEEEESSHHH-HHHHHHHHHHHHSSEEEESH-------------------------HHHHHHHHH-TSSEEE
T ss_pred HHHHhCCCCEEEEcCCch-hhhHHHHhhhcCceEEEecc-------------------------HHHHHHHHh-cCCEEE
Confidence 334445899988644433 23344444 66688887621 122333444 889999
Q ss_pred EEEEeCCCccchHHHHHHHHhhc-cc--EEEEee------ccCCCC-Chh---HHHHHHHHh-ccCCCeEEEEEeChhH-
Q 002505 170 ALYVDDDHGRNGIAALGDKLAEK-RC--RLSHKV------PLSPKG-SRN---QIIDTLLTV-SSMMSRILILHTYDIW- 234 (914)
Q Consensus 170 ii~~d~~~g~~~~~~~~~~l~~~-g~--~v~~~~------~~~~~~-~~~---d~~~~l~~i-~~~~~~viil~~~~~~- 234 (914)
++.. ++......+.+.+++. |+ ++.... ....+. ... .+...+.++ +..++|+|++.|..-.
T Consensus 112 vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~ 188 (216)
T PF01177_consen 112 VLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPL 188 (216)
T ss_dssp EEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGG
T ss_pred EEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHH
Confidence 9985 3344556677777777 76 444321 110111 222 344455554 3789999999987643
Q ss_pred HHHHHHHHHh
Q 002505 235 GLEVLNAAKH 244 (914)
Q Consensus 235 ~~~il~~a~~ 244 (914)
....++.+.+
T Consensus 189 ~~~~~~~l~~ 198 (216)
T PF01177_consen 189 LLGAIEALEE 198 (216)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHhhcc
Confidence 3366666655
No 372
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=60.76 E-value=2.2e+02 Score=29.80 Aligned_cols=85 Identities=18% Similarity=0.174 Sum_probs=53.9
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++||+... + ...+..++++.+.+..+ .+.+.... .+-+.++.++.+|++|+++...
T Consensus 97 ~~l~I~~~~~--~------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGT--A------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehH--H------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 4699998752 1 12344567788887776 24455543 3467889999999999997521
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
. .......+. +.|+....+++++++..
T Consensus 155 ~-~~~~~~~l~-~~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFT-SRRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeE-EEEeecccEEEEEcCCC
Confidence 1 011223343 36677788888887665
No 373
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=60.42 E-value=62 Score=35.65 Aligned_cols=84 Identities=14% Similarity=0.100 Sum_probs=59.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.++ +++.+++..... ..+.+.+.+++.|+.+.... +.+.++.++....+...+..++|+||-.+.+
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 34566677775 888888754443 67778888998898765443 3334566778888888888999999988654
Q ss_pred -hHHHHHHHHH
Q 002505 233 -IWGLEVLNAA 242 (914)
Q Consensus 233 -~~~~~il~~a 242 (914)
-|+.+++...
T Consensus 87 ~~D~aK~ia~~ 97 (374)
T cd08183 87 VIDAGKAIAAL 97 (374)
T ss_pred HHHHHHHHHHH
Confidence 4666665443
No 374
>PRK00865 glutamate racemase; Provisional
Probab=60.28 E-value=1.2e+02 Score=31.50 Aligned_cols=35 Identities=14% Similarity=0.257 Sum_probs=25.9
Q ss_pred HHHhcCcEEEEcCCCchHHHHHHHhhccCCccEEe
Q 002505 92 TLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLS 126 (914)
Q Consensus 92 ~li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is 126 (914)
.|.+.++++|+=+.++..+.++..+-+..++|+|+
T Consensus 62 ~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 62 FLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 34445899888777777666666777778999996
No 375
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=59.90 E-value=31 Score=37.89 Aligned_cols=84 Identities=10% Similarity=0.007 Sum_probs=59.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.+. .++.....+.....++.+++.++|+||-.+.+
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGs 95 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGECSDNEIDRLVAIAEENGCDVVIGIGGGK 95 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEecChH
Confidence 44566778888 888888844444 336678888888888877544 34444566778888888888899999987654
Q ss_pred -hHHHHHHH
Q 002505 233 -IWGLEVLN 240 (914)
Q Consensus 233 -~~~~~il~ 240 (914)
-|+.+++.
T Consensus 96 v~D~aK~iA 104 (366)
T PRK09423 96 TLDTAKAVA 104 (366)
T ss_pred HHHHHHHHH
Confidence 45555554
No 376
>PLN02245 ATP phosphoribosyl transferase
Probab=59.75 E-value=54 Score=35.83 Aligned_cols=105 Identities=11% Similarity=0.022 Sum_probs=58.5
Q ss_pred CCCChHHhhh-------CCCCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHH
Q 002505 686 PIKDIQSLVA-------SSDPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVF 758 (914)
Q Consensus 686 ~i~s~~dL~~-------~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~ 758 (914)
.+++++||.. ..++|+.........||.+ .+...-+++.....-|. +-.. |-.|++++=.....-+
T Consensus 178 ~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~~-~Gv~~v~Iv~l~GAvE~--AP~l----GlADaIvDIVsTGtTL 250 (403)
T PLN02245 178 NINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMKD-NGFKHVTFSTADGALEA--APAM----GIADAILDLVSSGTTL 250 (403)
T ss_pred ccCCHHHhcccccccccCceEEEeCCHHHHHHHHHH-cCCCeEEEEECcCceec--cccc----CchhhhcchhccHHHH
Confidence 5788889862 1157888777778888853 34433355555444443 2222 5555665543333333
Q ss_pred HhcCceEEEec-cccccccceeeecCCCC-----ChhhHHHHHHhhh
Q 002505 759 LSTRCEFSIIG-QEFTRIGWGFAFPRDSP-----LAVDMSIAILELS 799 (914)
Q Consensus 759 ~~~~~~l~~~~-~~~~~~~~~~~~~k~sp-----l~~~~~~~i~~l~ 799 (914)
. ..+|.+++ +.+....-.++.++++. -++.++..+.+|.
T Consensus 251 r--aNgLk~i~~~~Il~S~A~LIan~~sl~~~~~~~~~i~~ll~rl~ 295 (403)
T PLN02245 251 R--ENNLKEIEGGVVLESQAVLVASRRALLERKGALEVVHEILERLE 295 (403)
T ss_pred H--HCCCEEccCceEEEEEEEEEEecchhhcchhHHHHHHHHHHHHH
Confidence 2 23577775 55556666666777654 2335555555554
No 377
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=59.13 E-value=40 Score=36.50 Aligned_cols=82 Identities=7% Similarity=-0.096 Sum_probs=59.0
Q ss_pred CCeEEEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEe-ChhHHHHHHH
Q 002505 164 GWRNVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLN 240 (914)
Q Consensus 164 ~w~~v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~-~~~~~~~il~ 240 (914)
.-.+++++.. ++.|.....+.+++++++.|.++.... +...+.......++.+.+.++|.|++.. ........++
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~ 99 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALK 99 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHH
Confidence 4467888874 457777888899999999998887532 2222334445677888888999999875 3444578899
Q ss_pred HHHhcCC
Q 002505 241 AAKHLRM 247 (914)
Q Consensus 241 ~a~~~g~ 247 (914)
++.+.|.
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 9998876
No 378
>cd08432 PBP2_GcdR_TrpI_HvrB_AmpR_like The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate domain of LysR-type transcriptional regulators involved in controlling the expression of glutaryl-CoA dehydrogenase (GcdH), S-adenosyl-L-homocysteine hydrolase, cell division protein FtsW, tryptophan synthase, and beta-lactamase. 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 can interact with a cognate membrane transport complex compris
Probab=59.04 E-value=1e+02 Score=29.19 Aligned_cols=66 Identities=15% Similarity=0.052 Sum_probs=39.9
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+...++..+.+..+ .++++... + + .+.++.+|++|+++... +.....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~--~-~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 77 (194)
T cd08432 13 RWLIPRLARFQARHP-DIDLRLST-------S--D-RLVDFAREGIDLAIRYG---DGDWPGL-EAERLMDEELVPVCSP 77 (194)
T ss_pred HHHHHHhHHHHHHCC-CeEEEEEe-------c--C-CccccccccccEEEEec---CCCCCCc-ceEEccCCcEEEecCH
Confidence 344566777777765 35566553 1 1 45678999999997532 1112222 3566677777777765
Q ss_pred c
Q 002505 577 K 577 (914)
Q Consensus 577 ~ 577 (914)
.
T Consensus 78 ~ 78 (194)
T cd08432 78 A 78 (194)
T ss_pred H
Confidence 3
No 379
>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=58.45 E-value=32 Score=35.65 Aligned_cols=78 Identities=9% Similarity=0.005 Sum_probs=55.1
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhh-cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHH
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a 242 (914)
+|+++..+ +.|.....+.+.+++++ .|..+...... .+.......++.+.+.+.|.+|+.... .....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDAK---NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 36677754 56777888899999999 88887764321 244566677888888889999987543 3345677787
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
.+.|.
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 77665
No 380
>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=58.22 E-value=31 Score=35.28 Aligned_cols=76 Identities=11% Similarity=-0.016 Sum_probs=54.0
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++..+ +.|.....+.+++++++.|+.+..... ..+.......++++.+.++|+|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5566644 678888889999999998988765422 123455667777888889999998766555544 7777776
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 65
No 381
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=57.88 E-value=1.4e+02 Score=30.71 Aligned_cols=128 Identities=13% Similarity=0.030 Sum_probs=71.6
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.-+||++.+...........|+.-++++.+ + ..+.......+..+...+.+.+.++++.+..+|+. .+...+.
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~----~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~-~~d~~A~ 192 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVN----P--DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFA-AAGGTGP 192 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhC----C--CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEE-cCCCCch
Confidence 346777754322223344567777776543 1 23333333333334556777788888776788876 4444454
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEE
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNV 168 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v 168 (914)
.+...+.+.++-++++.... ...-..|-+-.+..+....+...++.+..-.|+..
T Consensus 193 gv~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 193 GVIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred HHHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 55566666676667665532 22222365666666666667666666655555443
No 382
>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=57.49 E-value=31 Score=35.30 Aligned_cols=77 Identities=8% Similarity=0.058 Sum_probs=52.5
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
++++... ..+.......+++++++.|+++.....- .........++++.+.++|+||+..........++.+.+.
T Consensus 2 ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~ 78 (264)
T cd01537 2 IGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANSQ---NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKA 78 (264)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhc
Confidence 6677754 5677888899999999999887654322 2334566777777777899988875543333356677665
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 79 ~i 80 (264)
T cd01537 79 GI 80 (264)
T ss_pred CC
Confidence 54
No 383
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=57.46 E-value=1.8e+02 Score=33.74 Aligned_cols=129 Identities=6% Similarity=0.032 Sum_probs=79.4
Q ss_pred CChHHHHHHHHH-HHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHH
Q 002505 81 YSRFLGMVEALT-LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (914)
Q Consensus 81 ~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~ 159 (914)
++-..++..+.+ +..+++++||.-.. .+..+.. ...+|+|... .+..+..+++. .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~--ta~~i~~---~~~iPVv~i~------------------~s~~Dil~al~-~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS--NGAYLKS---RLSLPVIVIK------------------PTGFDVMQALA-R 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch--HHHHHHH---hCCCCEEEec------------------CChhhHHHHHH-H
Confidence 455677877855 55669999996333 3333333 4479998632 22233444443 3
Q ss_pred HHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHH
Q 002505 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVL 239 (914)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il 239 (914)
.+.++ .++++|...+.. .....+.+.+ +..+..... .+..|....+.++++.+.++||-.+. ..
T Consensus 93 a~~~~-~~ia~vg~~~~~--~~~~~~~~ll---~~~i~~~~~----~~~~e~~~~~~~l~~~G~~~viG~~~------~~ 156 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDTP--PALRRFQAAF---NLDIVQRSY----VTEEDARSCVNDLRARGIGAVVGAGL------IT 156 (526)
T ss_pred HHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEEe----cCHHHHHHHHHHHHHCCCCEEECChH------HH
Confidence 35554 578888754431 2345555555 555554322 35689999999999999999885432 35
Q ss_pred HHHHhcCCCC
Q 002505 240 NAAKHLRMME 249 (914)
Q Consensus 240 ~~a~~~g~~~ 249 (914)
..|++.||.+
T Consensus 157 ~~A~~~gl~~ 166 (526)
T TIGR02329 157 DLAEQAGLHG 166 (526)
T ss_pred HHHHHcCCce
Confidence 6788889854
No 384
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=57.31 E-value=74 Score=31.95 Aligned_cols=93 Identities=15% Similarity=0.161 Sum_probs=50.6
Q ss_pred CCCCChHHhhh--------CC--CCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhh
Q 002505 685 SPIKDIQSLVA--------SS--DPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAY 754 (914)
Q Consensus 685 ~~i~s~~dL~~--------~~--~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~ 754 (914)
..+++++||.. .+ .+|+.........||.+ .+...-.++.....-|..-. . |-.|++++=...
T Consensus 109 ~~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~~-~Gv~~~~Iv~l~GsvElaP~--~----GlAD~IvDivsT 181 (228)
T PRK13583 109 IDVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLSQ-KGVQDYRIVESLGATEGAPA--N----GSAEIIVDITST 181 (228)
T ss_pred cccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHHH-cCCceeEEEECCCceecccc--c----Ccchhhhhhhch
Confidence 35677777751 12 46888777778888853 34432245554444333211 1 455566554333
Q ss_pred HHHHHhcCceEEEec-cccccccceeeecCCCC
Q 002505 755 MEVFLSTRCEFSIIG-QEFTRIGWGFAFPRDSP 786 (914)
Q Consensus 755 ~~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 786 (914)
..-+. ..+|.+++ +.+......++.++.|.
T Consensus 182 G~TLr--~NgL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 182 GETLR--ANHLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred hHHHH--HCCCEEecCceEEEEEEEEEEecccc
Confidence 33332 23577775 45556666667777764
No 385
>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=56.77 E-value=78 Score=28.25 Aligned_cols=72 Identities=10% Similarity=-0.014 Sum_probs=47.6
Q ss_pred EEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh----hHHHHHHHHHHhc
Q 002505 170 ALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD----IWGLEVLNAAKHL 245 (914)
Q Consensus 170 ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~----~~~~~il~~a~~~ 245 (914)
+....++.-.-+..-+...++..|.++.+-.... .....+..+.+.++++|++++.. ..+..+++++++.
T Consensus 4 ~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~v------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~ 77 (122)
T cd02071 4 VAKPGLDGHDRGAKVIARALRDAGFEVIYTGLRQ------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLREL 77 (122)
T ss_pred EEecCCChhHHHHHHHHHHHHHCCCEEEECCCCC------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhc
Confidence 3333444444456667778899999988654332 23456666667899999998643 5667777788887
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 78 ~~ 79 (122)
T cd02071 78 GA 79 (122)
T ss_pred CC
Confidence 65
No 386
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=56.41 E-value=1.6e+02 Score=34.19 Aligned_cols=128 Identities=11% Similarity=0.092 Sum_probs=78.0
Q ss_pred ChHHHHHHHHH-HHhcCcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHH
Q 002505 82 SRFLGMVEALT-LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (914)
Q Consensus 82 ~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 160 (914)
.-..++..+.+ +..+++++||.-.+ .+..+. +...+|+|... .+..+..+++.. .
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~--ta~~i~---~~~~iPVv~i~------------------~s~~Dil~al~~-a 103 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGS--NGAYLK---SRLSVPVILIK------------------PSGFDVMQALAR-A 103 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECch--HHHHHH---hhCCCCEEEec------------------CCHhHHHHHHHH-H
Confidence 44567777754 55569999996333 222333 34679998632 222334455433 3
Q ss_pred HHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHH
Q 002505 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLN 240 (914)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~ 240 (914)
+.++ .++++|...+.. .....+.+.+ ++.+..... .+..|....+.++++.+.++||-.+. ...
T Consensus 104 ~~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~~~----~~~~e~~~~v~~lk~~G~~~vvG~~~------~~~ 167 (538)
T PRK15424 104 RKLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQRSY----VTEEDARGQINELKANGIEAVVGAGL------ITD 167 (538)
T ss_pred HhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEEe----cCHHHHHHHHHHHHHCCCCEEEcCch------HHH
Confidence 5554 578888754432 2344555544 555554322 25689999999999999999886433 346
Q ss_pred HHHhcCCCC
Q 002505 241 AAKHLRMME 249 (914)
Q Consensus 241 ~a~~~g~~~ 249 (914)
.|.+.|+.+
T Consensus 168 ~A~~~g~~g 176 (538)
T PRK15424 168 LAEEAGMTG 176 (538)
T ss_pred HHHHhCCce
Confidence 677888764
No 387
>cd08422 PBP2_CrgA_like The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain. This CD includes the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA and its related homologs. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis further showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own
Probab=56.39 E-value=86 Score=29.81 Aligned_cols=66 Identities=20% Similarity=0.066 Sum_probs=38.8
Q ss_pred eeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 497 G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
++..+++..+.+..+ .++++... .+.+. .+.+|++|+++... +.....+. +.++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~---------~~~~~-~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 78 (197)
T cd08422 14 LHLAPLLAEFLARYP-DVRLELVL---------SDRLV-DLVEEGFDLAIRIG---ELPDSSLV-ARRLGPVRRVLVASP 78 (197)
T ss_pred HHHHHHHHHHHHhCC-ceEEEEec---------Ccccc-chhhcCccEEEEeC---CCCCcchh-hhhhhccCcEEEECH
Confidence 556678888888875 34555543 11233 45678899998532 22222232 456667777777764
Q ss_pred c
Q 002505 577 K 577 (914)
Q Consensus 577 ~ 577 (914)
.
T Consensus 79 ~ 79 (197)
T cd08422 79 A 79 (197)
T ss_pred H
Confidence 3
No 388
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=55.92 E-value=1.4e+02 Score=27.66 Aligned_cols=121 Identities=17% Similarity=0.180 Sum_probs=74.7
Q ss_pred HHHHHHhc--CcEEEEcCCCc--hHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcC
Q 002505 89 EALTLLEN--ETVAIIGPQFS--VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG 164 (914)
Q Consensus 89 ~a~~li~~--~v~aiiGp~~s--~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~ 164 (914)
.+..+++. +...|+||..- ..-+.+..+.+.+++|++..+++...+.+..- -+......++-.+++.-+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i-------~~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGI-------GSEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhccc-------ccchhHHHHHHHHhcCCC
Confidence 34455554 89999998765 56677889999999999987777666655332 245556677777787755
Q ss_pred C---------eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCC-------CChhHHHHHHHHh
Q 002505 165 W---------RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTV 218 (914)
Q Consensus 165 w---------~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~i 218 (914)
| .-|.++..-..|.......++.... =.+++....|-+. ....++-+.|+++
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs~--i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFSN--IKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhhc--ceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 5 3466666666666556655555441 1233434444322 2345566666654
No 389
>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=55.52 E-value=1.1e+02 Score=31.87 Aligned_cols=121 Identities=21% Similarity=0.313 Sum_probs=71.8
Q ss_pred CCCCChHHhhh----CCC--CeEEE-eCch---hhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhh
Q 002505 685 SPIKDIQSLVA----SSD--PIGYQ-RGSF---AENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAY 754 (914)
Q Consensus 685 ~~i~s~~dL~~----~~~--~i~~~-~~s~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~ 754 (914)
.+++|++||++ +.. ++|.. .|+. ....+.+..+.. .+.++|....+.+.+|.. |.+|+.+.....
T Consensus 88 sp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allg----G~vd~~~~~~~~ 162 (274)
T PF03401_consen 88 SPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLG----GHVDAAFGSPGE 162 (274)
T ss_dssp SS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHT----TSSSEEEEEHHH
T ss_pred CccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhC----CeeeEEeecHHH
Confidence 57889999854 222 34543 2332 223344455554 467899999999999999 899998887654
Q ss_pred HHHHHhc-Cc---------------eEEEeccc-c----ccccceeeecCCCC--ChhhHHHHHHhhhccCchHHHHHH
Q 002505 755 MEVFLST-RC---------------EFSIIGQE-F----TRIGWGFAFPRDSP--LAVDMSIAILELSENGDLQRIHDK 810 (914)
Q Consensus 755 ~~~~~~~-~~---------------~l~~~~~~-~----~~~~~~~~~~k~sp--l~~~~~~~i~~l~e~G~~~~i~~~ 810 (914)
..-+++. .- +.-.+.+. + .....+++.|||-| .++.+..++.+..++-.+++..++
T Consensus 163 ~~~~~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 163 ALPYVEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HHHHHHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HHHHHhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 4433332 11 11111111 1 12235888999998 999999999999988777665554
No 390
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=55.34 E-value=2.5e+02 Score=29.49 Aligned_cols=62 Identities=15% Similarity=0.097 Sum_probs=35.5
Q ss_pred HHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEec
Q 002505 500 IDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (914)
Q Consensus 500 ~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~ 576 (914)
.+++..+.+..+ ++.++... . ..+..+.+|++|+++... +.....+. +.|+....+++++++
T Consensus 110 ~~~l~~f~~~~p-~i~i~l~~-------~---~~~~~l~~g~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~~~~~ 171 (297)
T PRK11139 110 VPRLSSFNEAHP-DIDVRLKA-------V---DRLEDFLRDDVDVAIRYG---RGNWPGLR-VEKLLDEYLLPVCSP 171 (297)
T ss_pred HHHHHHHHHHCC-CceEEEEe-------C---CChhhhccCCCCEEEEeC---CCCCCCce-EEEeccceeEEEeCH
Confidence 445666666554 34455542 1 124678899999997532 22222333 457777777766654
No 391
>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=54.82 E-value=43 Score=34.73 Aligned_cols=79 Identities=6% Similarity=-0.084 Sum_probs=54.0
Q ss_pred EEEEEEEe---CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHH
Q 002505 167 NVIALYVD---DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (914)
Q Consensus 167 ~v~ii~~d---~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a 242 (914)
+|+++..+ +.|.....+.+.+++++.|..+.....-. .+.......++++...+.|.||+.... ......++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPET--FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 35666643 46777888999999999998876542211 134556677788878899999887543 3345677888
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
++.|.
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 392
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=54.81 E-value=1.1e+02 Score=31.77 Aligned_cols=88 Identities=9% Similarity=0.132 Sum_probs=53.0
Q ss_pred ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHHHHHHhhccCCc
Q 002505 44 TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAHLVSHIANEFQV 122 (914)
Q Consensus 44 ~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~~v~~~~~~~~i 122 (914)
..|+.-..++.-.+.++| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-..+...|...++
T Consensus 80 ~vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~i 147 (268)
T PRK15116 80 NVGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKI 147 (268)
T ss_pred hcChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCC
Confidence 345444556666677776 45555543 3322322 2345555578888877666 455568889999999
Q ss_pred cEEeeccCCCCCccCCCCceEeccC
Q 002505 123 PLLSFAATDPSLSSLQYPFFVRTTQ 147 (914)
Q Consensus 123 p~is~~a~~~~l~~~~~~~~~r~~p 147 (914)
|+|+.++....+ -|.-+++.-
T Consensus 148 p~I~~gGag~k~----dp~~~~~~d 168 (268)
T PRK15116 148 PLVTTGGAGGQI----DPTQIQVVD 168 (268)
T ss_pred CEEEECCcccCC----CCCeEEEEe
Confidence 999876655433 255555543
No 393
>PRK10537 voltage-gated potassium channel; Provisional
Probab=54.50 E-value=11 Score=41.49 Aligned_cols=54 Identities=19% Similarity=0.282 Sum_probs=40.8
Q ss_pred CCCCchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHhhhhccccceeee
Q 002505 623 PPRRQIGTILWFSFSTLFFSH--KERTVNSLSRLVLIIWLFVVLILTSSYTASLTS 676 (914)
Q Consensus 623 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s 676 (914)
+...++.+++|+++.++..-| ...|.+..+|++.++++++++.+..+..+.++.
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~ 219 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFG 219 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344679999999999887654 447888899999999999888766554444444
No 394
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=54.30 E-value=1.8e+02 Score=26.81 Aligned_cols=91 Identities=12% Similarity=-0.004 Sum_probs=55.7
Q ss_pred HHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccC--CCCChhHH---HHHHHHhccCCCeEEEEEe
Q 002505 156 IADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLS--PKGSRNQI---IDTLLTVSSMMSRILILHT 230 (914)
Q Consensus 156 ~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~--~~~~~~d~---~~~l~~i~~~~~~viil~~ 230 (914)
+.+.+...+-....-+|.+.... .....+.++++..|.++....... ......|. ...+..+.....+.|++.+
T Consensus 29 l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvS 107 (149)
T cd06167 29 LLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVS 107 (149)
T ss_pred HHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEE
Confidence 33444433323333444333221 456788899999999887665321 11223333 3334444445789999999
Q ss_pred ChhHHHHHHHHHHhcCC
Q 002505 231 YDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 231 ~~~~~~~il~~a~~~g~ 247 (914)
...+....++++++.|.
T Consensus 108 gD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 108 GDSDFVPLVERLRELGK 124 (149)
T ss_pred CCccHHHHHHHHHHcCC
Confidence 99999999999999874
No 395
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=53.47 E-value=1.3e+02 Score=28.51 Aligned_cols=33 Identities=21% Similarity=0.458 Sum_probs=27.8
Q ss_pred CcEEEEcCCCc--hHHHHHHHhhccCCccEEeecc
Q 002505 97 ETVAIIGPQFS--VIAHLVSHIANEFQVPLLSFAA 129 (914)
Q Consensus 97 ~v~aiiGp~~s--~~~~~v~~~~~~~~ip~is~~a 129 (914)
++..++|+... .....+..+++..++|+++...
T Consensus 29 RPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 29 RPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred CcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 89999998664 7788899999999999997543
No 396
>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=52.76 E-value=49 Score=34.06 Aligned_cols=77 Identities=12% Similarity=-0.043 Sum_probs=51.8
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++.. .+.|.......+++++++.|.++... ....+.......++.+.+.++|.|++..........++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 455554 35677777888889999999877543 1112344456777888888899998876443334477778776
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 65
No 397
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=52.67 E-value=1.1e+02 Score=36.57 Aligned_cols=66 Identities=11% Similarity=0.078 Sum_probs=45.6
Q ss_pred cCCeEEEEEEEeCC---------Ccc---chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEe
Q 002505 163 FGWRNVIALYVDDD---------HGR---NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (914)
Q Consensus 163 ~~w~~v~ii~~d~~---------~g~---~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~ 230 (914)
|..-+|++|..-++ -|+ .....+...+++.|.++......+ .+...+...+.+... ++|+||..+
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~--Dd~~~i~~~l~~~~~-~~D~iIttG 260 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVP--DDEEELEAALRKALK-ECDLVLLSG 260 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeC--CCHHHHHHHHHHHHh-cCCEEEECC
Confidence 44567788765433 122 235578888999999988776776 566677777777654 789999885
Q ss_pred C
Q 002505 231 Y 231 (914)
Q Consensus 231 ~ 231 (914)
.
T Consensus 261 G 261 (633)
T PRK14498 261 G 261 (633)
T ss_pred C
Confidence 4
No 398
>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=52.33 E-value=47 Score=34.45 Aligned_cols=80 Identities=11% Similarity=0.000 Sum_probs=53.3
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHh
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKH 244 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~ 244 (914)
+|+++..+ +.|.......+++++++.|..+.....-. ..+.......++.+...++|.||+.....+....++++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 35666653 56777778899999999998877642211 0123445567788878899999987644433225677777
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 665
No 399
>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=51.79 E-value=74 Score=35.39 Aligned_cols=79 Identities=10% Similarity=-0.016 Sum_probs=56.8
Q ss_pred cCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh--hHHHHHHH
Q 002505 163 FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD--IWGLEVLN 240 (914)
Q Consensus 163 ~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~--~~~~~il~ 240 (914)
.+.+++.+|+..........+.+.+.|++.|+++.....+.+.++.+.....+..++..++|+||-.+.+ -|+.+++.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~iA 98 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIMW 98 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 3568888887443333446788999999999877654455555677788888899998999999977543 56666665
Q ss_pred H
Q 002505 241 A 241 (914)
Q Consensus 241 ~ 241 (914)
.
T Consensus 99 ~ 99 (398)
T cd08178 99 L 99 (398)
T ss_pred H
Confidence 3
No 400
>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=51.43 E-value=64 Score=33.87 Aligned_cols=77 Identities=8% Similarity=0.007 Sum_probs=54.9
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-hhHHHHHHHHHHh
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~ 244 (914)
|+++..+ +.|.......+.+++++.|..+...... .+.......++.+.+.++|.||+... .......++++.+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN---GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 5666653 5677777889999999999887764332 23455667778888889999998754 3445678888887
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 665
No 401
>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=51.38 E-value=1.3e+02 Score=30.43 Aligned_cols=117 Identities=15% Similarity=0.152 Sum_probs=65.4
Q ss_pred CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH-HHHHHHhhccCC
Q 002505 43 STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI-AHLVSHIANEFQ 121 (914)
Q Consensus 43 ~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~-~~~v~~~~~~~~ 121 (914)
+..|+.-..++.-.+.++| |..+++.+. ..-++. ...+++..+.+.||....+.. -..+...|...+
T Consensus 60 ~diG~~Kae~~~~~l~~in------P~~~V~~~~--~~i~~~----~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ 127 (231)
T cd00755 60 STVGKPKVEVMAERIRDIN------PECEVDAVE--EFLTPD----NSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRK 127 (231)
T ss_pred hhCCCcHHHHHHHHHHHHC------CCcEEEEee--eecCHh----HHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhC
Confidence 4456656677777778887 445555443 222222 234555556888887655544 445778999999
Q ss_pred ccEEeeccCCCCCccCCCCceEeccCCcHHH----HHHHHHHHHHcCCe-EEEEEEEeC
Q 002505 122 VPLLSFAATDPSLSSLQYPFFVRTTQSDLYQ----MAAIADIVDYFGWR-NVIALYVDD 175 (914)
Q Consensus 122 ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~----~~a~~~~l~~~~w~-~v~ii~~d~ 175 (914)
+|+|+..+....+ .|.-+++..-.... ++.+-+-+++.+.. .+-++|++.
T Consensus 128 ip~I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 128 IPVISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred CCEEEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 9999865544323 24445554332222 23333334444443 466666543
No 402
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=51.24 E-value=55 Score=35.67 Aligned_cols=84 Identities=14% Similarity=0.110 Sum_probs=55.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.++++.+| +++.+++....+- ...+.+.+.+++.|+.+.... +....+.......++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 44566788888 7887777444332 456788888888887654332 3333455677788888888899998877554
Q ss_pred -hHHHHHHH
Q 002505 233 -IWGLEVLN 240 (914)
Q Consensus 233 -~~~~~il~ 240 (914)
-|..+++.
T Consensus 89 ~~D~aK~ia 97 (349)
T cd08550 89 TLDTAKAVA 97 (349)
T ss_pred HHHHHHHHH
Confidence 45555553
No 403
>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=50.82 E-value=56 Score=33.51 Aligned_cols=78 Identities=9% Similarity=-0.060 Sum_probs=52.6
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHH
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~ 243 (914)
+|++|..+ +.|.....+.+++++++.|..+.....- .+.......++++...+.|.||+.... ......++.++
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ---NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46777754 5677788899999999999887654222 233445567777777789999887543 33344667776
Q ss_pred hcCC
Q 002505 244 HLRM 247 (914)
Q Consensus 244 ~~g~ 247 (914)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 6554
No 404
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=50.68 E-value=40 Score=35.18 Aligned_cols=66 Identities=14% Similarity=0.160 Sum_probs=35.0
Q ss_pred ccccccCCCCCCCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcC
Q 002505 18 SAGISMNGVSTIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENE 97 (914)
Q Consensus 18 ~~~~~~~~~~~~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~ 97 (914)
++||++. ....++|+||..--... . -..++.+.+-+.. |++++++..++...+..| |.+..
T Consensus 20 l~gC~~~--~~~~~~I~IG~~~~~~~------~-~~~~~~~~l~~~~----G~~Vel~~f~~~~~~~~A------La~Gd 80 (271)
T PRK11063 20 LVGCGQD--EKDPNHIKVGVIVGAEQ------Q-VAEVAQKVAKEKY----GLDVELVTFNDYVLPNEA------LSKGD 80 (271)
T ss_pred HHhcccc--cCCCCcEEEEeCCCChH------H-HHHHHHHHHHHhc----CCeEEEEEecCcHHHHHH------HHcCC
Confidence 4567422 22334699999731111 1 1333334443332 689999998865444433 33446
Q ss_pred cEEEE
Q 002505 98 TVAII 102 (914)
Q Consensus 98 v~aii 102 (914)
+++..
T Consensus 81 ID~~~ 85 (271)
T PRK11063 81 IDANA 85 (271)
T ss_pred cceec
Confidence 77744
No 405
>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=49.68 E-value=79 Score=34.44 Aligned_cols=85 Identities=8% Similarity=0.061 Sum_probs=55.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCC--CChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK--GSRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
..+.++++.++.+++.+|+....+.. ..+.+.+.+++.|+.+.......+. .+.......++.+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 34567788888889888874333322 2577888898888866433333322 456677777777776 8999887755
Q ss_pred h--hHHHHHHH
Q 002505 232 D--IWGLEVLN 240 (914)
Q Consensus 232 ~--~~~~~il~ 240 (914)
+ -|+.+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 45555554
No 406
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=49.57 E-value=4e+02 Score=30.80 Aligned_cols=62 Identities=8% Similarity=-0.049 Sum_probs=45.0
Q ss_pred CCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEE-cCCC-chHHHHHHHhhccCCccEEeeccCCC
Q 002505 68 GGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAII-GPQF-SVIAHLVSHIANEFQVPLLSFAATDP 132 (914)
Q Consensus 68 ~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aii-Gp~~-s~~~~~v~~~~~~~~ip~is~~a~~~ 132 (914)
.|..++.++-|+. +++..|..++.++-.++|+++| .+.| ......+ ....++|++-++-.++
T Consensus 47 ~g~~ve~viad~~I~~~~eA~~~aekFk~e~Vd~~I~vt~cw~fG~Et~---d~~~~~PvllWg~~dp 111 (588)
T PRK10991 47 CGEPVECVIADTCIGGVAEAAACEEKFSSENVGLTITVTPCWCYGSETI---DMDPTRPKAIWGFNGT 111 (588)
T ss_pred CCCeEEEEeCccccCCHHHHHHHHHHHhhcCCCEEEEecCcccchhHHH---hcCCCCCEEEeCCCCC
Confidence 3788899999887 4888888888999888999888 5555 3333333 2237889988776664
No 407
>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=49.47 E-value=56 Score=33.13 Aligned_cols=78 Identities=12% Similarity=0.020 Sum_probs=53.5
Q ss_pred EEEEEEEe---CCCccchHHHHHHHHhh--cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHH
Q 002505 167 NVIALYVD---DDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (914)
Q Consensus 167 ~v~ii~~d---~~~g~~~~~~~~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~ 241 (914)
+|++|..+ +.++....+.+++++++ .++++.....- ....+....+.++...++++|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADSQ---SDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecCC---CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 35666653 46777778888899988 67766654322 233567777778877789999988666555557777
Q ss_pred HHhcCC
Q 002505 242 AKHLRM 247 (914)
Q Consensus 242 a~~~g~ 247 (914)
+.+.+.
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777664
No 408
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=49.19 E-value=80 Score=32.31 Aligned_cols=46 Identities=15% Similarity=0.258 Sum_probs=32.3
Q ss_pred CeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 002505 31 PVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGM 87 (914)
Q Consensus 31 ~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~ 87 (914)
.+|+||+.-- +.+...+..++-+.++ .|.+++++..++-.-|..|+
T Consensus 29 ~~I~vg~~~~---p~a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL 74 (268)
T COG1464 29 KTIKVGATPG---PHAEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEAL 74 (268)
T ss_pred CcEEEeecCC---chHHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHH
Confidence 6899998632 2234445466666654 38999999999888888776
No 409
>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=49.02 E-value=1.3e+02 Score=29.67 Aligned_cols=87 Identities=10% Similarity=-0.075 Sum_probs=57.5
Q ss_pred eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC----hhHHHHHHHH
Q 002505 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (914)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~----~~~~~~il~~ 241 (914)
.+|.+....++.-.-+..-+...++..|.+|.+--.- ......+..+++.++|+|.+.+. ......++++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~~------vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~ 158 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGRD------VPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDK 158 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECCCC------CCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHH
Confidence 4565555556665666677778888889888754221 22355666666778999888754 3577888888
Q ss_pred HHhcCCCCCCeEEEEeC
Q 002505 242 AKHLRMMESGYVWIVTD 258 (914)
Q Consensus 242 a~~~g~~~~~~~~i~~~ 258 (914)
+++.|....-.+|++..
T Consensus 159 l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 159 LKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHcCCCCCCEEEEECh
Confidence 88887654445555543
No 410
>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=48.97 E-value=63 Score=33.20 Aligned_cols=77 Identities=13% Similarity=-0.006 Sum_probs=51.8
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++.. ++.|.......+.+++++.|..+.....- .+.......++++.+.+.|.||+.........+++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATTD---YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeCC---CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 455554 35566777889999999999887764321 2345556677777778899999864333333477778777
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 65
No 411
>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=48.88 E-value=3.2e+02 Score=28.11 Aligned_cols=116 Identities=11% Similarity=0.018 Sum_probs=62.0
Q ss_pred eEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 002505 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (914)
Q Consensus 32 ~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 111 (914)
.=+||++.+...........|++-++++.|..- + ..+..........+...+..++.++++.++.||+.. +...+.
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~ 196 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGV-P--DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGN 196 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhccC-C--CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCch
Confidence 346777754322222222368888887764210 1 122222222222234566677788887678888864 555555
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHH
Q 002505 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQM 153 (914)
Q Consensus 112 ~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~ 153 (914)
.+...+.+.++.++++.... +.....|.+..+...-..++
T Consensus 197 gv~~al~~~gisIvGfD~~~--~~~~~~p~lttv~~~~~~~~ 236 (265)
T cd06354 197 GVFQAAKEAGVYAIGVDSDQ--YYLAPGVVLTSMVKRVDVAV 236 (265)
T ss_pred HHHHHHHhcCCeEEEecCcc--cccCCCcEEEEEeehhHHHH
Confidence 66667777778778776532 22233455555543333333
No 412
>TIGR03298 argP transcriptional regulator, ArgP family. ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (PubMed:10589831). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity (PubMed: 15150242).
Probab=48.55 E-value=3.4e+02 Score=28.34 Aligned_cols=64 Identities=19% Similarity=0.045 Sum_probs=40.6
Q ss_pred HHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 501 DVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 501 dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
.++..+.++.+ +++.... ++-..+++.|.+|++|+++..... ....+. +.++.+..+++++++.
T Consensus 107 ~~l~~~~~~~~--i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQEG--VLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCCC--ceEEEEe-------CcchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 45666666543 5555543 445678999999999999854222 122333 4677778888877654
No 413
>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=48.51 E-value=78 Score=32.44 Aligned_cols=19 Identities=11% Similarity=-0.113 Sum_probs=14.5
Q ss_pred HHHHHHHhccCCCeEEEEE
Q 002505 211 IIDTLLTVSSMMSRILILH 229 (914)
Q Consensus 211 ~~~~l~~i~~~~~~viil~ 229 (914)
....+..+...+.|+.+..
T Consensus 183 ~~~~~~al~~G~~Da~~~~ 201 (254)
T TIGR01098 183 HDASALAVANGKVDAATNN 201 (254)
T ss_pred hHHHHHHHHcCCCCeEEec
Confidence 4567778888889988764
No 414
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=48.37 E-value=83 Score=32.42 Aligned_cols=75 Identities=12% Similarity=-0.031 Sum_probs=49.1
Q ss_pred EEEEEEe-----CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHH
Q 002505 168 VIALYVD-----DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (914)
Q Consensus 168 v~ii~~d-----~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a 242 (914)
|+++..+ +.|.......+++++++.|..+..... . .........+..+...++|.||+...... ..++.+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-S--DEDEEEFELPSFLEDGKVDGIILLGGIST--EYIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-C--CChHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHH
Confidence 5656555 667778888999999999988765432 2 22233445556666778999998764433 236667
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 66664
No 415
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=48.05 E-value=14 Score=45.66 Aligned_cols=53 Identities=17% Similarity=0.319 Sum_probs=45.7
Q ss_pred hhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHhhhhccccceeeeeeec
Q 002505 628 IGTILWFSFSTLFFSH--KERTVNSLSRLVLIIWLFVVLILTSSYTASLTSILTV 680 (914)
Q Consensus 628 ~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 680 (914)
...++|+++.++..-| .-.|.+...|++.++|+++++++.++..+++++++..
T Consensus 251 Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 251 YISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568999999998765 4478999999999999999999999999999887754
No 416
>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=47.93 E-value=67 Score=33.06 Aligned_cols=77 Identities=10% Similarity=0.059 Sum_probs=52.3
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHHh
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~~ 244 (914)
|+++..+ +.|.....+.+.+++++.|..+..... ..+.......++.+...++|.||+.... ......++++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA---NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4555544 567777789999999999988765321 1234456677777777899999986543 334566788877
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 664
No 417
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=47.74 E-value=15 Score=40.56 Aligned_cols=60 Identities=15% Similarity=0.255 Sum_probs=45.6
Q ss_pred HHHHhhhheecccCCCCCCCCCCchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHhhhh
Q 002505 604 VVGVVVWILEHRLNDDFRGPPRRQIGTILWFSFSTLFFSH--KERTVNSLSRLVLIIWLFVVLILT 667 (914)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~ 667 (914)
+.+.+++.+|+-.+ .....++..++|++..+|..-| .-.|....+|++....+++++++.
T Consensus 358 iFStlvY~~Ek~~~----~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvl 419 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEP----DTKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVL 419 (477)
T ss_pred HHHHHHHHhhhcCC----CCCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHh
Confidence 33555667765543 2336678899999999998665 448999999999999999998775
No 418
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=47.72 E-value=1.8e+02 Score=31.25 Aligned_cols=124 Identities=10% Similarity=0.004 Sum_probs=68.4
Q ss_pred CCeEEEEEEecCC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhc----CcEEEEc
Q 002505 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNYSRFLGMVEALTLLEN----ETVAIIG 103 (914)
Q Consensus 30 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D-~~~~~~~a~~~a~~li~~----~v~aiiG 103 (914)
.+.++++++.... ......-..|++-|+++. | .++.....+ ...+...+.+.+.+++++ ++.+|+.
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~----g----~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~ 231 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDK----G----IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIA 231 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhc----C----CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEE
Confidence 3567777665432 223344567887777653 2 222222222 333556777788888764 4889996
Q ss_pred CCCchHHHHHHHhhccC---CccEEeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHH
Q 002505 104 PQFSVIAHLVSHIANEF---QVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDY 162 (914)
Q Consensus 104 p~~s~~~~~v~~~~~~~---~ip~is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~ 162 (914)
. +...+..+...+++. .+|++++......... ..-+.+..+..+...++...++++..
T Consensus 232 ~-~d~~A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 232 N-NDAMAMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred C-CchHHHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 4 444444555555555 4588877554322111 11133555666667777777776543
No 419
>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=47.69 E-value=50 Score=34.48 Aligned_cols=79 Identities=13% Similarity=0.034 Sum_probs=50.5
Q ss_pred EEEEEEe---CCCccchHHHHHHHHhhcccEEEEeeccCCC-CChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHH
Q 002505 168 VIALYVD---DDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAK 243 (914)
Q Consensus 168 v~ii~~d---~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 243 (914)
|++|..+ ++|.....+.+.+++++.|..+......... .+.......++.+...++|.||+..........++.+.
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~ 81 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVL 81 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHH
Confidence 6677754 4566777888999999999776654222111 12344556677788889999988754333345566666
Q ss_pred hcC
Q 002505 244 HLR 246 (914)
Q Consensus 244 ~~g 246 (914)
+.+
T Consensus 82 ~~~ 84 (280)
T cd06303 82 ASG 84 (280)
T ss_pred hCC
Confidence 654
No 420
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=47.66 E-value=2.7e+02 Score=30.91 Aligned_cols=139 Identities=13% Similarity=0.123 Sum_probs=74.5
Q ss_pred EEcCCCchHHHHHHHhhcc-CCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEe-CCCc
Q 002505 101 IIGPQFSVIAHLVSHIANE-FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-DDHG 178 (914)
Q Consensus 101 iiGp~~s~~~~~v~~~~~~-~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d-~~~g 178 (914)
|++|.+.....++..+... ..+=+|.|+. . -++|- ..........++.+...-+++.|+|.. +...
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~H-G---------~i~~~--~~~~~~~~Y~~~~~~~~~~kv~IvY~S~~GnT 261 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSH-G---------VIWRD--NPLQIVEKYLEWAANYQENQVTILYDTMWNST 261 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCC-c---------cEEeC--CHHHHHHHHHHHhhcCCcCcEEEEEECCchHH
Confidence 4667766666666555532 2344554433 1 12443 122233334445555556889999843 3334
Q ss_pred cchHHHHHHHHh--hcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh------hHHHHHHHHHHhcCCCCC
Q 002505 179 RNGIAALGDKLA--EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD------IWGLEVLNAAKHLRMMES 250 (914)
Q Consensus 179 ~~~~~~~~~~l~--~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~------~~~~~il~~a~~~g~~~~ 250 (914)
+..++.+.+.++ ..|++|.... +. ..+...++..+. ++|.|++.+.. +....++......++.++
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~~-~~----~~~~~~i~~~~~--~~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~~K 334 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLYN-SA----KSDKNDIITEVF--KSKAILVGSSTINRGILSSTAAILEEIKGLGFKNK 334 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEEE-CC----CCCHHHHHHHHH--hCCEEEEECCCcCccccHHHHHHHHHhhccCcCCC
Confidence 456788888887 5677765432 22 223444444544 47788877543 235666666666555444
Q ss_pred CeEEEEeC
Q 002505 251 GYVWIVTD 258 (914)
Q Consensus 251 ~~~~i~~~ 258 (914)
....+++-
T Consensus 335 ~~a~FGsy 342 (394)
T PRK11921 335 KAAAFGSY 342 (394)
T ss_pred EEEEEecC
Confidence 33444443
No 421
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=47.63 E-value=3.7e+02 Score=29.43 Aligned_cols=141 Identities=9% Similarity=-0.035 Sum_probs=0.0
Q ss_pred EEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEE-eCCCcc
Q 002505 101 IIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYV-DDDHGR 179 (914)
Q Consensus 101 iiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~-d~~~g~ 179 (914)
+++|.......++..+.. .++=+|.|+... ++|-.| .....+..++.+...-++|.++|. .+....
T Consensus 195 lm~p~~~~v~~~l~~~~~-l~i~~IaP~HG~----------i~~~~~--~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~ 261 (388)
T COG0426 195 LMAPNARLVLWALKKIKL-LKIEMIAPSHGP----------IWRGNP--KEIVEAYRDWAEGQPKGKVDLIYDSMYGNTE 261 (388)
T ss_pred hhcccHHHHHHHHhhhcc-cCccEEEcCCCc----------eeeCCH--HHHHHHHHHHHccCCcceEEEEEecccCCHH
Q ss_pred chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh------hHHHHHHHHHHhcCCCCCCeE
Q 002505 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD------IWGLEVLNAAKHLRMMESGYV 253 (914)
Q Consensus 180 ~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~------~~~~~il~~a~~~g~~~~~~~ 253 (914)
..++++.+.+.+.|+.|.....-. .+.+.+++.+. +++.+++.+.. +.+..++-.........+.-.
T Consensus 262 ~ma~aiaegl~~~gv~v~~~~~~~-----~~~~eI~~~i~--~a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~ 334 (388)
T COG0426 262 KMAQAIAEGLMKEGVDVEVINLED-----ADPSEIVEEIL--DAKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKLAG 334 (388)
T ss_pred HHHHHHHHHhhhcCCceEEEEccc-----CCHHHHHHHHh--hcceEEEecCcccCCCCchHHHHHHHHHhccCcCceEE
Q ss_pred EEEeCccc
Q 002505 254 WIVTDWLS 261 (914)
Q Consensus 254 ~i~~~~~~ 261 (914)
.+++-+|.
T Consensus 335 vfgS~GW~ 342 (388)
T COG0426 335 VFGSYGWS 342 (388)
T ss_pred EEeccCCC
No 422
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=47.26 E-value=19 Score=35.03 Aligned_cols=58 Identities=10% Similarity=0.109 Sum_probs=31.4
Q ss_pred chHHHHHHHcCCCCCCCCCCCCccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002505 803 DLQRIHDKWLTRSACSSQGAKQEADQLHLKSFWGLFVLCGVACLLALLIYLIQIVRQFA 861 (914)
Q Consensus 803 ~~~~i~~~~~~~~~c~~~~~~~~~~~L~~~~~~g~f~il~~g~~ls~~vf~~e~~~~~~ 861 (914)
+++.+.++-+..+.-.....+ .....+-+.+..++-+++..+++.++||+.-++++.+
T Consensus 7 li~~lv~rs~~tPl~~~Ia~d-~~~~~~~d~~~I~iaiVAG~~tVILVI~i~v~vR~CR 64 (221)
T PF08374_consen 7 LIEELVRRSLETPLDRNIAGD-PASSRSKDYVKIMIAIVAGIMTVILVIFIVVLVRYCR 64 (221)
T ss_pred HHHHHHHhhccCCCcCcccCC-CCccccccceeeeeeeecchhhhHHHHHHHHHHHHHh
Confidence 345555665553333322222 2334445566667766666666767777777664444
No 423
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=47.13 E-value=3.5e+02 Score=28.05 Aligned_cols=83 Identities=13% Similarity=0.105 Sum_probs=56.3
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeece
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 549 (914)
..++||+... . ...+..+++..+.+... .+++.... +....+++.|.+|++|+++...
T Consensus 89 ~~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 146 (275)
T PRK03601 89 NELSIGASAS--L------------WECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITTE 146 (275)
T ss_pred ceEEEeccHH--H------------HHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEcC
Confidence 4688888751 1 12556677888877765 34566554 5578899999999999998643
Q ss_pred EEecCcceeeeeccceeecceEEEEeccC
Q 002505 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (914)
Q Consensus 550 ~~~~~r~~~~dft~p~~~~~~~~lv~~~~ 578 (914)
... ...+ ...|+....+++++++..
T Consensus 147 ~~~---~~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 147 APK---MDEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCc---cCCc-cEEEecceeEEEEecCch
Confidence 222 1223 355778888888887654
No 424
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=47.09 E-value=3.4e+02 Score=28.62 Aligned_cols=78 Identities=15% Similarity=0.143 Sum_probs=42.2
Q ss_pred CcEEEEcCCCchHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcH-HHHHHHHHHHH-----HcCCeEEEE
Q 002505 97 ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDL-YQMAAIADIVD-----YFGWRNVIA 170 (914)
Q Consensus 97 ~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~-~~~~a~~~~l~-----~~~w~~v~i 170 (914)
.-+.|||+.-. ++.-.....+..|+++. |...++. ..+..++..++ .|+-.++++
T Consensus 77 d~VLIIGGp~A-Vs~~yE~~Lks~GitV~------------------RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvv 137 (337)
T COG2247 77 DLVLIIGGPIA-VSPNYENALKSLGITVK------------------RIGGANRYETAEKVAKFFREDYPNAFKNVKVVV 137 (337)
T ss_pred ceEEEECCCCc-CChhHHHHHHhCCcEEE------------------EecCcchHHHHHHHHHHHHhhchhhhcCeEEEE
Confidence 55666664332 22333444455666555 3333333 34555666665 344457777
Q ss_pred EEEeCCCccchHHHHHHHHhhcccEEEEe
Q 002505 171 LYVDDDHGRNGIAALGDKLAEKRCRLSHK 199 (914)
Q Consensus 171 i~~d~~~g~~~~~~~~~~l~~~g~~v~~~ 199 (914)
+|. .+...++++.+++ |++.++-
T Consensus 138 v~G-----wDy~~~~~e~~k~-~~~p~~~ 160 (337)
T COG2247 138 VYG-----WDYADALMELMKE-GIVPVIL 160 (337)
T ss_pred Eec-----cccHHHHHHHHhc-CcceeEe
Confidence 763 2233377788877 8775543
No 425
>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=47.07 E-value=63 Score=33.65 Aligned_cols=77 Identities=13% Similarity=-0.002 Sum_probs=52.2
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHHh
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~~ 244 (914)
|+++.. .+.|.......+.+++++.|..+..... ..+.......+..+...++|.||+.... ......++.+.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~ 78 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKA 78 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHH
Confidence 555554 3566777788999999999988765322 1234445567888888899999987543 333466777777
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|.
T Consensus 79 ~~i 81 (282)
T cd06318 79 AGV 81 (282)
T ss_pred CCC
Confidence 664
No 426
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=46.74 E-value=2.6e+02 Score=26.41 Aligned_cols=85 Identities=14% Similarity=0.072 Sum_probs=61.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc---cCCCeEEEEE
Q 002505 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS---SMMSRILILH 229 (914)
Q Consensus 153 ~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~---~~~~~viil~ 229 (914)
...+.+.+..+|--.+.-+|.+. |. ...+.+.+...|++.... .+..|+.-.+..+. +.+.|.+++.
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a-~a---~~~l~~~l~~~Gf~pv~~------kG~~Dv~laIDame~~~~~~iD~~vLv 112 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQ-YA---SDKLIEAVVNQGFEPIIV------AGDVDVRMAVEAMELIYNPNIDAVALV 112 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEech-hc---cHHHHHHHHHCCceEEEe------cCcccHHHHHHHHHHhccCCCCEEEEE
Confidence 46677778888876677677653 22 235788999999886532 23566555555543 3678999999
Q ss_pred eChhHHHHHHHHHHhcCC
Q 002505 230 TYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 230 ~~~~~~~~il~~a~~~g~ 247 (914)
+...+-..++..+++.|.
T Consensus 113 SgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 113 TRDADFLPVINKAKENGK 130 (160)
T ss_pred eccHhHHHHHHHHHHCCC
Confidence 999999999999999875
No 427
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=46.68 E-value=2e+02 Score=29.74 Aligned_cols=26 Identities=23% Similarity=0.179 Sum_probs=14.1
Q ss_pred ChHHHHHHHHHHHhcCcEEE-EcCCCc
Q 002505 82 SRFLGMVEALTLLENETVAI-IGPQFS 107 (914)
Q Consensus 82 ~~~~a~~~a~~li~~~v~ai-iGp~~s 107 (914)
++..++..+.+++++|++.| ||..++
T Consensus 22 ~~~~~~~~a~~~~~~GAdiIDvG~~st 48 (258)
T cd00423 22 SLDKALEHARRMVEEGADIIDIGGEST 48 (258)
T ss_pred CHHHHHHHHHHHHHCCCCEEEECCCcC
Confidence 45555666666666555544 454333
No 428
>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=46.51 E-value=82 Score=32.35 Aligned_cols=76 Identities=9% Similarity=-0.110 Sum_probs=52.7
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++.. +++|-....+.+.+++++.|..+...... .+.....+.++.+...+.|.||+....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNSD---ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566664 45677778889999999999887755321 234455677888888899999987544333 347788776
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 64
No 429
>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=46.13 E-value=67 Score=33.24 Aligned_cols=80 Identities=14% Similarity=0.069 Sum_probs=52.4
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhH-HHHHHHHHH
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW-GLEVLNAAK 243 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~-~~~il~~a~ 243 (914)
||++|..+ +.|.......+++++++.|..+.....-. ..+.......+.++...+.|.||+...... ....++.+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~ 79 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAK 79 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHH
Confidence 46666654 55667778889999999998877543211 123345566677777778999998644333 345777777
Q ss_pred hcCC
Q 002505 244 HLRM 247 (914)
Q Consensus 244 ~~g~ 247 (914)
..|.
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6554
No 430
>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=46.06 E-value=75 Score=32.71 Aligned_cols=78 Identities=14% Similarity=-0.061 Sum_probs=50.7
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++.. ++.|.....+.+++++++.|..+....... .........++.+...+.|.||+..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 455654 366888888999999999998876543321 1222455566667777899988864332234566677665
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 54
No 431
>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=45.54 E-value=1.6e+02 Score=29.48 Aligned_cols=74 Identities=9% Similarity=0.061 Sum_probs=53.6
Q ss_pred eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh--hHHHHHHHHHH
Q 002505 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD--IWGLEVLNAAK 243 (914)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~--~~~~~il~~a~ 243 (914)
.++++|....+ ..+...+.++..+..+.+...-|...+..++...-.++++.++|+|++.|-+ ..-+.+++++.
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRAL 201 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHHh
Confidence 79999997654 3455556666666666665555543577889999999999999999999754 56666666654
No 432
>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=45.11 E-value=79 Score=33.39 Aligned_cols=78 Identities=8% Similarity=-0.104 Sum_probs=52.8
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHHh
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~~ 244 (914)
|+++.. .+.|.......+++++++.|..+....... .+.......++.+...++|.||+.... ......++++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 555553 456777788899999999998876431111 244556677777777889999987543 334677788877
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 665
No 433
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=45.07 E-value=88 Score=34.50 Aligned_cols=79 Identities=8% Similarity=-0.022 Sum_probs=55.6
Q ss_pred cCCeEEEEEEEeCCCc-cchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh--hHHHHHH
Q 002505 163 FGWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD--IWGLEVL 239 (914)
Q Consensus 163 ~~w~~v~ii~~d~~~g-~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~--~~~~~il 239 (914)
++.+++.+|+....+- ....+.+.+.+++.|+++.....+.+.++.+.....++.+++.++|.||-.+.+ -|+.+.+
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~i 100 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKAM 100 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHH
Confidence 3457888887544333 345678889998889877654444445677888898999999999999988654 4666555
Q ss_pred HH
Q 002505 240 NA 241 (914)
Q Consensus 240 ~~ 241 (914)
..
T Consensus 101 a~ 102 (375)
T cd08179 101 WI 102 (375)
T ss_pred HH
Confidence 44
No 434
>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=45.05 E-value=2.1e+02 Score=28.08 Aligned_cols=65 Identities=9% Similarity=-0.012 Sum_probs=42.3
Q ss_pred CeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 165 WRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 165 w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
-++|+++..|. |-....+.++...+..|+.+....... .........+++.+..+.|+|++...+
T Consensus 29 ~~~v~lis~D~-~R~ga~eQL~~~a~~l~vp~~~~~~~~--~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISADT-YRIGAVEQLKTYAEILGVPFYVARTES--DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEEST-SSTHHHHHHHHHHHHHTEEEEESSTTS--CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCCC-CCccHHHHHHHHHHHhccccchhhcch--hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 68899998654 556678888888888887765422211 112334566777777889999998764
No 435
>cd08481 PBP2_GcdR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold. GcdR is involved in the glutaconate/glutarate-specific activation of the Pg promoter driving expression of a glutaryl-CoA dehydrogenase-encoding gene (gcdH). The GcdH protein is essential for the anaerobic catabolism of many aromatic compounds and some alicyclic and dicarboxylic acids. The structural topology of this substrate-binding domain is most similar 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 cytoplas
Probab=45.00 E-value=2.2e+02 Score=26.87 Aligned_cols=64 Identities=17% Similarity=0.098 Sum_probs=35.8
Q ss_pred eHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEeeceEEecCcceeeeeccceeecceEEEEecc
Q 002505 499 CIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (914)
Q Consensus 499 ~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~~~~r~~~~dft~p~~~~~~~~lv~~~ 577 (914)
-.+++..+.++.+ .++++.... .. ...+.+|++|+++... +.....+. +.++.+..+++++++.
T Consensus 15 l~~~l~~f~~~~P-~i~i~i~~~-------~~---~~~l~~~~~Dl~l~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 78 (194)
T cd08481 15 LIPRLPDFLARHP-DITVNLVTR-------DE---PFDFSQGSFDAAIHFG---DPVWPGAE-SEYLMDEEVVPVCSPA 78 (194)
T ss_pred HHhhhhHHHHHCC-CceEEEEec-------cc---ccCcccCCCCEEEEcC---CCCCCCcc-ceecccCeeeecCCHH
Confidence 3456677777764 344554431 11 1258899999998532 11222232 4566667777776543
No 436
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=44.15 E-value=38 Score=37.89 Aligned_cols=89 Identities=13% Similarity=0.201 Sum_probs=69.0
Q ss_pred hhHHHHHHHHHHHHHHhhhheecccCCCCCCCCCCchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHhhhhcc
Q 002505 592 PKMWCVTGIFFLVVGVVVWILEHRLNDDFRGPPRRQIGTILWFSFSTLFFSH--KERTVNSLSRLVLIIWLFVVLILTSS 669 (914)
Q Consensus 592 ~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~ 669 (914)
...|..-++.+++.++++++.|.....+-......+.-.++|+...++...| ...|....+|++..++.++++-+-+.
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 3578888888999999999999875444333444568899999999988664 55899999999999998888877776
Q ss_pred ccceeeeeeec
Q 002505 670 YTASLTSILTV 680 (914)
Q Consensus 670 Yta~L~s~Lt~ 680 (914)
=.+-|-|=++.
T Consensus 314 PAGILGSGfAL 324 (654)
T KOG1419|consen 314 PAGILGSGFAL 324 (654)
T ss_pred ccccccchhhh
Confidence 66666665554
No 437
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=44.14 E-value=22 Score=25.72 Aligned_cols=26 Identities=23% Similarity=0.562 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHhhhheecccCC
Q 002505 593 KMWCVTGIFFLVVGVVVWILEHRLND 618 (914)
Q Consensus 593 ~vW~~il~~~~~~~~~~~~~~~~~~~ 618 (914)
++|.++..+.+++++++|.+..+..+
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~ 37 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKK 37 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcch
Confidence 68899999999999999999765544
No 438
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=43.61 E-value=1.1e+02 Score=33.09 Aligned_cols=80 Identities=9% Similarity=-0.073 Sum_probs=54.3
Q ss_pred CeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHH
Q 002505 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (914)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a 242 (914)
-+.++++..+ +.|.......+.+++++.|..+..... . .+.......++.+...+.|.||+..........++.+
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 140 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG-G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMA 140 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC-C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHH
Confidence 3578888754 567777788899999999977654321 1 2334556777888888899999875433334667777
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
++.|.
T Consensus 141 ~~~~i 145 (342)
T PRK10014 141 EEKGI 145 (342)
T ss_pred hhcCC
Confidence 76664
No 439
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=43.55 E-value=1.6e+02 Score=32.12 Aligned_cols=103 Identities=7% Similarity=-0.106 Sum_probs=63.2
Q ss_pred CceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEe--eccCCCCChhHHHHHHHH
Q 002505 140 PFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHK--VPLSPKGSRNQIIDTLLT 217 (914)
Q Consensus 140 ~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~--~~~~~~~~~~d~~~~l~~ 217 (914)
|+-+...... ...+.+.++.++.+++.+++.... .....+.+.+.+++.|+.+... ....+..+.......++.
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~ 84 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDA 84 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHH
Confidence 3444444432 234566677778899988885444 3356778888888888765521 122222455777777777
Q ss_pred hccCCC---eEEEEEeCh--hHHHHHHHHHHhcC
Q 002505 218 VSSMMS---RILILHTYD--IWGLEVLNAAKHLR 246 (914)
Q Consensus 218 i~~~~~---~viil~~~~--~~~~~il~~a~~~g 246 (914)
+++.+. |.||..+.+ .|+.+++......|
T Consensus 85 ~~~~~~~r~d~IIavGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 85 LLEAGLDRSDTLIALGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred HHHcCCCCCCEEEEEcCcHHHHHHHHHHHHhcCC
Confidence 776544 888877554 46666665444444
No 440
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=43.12 E-value=2.3e+02 Score=24.84 Aligned_cols=70 Identities=9% Similarity=-0.043 Sum_probs=41.4
Q ss_pred EEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEe-Ch---hHHHHHHHHHHhc
Q 002505 170 ALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YD---IWGLEVLNAAKHL 245 (914)
Q Consensus 170 ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~-~~---~~~~~il~~a~~~ 245 (914)
+.....++-.-+...+...+++.|.++....... +.....+.+++.++|+|.+.+ .. .....+.+.+++.
T Consensus 5 ~~~~~~~~~~lGl~~la~~l~~~G~~v~~~d~~~------~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~ 78 (121)
T PF02310_consen 5 LACVPGEVHPLGLLYLAAYLRKAGHEVDILDANV------PPEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKER 78 (121)
T ss_dssp EEEBTTSSTSHHHHHHHHHHHHTTBEEEEEESSB-------HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTT
T ss_pred EEeeCCcchhHHHHHHHHHHHHCCCeEEEECCCC------CHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhc
Confidence 3333344444567777888888888776542221 125555666667888888876 33 3455555555543
No 441
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=42.65 E-value=1.1e+02 Score=32.60 Aligned_cols=80 Identities=9% Similarity=-0.064 Sum_probs=51.8
Q ss_pred CeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHH
Q 002505 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (914)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a 242 (914)
-+.|+++..+ +.|.......+.+++++.|..+...... .........+..+...+.|.||+..........++++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 137 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD---DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRL 137 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHH
Confidence 4578887753 5566677888999999999887654321 2233344567777777899998864322223456666
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
.+.|.
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 66554
No 442
>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=42.39 E-value=1e+02 Score=33.37 Aligned_cols=85 Identities=8% Similarity=-0.033 Sum_probs=56.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 154 ~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
..+.+.++.++.+++.+++....+-. ..+.+.+.+++.+..+ + ..+.+..+.......++.++..++|.||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 88 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMHTPVEVTEAAVAAAREAGADGIVAIGGGS 88 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 45667788899999988875444433 5667777787664332 2 233333456778888888888899999977554
Q ss_pred -hHHHHHHHH
Q 002505 233 -IWGLEVLNA 241 (914)
Q Consensus 233 -~~~~~il~~ 241 (914)
-|..+++..
T Consensus 89 ~iD~aK~ia~ 98 (337)
T cd08177 89 TIDLAKAIAL 98 (337)
T ss_pred HHHHHHHHHH
Confidence 455555543
No 443
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=42.29 E-value=1.7e+02 Score=30.34 Aligned_cols=97 Identities=7% Similarity=-0.039 Sum_probs=68.4
Q ss_pred CceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc
Q 002505 140 PFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS 219 (914)
Q Consensus 140 ~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~ 219 (914)
+++++-+.+ +..++++.++.+.+|.+.+.+|...+ .++.+++.|+..|.+.+..+.-- .+.++... +..
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel---~~~~~~k~--~~~ 230 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEEL---RDRKMKKF--KGD 230 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHh---cchhhhhh--hcc
Confidence 577777655 55889999999999999999998655 48899999999998765543221 11222111 123
Q ss_pred cCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 220 SMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 220 ~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
..+++.-+-+..+..+..+.+.+.+-|.
T Consensus 231 ~~~prLalNcVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 231 NPRPRLALNCVGGKSATEIARYLERGGT 258 (354)
T ss_pred CCCceEEEeccCchhHHHHHHHHhcCce
Confidence 3567777777888889999988887553
No 444
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=42.26 E-value=61 Score=31.72 Aligned_cols=70 Identities=16% Similarity=0.110 Sum_probs=51.1
Q ss_pred HHHHhcCCCCCCCcEEEEE-EecCCCChHHHHHHHHHHHhc----CcEEEEcCCCchHHHHHHHhhccCCccEEee
Q 002505 57 VEDVNSNPAILGGTKLKLT-VHDTNYSRFLGMVEALTLLEN----ETVAIIGPQFSVIAHLVSHIANEFQVPLLSF 127 (914)
Q Consensus 57 ve~iN~~~~~l~g~~l~l~-~~D~~~~~~~a~~~a~~li~~----~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~ 127 (914)
.+.+|+.+.++||--+... +.|.+.||......+..+.+. ++++|+|+...+...+ ..++...++|++-.
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la-~~lA~~Lg~p~v~v 79 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPA-IMTGLKLGVPVVFA 79 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHH-HHHHHHHCCCEEEE
Confidence 5788999999998777776 447777887766666655543 7999999877776543 34566778998864
No 445
>PRK07377 hypothetical protein; Provisional
Probab=42.23 E-value=64 Score=30.70 Aligned_cols=61 Identities=20% Similarity=0.208 Sum_probs=43.8
Q ss_pred ceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcccEEEeeCCCCCCCCChHHHHHHHHhCcccEEee
Q 002505 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (914)
Q Consensus 470 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 547 (914)
..+|+|+... . ++ .+...+-.++.++.+.++++.+ .+++++ .+-..+.+++.+|++|++++
T Consensus 75 ~~~Rlgv~~~-----~---~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEI-----E---TE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEec-----c---cc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 4589998762 1 11 2223444677889999999966 555555 45889999999999998866
No 446
>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=41.85 E-value=44 Score=33.76 Aligned_cols=106 Identities=11% Similarity=0.033 Sum_probs=65.8
Q ss_pred cCCcHHHHHHHHHHHHH-cCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCe
Q 002505 146 TQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSR 224 (914)
Q Consensus 146 ~p~~~~~~~a~~~~l~~-~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 224 (914)
.|.....+..+++.+.. ..-+++.++..+. ....+.+.|++.|..|.....|.. ............+...+.+
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~ 170 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEID 170 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTS
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCC
Confidence 45545566788887764 4448888776443 356688999999998887776653 2233444555666556666
Q ss_pred EEEEEeChhHHHHHHHHHHhcCCCCCCeEEEEeC
Q 002505 225 ILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (914)
Q Consensus 225 viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (914)
+| ++.++..+..+++.+.+.+-...+..++..+
T Consensus 171 ~v-~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig 203 (231)
T PF02602_consen 171 AV-VFTSPSAVRAFLELLKKNGALLKRVPIVAIG 203 (231)
T ss_dssp EE-EESSHHHHHHHHHHSSGHHHHHTTSEEEESS
T ss_pred EE-EECCHHHHHHHHHHhHhhhhhhhCCEEEEEC
Confidence 64 4556777777887776542122344455443
No 447
>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=41.37 E-value=1.2e+02 Score=31.50 Aligned_cols=79 Identities=14% Similarity=0.034 Sum_probs=53.5
Q ss_pred eEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhH-HHHHHHHH
Q 002505 166 RNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW-GLEVLNAA 242 (914)
Q Consensus 166 ~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~-~~~il~~a 242 (914)
++|+++..+ +.|.......+.+++++.|..+..... ..+.+.....++.+...+.|.||+.....+ ....++.+
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~ 77 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELA 77 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence 457777754 556667788899999999987765422 124455667888888889999999754322 23556666
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
.+.+.
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66554
No 448
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=41.34 E-value=3.5e+02 Score=26.47 Aligned_cols=102 Identities=8% Similarity=0.004 Sum_probs=57.7
Q ss_pred HHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHH
Q 002505 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (914)
Q Consensus 109 ~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (914)
....+..+++..++|++..... ++.......+.+.++...-+.+-.+..-+.+.......+.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~~----------------~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~ 109 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEIS----------------GEEEDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERV 109 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeCC----------------CCchHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH
Confidence 3455667888889998753221 112223355555554432112222332333344456777778
Q ss_pred HhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh
Q 002505 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (914)
Q Consensus 189 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~ 232 (914)
+++.|++.... .-..+...+++++-+.+-+++|+....
T Consensus 110 ~~~~gl~~~~P------LW~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 110 CERLGLEPLAP------LWGRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHcCCEEEec------ccCCCHHHHHHHHHHcCCeEEEEEecc
Confidence 88888875542 223455678888888888888876543
No 449
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=41.18 E-value=1.3e+02 Score=32.41 Aligned_cols=85 Identities=8% Similarity=0.045 Sum_probs=54.8
Q ss_pred HHHHHHHHHcCC-eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEee-ccCCCCChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 154 AAIADIVDYFGW-RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV-PLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 154 ~a~~~~l~~~~w-~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~-~~~~~~~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
..+.++++.++. +++.+|+....+... .+.+.+.+++.|+++.... ...+.++.......+..+++ +.|+||..+.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~~-~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKVA-GKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHHH-HHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 345566777775 788888755543333 4778888988887554321 22222356777788888877 8899888755
Q ss_pred h--hHHHHHHH
Q 002505 232 D--IWGLEVLN 240 (914)
Q Consensus 232 ~--~~~~~il~ 240 (914)
+ .|+.+++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 4 56666664
No 450
>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=41.14 E-value=1.1e+02 Score=31.68 Aligned_cols=77 Identities=14% Similarity=0.094 Sum_probs=50.9
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++.. ++.|-....+.+.+.+++.|..+...... .+.......++.+...+.+.||+.........+++.+++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL---NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 556664 45677777888999999999887654221 2334456677777778899988875433334566666665
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
+.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 53
No 451
>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=41.10 E-value=1e+02 Score=32.71 Aligned_cols=78 Identities=14% Similarity=0.064 Sum_probs=52.3
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhh--cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEe-ChhHHHHHHHH
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLNA 241 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~-~~~~~~~il~~ 241 (914)
+|++|..+ +.|.......+.+++++ .|..+..... ..+.......++.+...++|.||+.. ........+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 35666643 45666677888899988 7777654322 12344556778888888999988864 33334678888
Q ss_pred HHhcCC
Q 002505 242 AKHLRM 247 (914)
Q Consensus 242 a~~~g~ 247 (914)
+.+.|.
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 887775
No 452
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=41.08 E-value=2.2e+02 Score=30.31 Aligned_cols=80 Identities=21% Similarity=0.197 Sum_probs=44.3
Q ss_pred CCCCChHHhhhCCCCeEEE-eCchhhhhh---hhhcCCCCCCccc--CCCHHHHHHHHhcCCCCCCeEEEEechhh---H
Q 002505 685 SPIKDIQSLVASSDPIGYQ-RGSFAENYL---TDELNIDKSRLVP--LNTAEEYEKALTDGPKNGGVSAVIDERAY---M 755 (914)
Q Consensus 685 ~~i~s~~dL~~~~~~i~~~-~~s~~~~~l---~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~g~~~a~i~~~~~---~ 755 (914)
..|+++.||. |++|.+- .||-.+-.. .+..++....+.. .-...+..+++++ |.+||.+.-... .
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~----g~iDA~~~~~G~p~~a 200 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKN----GTIDAAFYVAGVPNPA 200 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhC----CcccEEEEecCCCCcc
Confidence 5699999997 9998874 333222222 1334444322221 1123345777887 899988764321 2
Q ss_pred HHHHhcCceEEEecc
Q 002505 756 EVFLSTRCEFSIIGQ 770 (914)
Q Consensus 756 ~~~~~~~~~l~~~~~ 770 (914)
-..+...|++.+++-
T Consensus 201 i~el~~~~~i~lv~i 215 (321)
T COG2358 201 ISELATTCDIVLVPI 215 (321)
T ss_pred HHHHHhhCCeEEEeC
Confidence 233455677766643
No 453
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=41.04 E-value=69 Score=34.50 Aligned_cols=62 Identities=16% Similarity=0.146 Sum_probs=42.4
Q ss_pred cCCCceEEEEeccccCccccEEecCCCceeeeeeHHHHHHHHHHCCCcc-cEEEeeCCCCCCCCChHHHHHHHHhCcccE
Q 002505 466 PNNGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAV-PYKLVPFGDGHNSPKRFDLLRLVSEEVYDA 544 (914)
Q Consensus 466 ~~~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~~~~-~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di 544 (914)
|.+|++++++... |.. .-+.-.+++.+.+.+|+++ ++... +-.-+...|.+|++|+
T Consensus 25 ~~~~~~V~~~~~~---W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQST---IAE-----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeecC---ccH-----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeE
Confidence 4468899999874 421 1344567888888899765 44332 2467788999999999
Q ss_pred EeeceE
Q 002505 545 AVGDFA 550 (914)
Q Consensus 545 ~~~~~~ 550 (914)
....-.
T Consensus 82 ~~~~W~ 87 (331)
T PRK11119 82 TAVNWF 87 (331)
T ss_pred ehhhcc
Confidence 875433
No 454
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=40.83 E-value=1.1e+02 Score=31.12 Aligned_cols=88 Identities=8% Similarity=-0.079 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHc--CCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEE
Q 002505 151 YQMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILIL 228 (914)
Q Consensus 151 ~~~~a~~~~l~~~--~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil 228 (914)
..++.+++++... .-++|.++..+ .....+.+.|++.|..|.....|.......+.......+.+.+.|+|++
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~-----~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f 176 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGR-----PRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLL 176 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccC-----cccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEE
Confidence 4577788876542 45677777633 3456788899999988766555532211222234445555566777666
Q ss_pred EeChhHHHHHHHHHHh
Q 002505 229 HTYDIWGLEVLNAAKH 244 (914)
Q Consensus 229 ~~~~~~~~~il~~a~~ 244 (914)
+ ++..+..|++...+
T Consensus 177 ~-S~~~~~~f~~~~~~ 191 (240)
T PRK09189 177 Y-SRVAARRFFALMRL 191 (240)
T ss_pred e-CHHHHHHHHHHHhh
Confidence 5 45678888877654
No 455
>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=40.52 E-value=44 Score=29.57 Aligned_cols=86 Identities=15% Similarity=0.167 Sum_probs=45.3
Q ss_pred eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhc--cCCCeEEEEEeChhHHHHHHHHHH
Q 002505 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS--SMMSRILILHTYDIWGLEVLNAAK 243 (914)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~--~~~~~viil~~~~~~~~~il~~a~ 243 (914)
|+++++.....-+.-. ..+-+.+.+.|.+|.... +..+.-+-......+. ....|.++++..+.....+++++.
T Consensus 1 ksiAVvGaS~~~~~~g-~~v~~~l~~~G~~v~~Vn---p~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~ 76 (116)
T PF13380_consen 1 KSIAVVGASDNPGKFG-YRVLRNLKAAGYEVYPVN---PKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA 76 (116)
T ss_dssp -EEEEET--SSTTSHH-HHHHHHHHHTT-EEEEES---TTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH
T ss_pred CEEEEEcccCCCCChH-HHHHHHHHhCCCEEEEEC---CCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH
Confidence 4677777544433333 333344444776655431 1111111111222233 357999999999999999999999
Q ss_pred hcCCCCCCeEEEEeC
Q 002505 244 HLRMMESGYVWIVTD 258 (914)
Q Consensus 244 ~~g~~~~~~~~i~~~ 258 (914)
+.| .+.+|+.++
T Consensus 77 ~~g---~~~v~~~~g 88 (116)
T PF13380_consen 77 ALG---VKAVWLQPG 88 (116)
T ss_dssp HHT----SEEEE-TT
T ss_pred HcC---CCEEEEEcc
Confidence 987 468898876
No 456
>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=40.51 E-value=96 Score=32.01 Aligned_cols=77 Identities=12% Similarity=-0.040 Sum_probs=52.1
Q ss_pred EEEEEE---eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHH
Q 002505 168 VIALYV---DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (914)
Q Consensus 168 v~ii~~---d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~ 243 (914)
|++|.. ++.|.....+.+.+++++.|..+..... ..+.......++.+...++|.|++.... ......++.+.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 455553 3567778888999999999988775422 1244455566777777889999887543 33356677777
Q ss_pred hcCC
Q 002505 244 HLRM 247 (914)
Q Consensus 244 ~~g~ 247 (914)
+.|.
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7665
No 457
>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=40.22 E-value=3e+02 Score=28.40 Aligned_cols=118 Identities=14% Similarity=0.033 Sum_probs=64.4
Q ss_pred EEEEEecC-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCchHH
Q 002505 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETVAIIGPQFSVIA 110 (914)
Q Consensus 34 ~IG~i~~~-s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aiiGp~~s~~~ 110 (914)
+||++.+. ..........|++-|+++. |+ +..+.......+...+.+.+.+++.+ ++.||+. .+...+
T Consensus 120 ~I~~i~~~~~~~~~~~R~~gf~~a~~~~----g~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A 190 (269)
T cd06287 120 QIALIVGSARRNSYLEAEAAYRAFAAEH----GM----PPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCV-PVDAFA 190 (269)
T ss_pred cEEEEeCCcccccHHHHHHHHHHHHHHc----CC----CcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEE-cCcHHH
Confidence 56666432 2222344567777777652 22 11122222333445666777787765 5789996 455666
Q ss_pred HHHHHhhccCCc--cE-Eeecc-CCCCCccCCCCceEeccCCcHHHHHHHHHHH
Q 002505 111 HLVSHIANEFQV--PL-LSFAA-TDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (914)
Q Consensus 111 ~~v~~~~~~~~i--p~-is~~a-~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 160 (914)
..+...+.+.++ |- |+.-+ .+...+....|.+-.+..+....++..++++
T Consensus 191 ~gvl~al~~~gl~vP~dvsvig~~d~~~~~~~~p~ltti~~~~~~~g~~A~~~l 244 (269)
T cd06287 191 VGAVRAATELGRAVPDQLRVVTRYDGLRARTSEPPLTAVDLHLDEVAEQAVDLL 244 (269)
T ss_pred HHHHHHHHHcCCCCCCceEEEeccCchhhccCCCCcccccCCHHHHHHHHHHHH
Confidence 666666666654 42 33222 3322333334666666677777777777754
No 458
>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=40.16 E-value=84 Score=33.02 Aligned_cols=79 Identities=10% Similarity=0.083 Sum_probs=51.4
Q ss_pred EEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHH
Q 002505 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (914)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~ 243 (914)
+|++|..+ +.|.......+.+++++.|..+.... ....+.......+..+...++|.||+.... .....+++++.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~ 78 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVA 78 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHH
Confidence 35666643 34556677888899999998876321 111234445567777777889998886433 23467788888
Q ss_pred hcCC
Q 002505 244 HLRM 247 (914)
Q Consensus 244 ~~g~ 247 (914)
+.|.
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 8775
No 459
>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=40.12 E-value=74 Score=35.89 Aligned_cols=24 Identities=33% Similarity=0.401 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhcCCCCCCCcEEEEEEe
Q 002505 51 VAIEAAVEDVNSNPAILGGTKLKLTVH 77 (914)
Q Consensus 51 ~a~~~Ave~iN~~~~~l~g~~l~l~~~ 77 (914)
..++-.++++|+.. ||.+|++...
T Consensus 48 ~~~~~~~~~F~~~~---~~i~V~~~~~ 71 (437)
T TIGR03850 48 KMWEEVVEAFEKSH---EGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHC---CCceEEEEeC
Confidence 45666788898875 5778888754
No 460
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=39.97 E-value=1.8e+02 Score=27.42 Aligned_cols=81 Identities=7% Similarity=-0.036 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHh-hcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEE
Q 002505 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA-EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (914)
Q Consensus 151 ~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~-~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~ 229 (914)
..++.+..+.++++.+++.++- |..-...+...+...+. -.|+++... +..+....+.+ ...+.++++++
T Consensus 16 IHGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~vlvl~ 86 (158)
T PRK09756 16 VHGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF-------TIEKTINVIGK-AAPHQKIFLIC 86 (158)
T ss_pred hhHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE-------EHHHHHHHHHh-ccCCceEEEEE
Confidence 3577888899999999997764 44334445555555544 567776632 23455666666 55677899999
Q ss_pred eChhHHHHHHH
Q 002505 230 TYDIWGLEVLN 240 (914)
Q Consensus 230 ~~~~~~~~il~ 240 (914)
-.+.++..+++
T Consensus 87 ~~~~da~~l~~ 97 (158)
T PRK09756 87 RTPQTVRKLVE 97 (158)
T ss_pred CCHHHHHHHHH
Confidence 99999998876
No 461
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=39.77 E-value=1.2e+02 Score=32.59 Aligned_cols=81 Identities=9% Similarity=0.026 Sum_probs=57.9
Q ss_pred CCeEEEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHHHH
Q 002505 164 GWRNVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLN 240 (914)
Q Consensus 164 ~w~~v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~il~ 240 (914)
.-.+|+++.. ++.|.....+.+++++++.|..+..... ..+.......++.+...++|.||+..... .....++
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~ 100 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIK 100 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHH
Confidence 3467777774 4678888899999999999988776422 12445567788888888999999975432 2345677
Q ss_pred HHHhcCC
Q 002505 241 AAKHLRM 247 (914)
Q Consensus 241 ~a~~~g~ 247 (914)
.+.+.|.
T Consensus 101 ~~~~~~i 107 (330)
T PRK10355 101 EAKQEGI 107 (330)
T ss_pred HHHHCCC
Confidence 7777664
No 462
>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=39.63 E-value=2.2e+02 Score=28.99 Aligned_cols=69 Identities=13% Similarity=-0.051 Sum_probs=40.1
Q ss_pred CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhcCC
Q 002505 175 DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (914)
Q Consensus 175 ~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g~ 247 (914)
+.|.....+.+.+.+++.|..+....... .........+.+...+.|.||+....... ..++.+.+.+.
T Consensus 15 ~~~~~~~~~~i~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~~~~~~i 83 (268)
T cd06271 15 DPFFAEFLSGLSEALAEHGYDLVLLPVDP---DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVALLLERGF 83 (268)
T ss_pred CccHHHHHHHHHHHHHHCCceEEEecCCC---cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHHHHhcCC
Confidence 67777788899999999998876543221 22222333333345578988886533221 23455555554
No 463
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=39.25 E-value=4.9e+02 Score=27.54 Aligned_cols=171 Identities=15% Similarity=0.059 Sum_probs=79.0
Q ss_pred CCCeEEEEEEecCCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCcE-EEEcCCC
Q 002505 29 IPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALT-LLENETV-AIIGPQF 106 (914)
Q Consensus 29 ~~~~i~IG~i~~~s~~~g~~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~-li~~~v~-aiiGp~~ 106 (914)
.+.++++|++-..++..-......+.-.+++ +- |.++++.+--+ -.++.+ |...+++ |.+||.
T Consensus 33 ~~~~l~~gi~p~e~~~~~~~~~~pl~~~L~~---~l----G~~V~~~~a~d-------y~~vieal~~g~~D~A~~~~~- 97 (299)
T COG3221 33 DPKELRVGIVPTENPTNLIPAWAPLADYLEK---EL----GIPVEFFVATD-------YAAVIEALRAGQVDIAWLGPS- 97 (299)
T ss_pred CCcceEEEEcCCCChHHHHHHHHHHHHHHHH---Hh----CCceEEEeccc-------HHHHHHHHhCCCeeEEecCch-
Confidence 3568999999877654333333444333333 32 66777766533 123344 3344777 556655
Q ss_pred chHHHHHHHhhccCCccEEeeccCCCCCccCCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHH
Q 002505 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (914)
Q Consensus 107 s~~~~~v~~~~~~~~ip~is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (914)
....+... ....-|+......+.. ..|-.++-+........ ++.+.-+++++--.+...|. ---.
T Consensus 98 -a~~~a~~~--~~~~e~~~~~~~~dg~---~~Y~S~~i~~~ds~i~s------l~dlkgk~~af~d~~StSG~---l~P~ 162 (299)
T COG3221 98 -AYVEAVDR--ALAGEPLAQTVQKDGS---PGYYSVIIVRADSPIKS------LEDLKGKRFAFGDPDSTSGY---LFPL 162 (299)
T ss_pred -hHHHHHhh--cccccceeeeeccCCC---cceeEEEEEeCCCCcch------HHHhcCCeEeccCCCcchhh---HhHH
Confidence 11111111 1123344432111111 13333333333322222 33777788886554443332 2223
Q ss_pred HHHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 187 DKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 187 ~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
..|.+.| +.. ...+............+..+.+-+.||-.+.++
T Consensus 163 ~~L~~~g~~d~--~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~ 206 (299)
T COG3221 163 YYLAKEGGIDP--DKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSS 206 (299)
T ss_pred HHHHHhcCCCh--hhhhceeeccChHHHHHHHHHcCCceEEeccHH
Confidence 4444444 322 111111111233566677777777877666543
No 464
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=39.06 E-value=2.6e+02 Score=27.56 Aligned_cols=86 Identities=16% Similarity=0.009 Sum_probs=55.0
Q ss_pred eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC----hhHHHHHHHH
Q 002505 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (914)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~----~~~~~~il~~ 241 (914)
.+|.+.....+.-.-+..-+...++..|.+|.+--. .......+..+.+.++|+|.+.+. ...+..++++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~------~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~ 156 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGR------DVPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEA 156 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCC------CCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHH
Confidence 456555555555555667778889999999864321 122345566666678999988763 3577788888
Q ss_pred HHhcCCCCCCeEEEEe
Q 002505 242 AKHLRMMESGYVWIVT 257 (914)
Q Consensus 242 a~~~g~~~~~~~~i~~ 257 (914)
.++.+....-.++++.
T Consensus 157 lr~~~~~~~~~i~vGG 172 (201)
T cd02070 157 LKEAGLRDKVKVMVGG 172 (201)
T ss_pred HHHCCCCcCCeEEEEC
Confidence 8887653333445544
No 465
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=39.00 E-value=67 Score=31.01 Aligned_cols=29 Identities=24% Similarity=0.424 Sum_probs=26.0
Q ss_pred EEEEcCCCchHHHHHHHhhccCCccEEee
Q 002505 99 VAIIGPQFSVIAHLVSHIANEFQVPLLSF 127 (914)
Q Consensus 99 ~aiiGp~~s~~~~~v~~~~~~~~ip~is~ 127 (914)
.+|+||..++-+.....+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57899999998888899999999999973
No 466
>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=38.90 E-value=1.7e+02 Score=27.39 Aligned_cols=81 Identities=14% Similarity=0.064 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 152 ~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
.++.+..+.++++.+++.++- |..-.....+.+.....-.|+++... +..+....+.+-...+.++++++-.
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~vl~k~ 84 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV-------SLEKTINVIHKPAYHDQTIFLLFRN 84 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 567788899999999997764 44444455666666665667776643 2344555565555567799999999
Q ss_pred hhHHHHHHH
Q 002505 232 DIWGLEVLN 240 (914)
Q Consensus 232 ~~~~~~il~ 240 (914)
+.++..+++
T Consensus 85 ~~da~~l~~ 93 (151)
T TIGR00854 85 PQDVLTLVE 93 (151)
T ss_pred HHHHHHHHH
Confidence 999998875
No 467
>PRK09701 D-allose transporter subunit; Provisional
Probab=38.84 E-value=1.2e+02 Score=32.21 Aligned_cols=85 Identities=6% Similarity=-0.042 Sum_probs=57.9
Q ss_pred HcCCeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHH
Q 002505 162 YFGWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEV 238 (914)
Q Consensus 162 ~~~w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~i 238 (914)
.+.-.+|+++..+ +.|.....+.+.+++++.|..+..... +...+.......++.+...++|.||+..... .....
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHH
Confidence 4556789999854 667778889999999999988765321 1112334556677788888899999875443 33345
Q ss_pred HHHHHhcCC
Q 002505 239 LNAAKHLRM 247 (914)
Q Consensus 239 l~~a~~~g~ 247 (914)
+.++.+.|+
T Consensus 100 l~~~~~~gi 108 (311)
T PRK09701 100 VARAWKKGI 108 (311)
T ss_pred HHHHHHCCC
Confidence 667777665
No 468
>PF14981 FAM165: FAM165 family
Probab=38.68 E-value=83 Score=22.08 Aligned_cols=34 Identities=18% Similarity=0.042 Sum_probs=27.6
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002505 831 LKSFWGLFVLCGVACLLALLIYLIQIVRQFARHY 864 (914)
Q Consensus 831 ~~~~~g~f~il~~g~~ls~~vf~~e~~~~~~~~~ 864 (914)
++++-.++||++.-.++.++.|..--+|+++|..
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krlE 36 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRLE 36 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 5677888999998888888888888888777664
No 469
>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=38.32 E-value=1.2e+02 Score=31.23 Aligned_cols=76 Identities=9% Similarity=0.008 Sum_probs=51.1
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
++++.. ++.|.......+.+.+++.|.++...... .........++.+...+.|.|++....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG---RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 455553 46788888999999999999887654332 233445567778888889998876543222 346777665
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
+.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 54
No 470
>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=38.23 E-value=4.5e+02 Score=29.78 Aligned_cols=77 Identities=12% Similarity=-0.079 Sum_probs=47.5
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCC-CchHHHHHHHhhccCCccEE
Q 002505 48 VAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQ-FSVIAHLVSHIANEFQVPLL 125 (914)
Q Consensus 48 ~~~~a~~~Ave~iN~~~~~l~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~-~s~~~~~v~~~~~~~~ip~i 125 (914)
......+..++.+|+. +. +++..+... ++..+.+++.++-.++++++|-.. +-+.+..+...++..++|++
T Consensus 20 ~~~~~~~~~~~~l~~~-----~~--~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvl 92 (452)
T cd00578 20 QVEEYAREVADLLNEL-----PV--EVVDKPEVTGTPDEARKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRKPVL 92 (452)
T ss_pred HHHHHHHHHHHHHhcC-----Cc--eEEecCcccCCHHHHHHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCCCEE
Confidence 3445555556666643 22 444444444 777777777666666788776432 33444556777888999999
Q ss_pred eeccCC
Q 002505 126 SFAATD 131 (914)
Q Consensus 126 s~~a~~ 131 (914)
-++...
T Consensus 93 l~a~~~ 98 (452)
T cd00578 93 LLATQF 98 (452)
T ss_pred EEeCCC
Confidence 876655
No 471
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=38.14 E-value=75 Score=24.76 Aligned_cols=26 Identities=23% Similarity=0.171 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002505 839 VLCGVACLLALLIYLIQIVRQFARHY 864 (914)
Q Consensus 839 ~il~~g~~ls~~vf~~e~~~~~~~~~ 864 (914)
..+++|++++.++.+...+..+++.+
T Consensus 26 ~~f~~G~llg~l~~~~~~~~~r~~~~ 51 (68)
T PF06305_consen 26 IAFLLGALLGWLLSLPSRLRLRRRIR 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44456666666666666655555554
No 472
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=38.09 E-value=76 Score=34.28 Aligned_cols=79 Identities=9% Similarity=-0.001 Sum_probs=52.0
Q ss_pred HHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh--hHHHHH
Q 002505 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD--IWGLEV 238 (914)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~--~~~~~i 238 (914)
+.++.+++.+|+....+.....+.+.+.+++. +.+.....+.+.++.+.....++.+++.++|.||-.+.+ -|+.+.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~aKa 96 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAAKA 96 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHHHHHHH
Confidence 44556888888854433334667788888776 554433334444566778888888888999999977543 455555
Q ss_pred HH
Q 002505 239 LN 240 (914)
Q Consensus 239 l~ 240 (914)
+.
T Consensus 97 ~a 98 (332)
T cd08180 97 II 98 (332)
T ss_pred HH
Confidence 43
No 473
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=37.97 E-value=2.5e+02 Score=30.46 Aligned_cols=85 Identities=12% Similarity=0.016 Sum_probs=54.4
Q ss_pred HHHHHHHHHcCC--eEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccC---CCeEEEE
Q 002505 154 AAIADIVDYFGW--RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILIL 228 (914)
Q Consensus 154 ~a~~~~l~~~~w--~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viil 228 (914)
..+.++++.+|. +++.+++ |...-. ..+.+.+++.|+.+.....+.++++..+.....+..++. ++|.||-
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIa 87 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVG 87 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEE
Confidence 445566777763 5566666 432221 567778888787655444555556777788888888876 8999997
Q ss_pred EeCh--hHHHHHHHHH
Q 002505 229 HTYD--IWGLEVLNAA 242 (914)
Q Consensus 229 ~~~~--~~~~~il~~a 242 (914)
.+.+ -|+.+.+...
T Consensus 88 iGGGS~iD~AKaia~~ 103 (347)
T cd08184 88 IGGGSTLDVAKAVSNM 103 (347)
T ss_pred eCCcHHHHHHHHHHHH
Confidence 7554 4555555443
No 474
>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=37.90 E-value=2.9e+02 Score=26.60 Aligned_cols=92 Identities=14% Similarity=0.183 Sum_probs=46.0
Q ss_pred CcEEEEcCCCchHHHHHHHhhccCC--ccE-EeeccCCCCCcc-CCCCceEeccCCcHHHHHHHHHHHHHcCCeEEEEEE
Q 002505 97 ETVAIIGPQFSVIAHLVSHIANEFQ--VPL-LSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALY 172 (914)
Q Consensus 97 ~v~aiiGp~~s~~~~~v~~~~~~~~--ip~-is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~ii~ 172 (914)
++.+++||.+|+-......+++... ... ++.....|...+ .+-.|.|-. .... -+.++.-..=...- +
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs----~~~f---~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS----KEEF---ERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------HHHH---HHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe----echh---hhhhccccEEEEee-e
Confidence 6789999999998877777877653 322 332222333322 234455532 2122 22222211111111 3
Q ss_pred EeCCCccchHHHHHHHHhhcccEEE
Q 002505 173 VDDDHGRNGIAALGDKLAEKRCRLS 197 (914)
Q Consensus 173 ~d~~~g~~~~~~~~~~l~~~g~~v~ 197 (914)
.++.||.. ..+++..+++...++.
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il 98 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCIL 98 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEE
T ss_pred cchhhhhc-cchhhHhhhcCCcEEE
Confidence 34556654 4677777776666554
No 475
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=37.85 E-value=73 Score=31.08 Aligned_cols=71 Identities=18% Similarity=0.112 Sum_probs=51.6
Q ss_pred HHHHHhcCCCCCCCcEEEEE-EecCCCChHHHHHHHHHHHhc----CcEEEEcCCCchHHHHHHHhhccCCccEEee
Q 002505 56 AVEDVNSNPAILGGTKLKLT-VHDTNYSRFLGMVEALTLLEN----ETVAIIGPQFSVIAHLVSHIANEFQVPLLSF 127 (914)
Q Consensus 56 Ave~iN~~~~~l~g~~l~l~-~~D~~~~~~~a~~~a~~li~~----~v~aiiGp~~s~~~~~v~~~~~~~~ip~is~ 127 (914)
=.|.+|+++-+|||-=+.+. ..+...||......+..+.+. ++++|+|+...+... ...++...++|++-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~l~~i~~~la~~~~~~~~D~Ivg~e~~Gipl-A~~lA~~Lg~p~v~v 79 (189)
T PRK09219 4 LEERILKDGKVLSGNILKVDSFLNHQVDPKLMNEIGKEFARRFKDEGITKILTIEASGIAP-AVMAALALGVPVVFA 79 (189)
T ss_pred HHHHHhcCCEEcCCCEEEEhhhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHH-HHHHHHHHCCCEEEE
Confidence 35789999998888777765 557778887766555555433 799999987777643 345777788999864
No 476
>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=37.78 E-value=1.4e+02 Score=30.72 Aligned_cols=76 Identities=11% Similarity=-0.067 Sum_probs=50.8
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|++|.. ++.|.......+.+++++.|..+...... .+.......++.+.+.++|.||+........ .++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAGH---HSAEKEREAIEFLLERRCDALILHSKALSDD-ELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHHHhhC
Confidence 445543 46677788899999999999887754321 2334456777788888999999876432222 26777766
Q ss_pred CC
Q 002505 246 RM 247 (914)
Q Consensus 246 g~ 247 (914)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 64
No 477
>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=37.23 E-value=1.1e+02 Score=32.16 Aligned_cols=71 Identities=8% Similarity=-0.011 Sum_probs=47.2
Q ss_pred CCCccchHHHHHHHHhhcc-cEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHHhcCC
Q 002505 175 DDHGRNGIAALGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKHLRM 247 (914)
Q Consensus 175 ~~~g~~~~~~~~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~~~g~ 247 (914)
+.|.....+.+.+++++.| ..+...... ..+.......++.+.+.++|.||+.... ......++++++.|.
T Consensus 10 ~~f~~~~~~gi~~~a~~~g~~~~i~~~~~--~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 10 NPFFEAANKGAEEAAKELGSVYIIYTGPT--GTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CHHHHHHHHHHHHHHHHhCCeeEEEECCC--CCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 5566677888889998888 444332111 1234555677888888899998887543 344567888887775
No 478
>PRK05723 flavodoxin; Provisional
Probab=37.15 E-value=2.1e+02 Score=26.76 Aligned_cols=67 Identities=12% Similarity=-0.017 Sum_probs=38.8
Q ss_pred EEEEEEE-eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC-------hhHHHHH
Q 002505 167 NVIALYV-DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-------DIWGLEV 238 (914)
Q Consensus 167 ~v~ii~~-d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~-------~~~~~~i 238 (914)
++.|+|. .+.-....++.+.+.+.+.|..+..... ....++. ...++.+|+.++ +.++..|
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~----~~~~~~~-------~~~~~~li~~~sT~G~Ge~Pd~~~~f 70 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPR----ASLQDLQ-------AFAPEALLAVTSTTGMGELPDNLMPL 70 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCc----CCHhHHH-------hCCCCeEEEEECCCCCCCCchhHHHH
Confidence 5777773 4445556788888888888877643211 1222222 223445554433 3677788
Q ss_pred HHHHHh
Q 002505 239 LNAAKH 244 (914)
Q Consensus 239 l~~a~~ 244 (914)
.+.+++
T Consensus 71 ~~~L~~ 76 (151)
T PRK05723 71 YSAIRD 76 (151)
T ss_pred HHHHHh
Confidence 877765
No 479
>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=37.14 E-value=1.3e+02 Score=30.68 Aligned_cols=75 Identities=16% Similarity=0.026 Sum_probs=49.7
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHHHHhc
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~ 245 (914)
|+++..+ +.|.....+.+++++++.|.++..... ..+.......++++...++|.+|+...... ..++..+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~ 77 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIKKL 77 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 4556543 456667788999999999988765422 123455567778888889999998754322 3455666655
Q ss_pred C
Q 002505 246 R 246 (914)
Q Consensus 246 g 246 (914)
|
T Consensus 78 ~ 78 (259)
T cd01542 78 N 78 (259)
T ss_pred C
Confidence 5
No 480
>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=37.07 E-value=1.5e+02 Score=30.71 Aligned_cols=77 Identities=13% Similarity=-0.047 Sum_probs=48.2
Q ss_pred CeEEEEEEEe---------CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHH
Q 002505 165 WRNVIALYVD---------DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWG 235 (914)
Q Consensus 165 w~~v~ii~~d---------~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~ 235 (914)
.+.|++|..+ +.|.....+.+.+.+++.|..+..... . .. +.....+.+.+.++|.||+......
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~--~~--~~~~~~~~l~~~~~dgiii~~~~~~- 76 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S--SP--DRDWLARYLASGRADGVILIGQHDQ- 76 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C--ch--hHHHHHHHHHhCCCCEEEEeCCCCC-
Confidence 4677888753 345566677888899989988765422 1 11 3344445555678999888643322
Q ss_pred HHHHHHHHhcCC
Q 002505 236 LEVLNAAKHLRM 247 (914)
Q Consensus 236 ~~il~~a~~~g~ 247 (914)
...++++.+.|.
T Consensus 77 ~~~~~~~~~~~i 88 (275)
T cd06295 77 DPLPERLAETGL 88 (275)
T ss_pred hHHHHHHHhCCC
Confidence 244677777665
No 481
>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=36.87 E-value=1.8e+02 Score=31.08 Aligned_cols=81 Identities=10% Similarity=-0.071 Sum_probs=53.0
Q ss_pred CCeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHHHHHHHH
Q 002505 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (914)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~~~il~~ 241 (914)
.-+.|+++..+ +.|.......+.+.+++.|..+...... .........+..+...+.|.||+..........+++
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 135 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSD---DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQK 135 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHH
Confidence 34678888753 5577777889999999999887654321 233344566777777889998887543212345666
Q ss_pred HHhcCC
Q 002505 242 AKHLRM 247 (914)
Q Consensus 242 a~~~g~ 247 (914)
+.+.+.
T Consensus 136 l~~~~i 141 (327)
T TIGR02417 136 LQNEGL 141 (327)
T ss_pred HHhcCC
Confidence 666553
No 482
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=36.49 E-value=1.8e+02 Score=27.10 Aligned_cols=97 Identities=12% Similarity=-0.045 Sum_probs=56.1
Q ss_pred ccCCcHHHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhccc--EEEEeeccCCCCChhHHHHHHHHhccCC
Q 002505 145 TTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRC--RLSHKVPLSPKGSRNQIIDTLLTVSSMM 222 (914)
Q Consensus 145 ~~p~~~~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~--~v~~~~~~~~~~~~~d~~~~l~~i~~~~ 222 (914)
..+.-..+++.+++.++..+..--.++.+.-.-....++.+.+. .+. .+.....+.+.....++...+.++...+
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~---~~~~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~ 99 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDC---LNLPSSAEVLEGLTPCGDIGLVSDYLEALTNEG 99 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHH---cCCCcceEEccCcCCCCCHHHHHHHHHHHHhcC
Confidence 33444578888889888765433344444443333333333333 242 2332333333334556677777766545
Q ss_pred CeEEEEEeChhHHHHHHHHHHh
Q 002505 223 SRILILHTYDIWGLEVLNAAKH 244 (914)
Q Consensus 223 ~~viil~~~~~~~~~il~~a~~ 244 (914)
.+.++++++.+....++..+-.
T Consensus 100 ~~~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 100 VASVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred CCEEEEEeCCCCHHHHHHHHhC
Confidence 6778888898888888887753
No 483
>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=36.38 E-value=2e+02 Score=27.33 Aligned_cols=65 Identities=15% Similarity=0.115 Sum_probs=44.3
Q ss_pred CeEEEEEEEeCCCcc---chHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhcc-CCCeEEEEEeC
Q 002505 165 WRNVIALYVDDDHGR---NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTY 231 (914)
Q Consensus 165 w~~v~ii~~d~~~g~---~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viil~~~ 231 (914)
.-++++|...++-+. .....+...+++.|.++.....++ .+...+...+.+..+ .+.|+|+..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~--Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK--DDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 356777765443221 224577788889999988877777 566778888877643 57899888744
No 484
>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=36.31 E-value=1.3e+02 Score=30.94 Aligned_cols=80 Identities=11% Similarity=0.012 Sum_probs=51.4
Q ss_pred EEEEEEE--eCCCccchHHHHHHHHhhc---ccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHH
Q 002505 167 NVIALYV--DDDHGRNGIAALGDKLAEK---RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLN 240 (914)
Q Consensus 167 ~v~ii~~--d~~~g~~~~~~~~~~l~~~---g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~ 240 (914)
+|+++.. ++.|-....+.+.+++++. |.++..... ....+.......++++...++|.||+.... ......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 3566653 3456667788888888888 864322211 111244556778888888899999997644 33445777
Q ss_pred HHHhcCC
Q 002505 241 AAKHLRM 247 (914)
Q Consensus 241 ~a~~~g~ 247 (914)
.+++.|.
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 485
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=35.91 E-value=1.8e+02 Score=31.57 Aligned_cols=82 Identities=7% Similarity=-0.005 Sum_probs=54.4
Q ss_pred HHHHHHH-HcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-
Q 002505 155 AIADIVD-YFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (914)
Q Consensus 155 a~~~~l~-~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~- 232 (914)
.+.++++ ..+.+++.+++....+ ....+.+++.+++.| .+... +.+..+...+...++.+++.++|+||..+.+
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs 89 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVEDATYEEVEKVESSARDIGADFVIGVGGGR 89 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCCCCHHHHHHHHHHhhhcCCCEEEEeCCch
Confidence 3455666 3567889888844433 356677888888877 44322 2233466778888888888899998877554
Q ss_pred -hHHHHHHH
Q 002505 233 -IWGLEVLN 240 (914)
Q Consensus 233 -~~~~~il~ 240 (914)
.|+.+++.
T Consensus 90 ~~D~aK~~a 98 (339)
T cd08173 90 VIDVAKVAA 98 (339)
T ss_pred HHHHHHHHH
Confidence 45555554
No 486
>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=35.89 E-value=1.1e+02 Score=32.06 Aligned_cols=76 Identities=9% Similarity=0.081 Sum_probs=52.3
Q ss_pred EEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHHHHh
Q 002505 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a~~ 244 (914)
|++|..+ +.|.....+.+.+++++.|..+... ... +.......+..+...++|.||+.... .....+++++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~---~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ 77 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKI---DVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKA 77 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEc---cCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHh
Confidence 5666643 4577777888999999999887643 211 33445567777778889999987543 345667888888
Q ss_pred cCC
Q 002505 245 LRM 247 (914)
Q Consensus 245 ~g~ 247 (914)
.|.
T Consensus 78 ~~i 80 (289)
T cd01540 78 YNM 80 (289)
T ss_pred CCC
Confidence 765
No 487
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=35.88 E-value=1.5e+02 Score=32.20 Aligned_cols=81 Identities=10% Similarity=-0.104 Sum_probs=54.4
Q ss_pred CeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeCh-hHHHHHHHH
Q 002505 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNA 241 (914)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~-~~~~~il~~ 241 (914)
-+.|+++..+ +.|.....+.+++++++.|..+....... ..+.......++.+.+.++|.||+.... ......+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 3788888754 55666778889999999998877653221 1233445567788888899999987544 3333455 6
Q ss_pred HHhcCC
Q 002505 242 AKHLRM 247 (914)
Q Consensus 242 a~~~g~ 247 (914)
+++.|.
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 776664
No 488
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=35.70 E-value=2e+02 Score=25.28 Aligned_cols=69 Identities=12% Similarity=-0.044 Sum_probs=45.2
Q ss_pred EEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC----hhHHHHHHHHHHhcC
Q 002505 172 YVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNAAKHLR 246 (914)
Q Consensus 172 ~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~----~~~~~~il~~a~~~g 246 (914)
...++.-.-+...+...++..|.+|.+-... ......++.+.+.++++|.+.+. ...+..+++++++.+
T Consensus 6 ~~~~e~H~lG~~~~~~~l~~~G~~V~~lg~~------~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 6 TVGGDGHDIGKNIVARALRDAGFEVIDLGVD------VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred eeCCchhhHHHHHHHHHHHHCCCEEEECCCC------CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 3344444555677788888999988653211 22345556666778999988865 256677778888765
No 489
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=35.62 E-value=1.8e+02 Score=30.47 Aligned_cols=80 Identities=6% Similarity=-0.023 Sum_probs=54.5
Q ss_pred CeEEEEEEEe--CCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHHHHH
Q 002505 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNA 241 (914)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~il~~ 241 (914)
-+.++++..+ +.|.......+.+++++.|..+...... .+.......++++...+.|++++..... .....++.
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~~---~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQ---NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 5678888753 5567778889999999999887653221 2334456677777777899888765433 33466777
Q ss_pred HHhcCC
Q 002505 242 AKHLRM 247 (914)
Q Consensus 242 a~~~g~ 247 (914)
+++.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777664
No 490
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=35.49 E-value=2.1e+02 Score=26.94 Aligned_cols=81 Identities=12% Similarity=0.075 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEe
Q 002505 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (914)
Q Consensus 151 ~~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~ 230 (914)
-.++.+..+.++++.+++.++- |..-...+.+.+.....-.|+++... +..+....+.+ ...+.++++++-
T Consensus 14 IHGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~v~il~k 84 (157)
T PRK11425 14 IHGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFW-------TLQKVIDNIHR-AADRQKILLVCK 84 (157)
T ss_pred hhHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhc-cCCCceEEEEEC
Confidence 3577888899999999987664 44444445566656555567776643 33455666666 556678999999
Q ss_pred ChhHHHHHHH
Q 002505 231 YDIWGLEVLN 240 (914)
Q Consensus 231 ~~~~~~~il~ 240 (914)
.+.++..+++
T Consensus 85 ~~~d~~~l~~ 94 (157)
T PRK11425 85 TPADFLTLVK 94 (157)
T ss_pred CHHHHHHHHH
Confidence 9999988765
No 491
>PRK10481 hypothetical protein; Provisional
Probab=35.36 E-value=3.1e+02 Score=27.55 Aligned_cols=82 Identities=12% Similarity=0.114 Sum_probs=50.4
Q ss_pred HHHHHHc-CCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHH
Q 002505 157 ADIVDYF-GWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWG 235 (914)
Q Consensus 157 ~~~l~~~-~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~ 235 (914)
..++..+ +-++++++....+. .+.....+...|..+.....-|............++++..++|+|++.|.+-..
T Consensus 120 ~~lv~Al~~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 120 PPLVAAIVGGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred HHHHHHhcCCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 3444443 44899999865442 333334444558777665543322344567778888888999999999876544
Q ss_pred HHHHHHHH
Q 002505 236 LEVLNAAK 243 (914)
Q Consensus 236 ~~il~~a~ 243 (914)
.+...++
T Consensus 196 -~~~~~le 202 (224)
T PRK10481 196 -RHRDLLQ 202 (224)
T ss_pred -HHHHHHH
Confidence 3433333
No 492
>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=35.27 E-value=5.6e+02 Score=27.05 Aligned_cols=40 Identities=18% Similarity=0.015 Sum_probs=23.1
Q ss_pred CchhhHHHHHH-HhhhhcccccccCCCCCCCCeEEEEEEecCC
Q 002505 1 MTKIYLLALVV-VYNFCFSAGISMNGVSTIPPVLNIGAVFALN 42 (914)
Q Consensus 1 M~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~s 42 (914)
|||+.++++++ +.+.+.+++|+.. ...++.|+||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGD--GGEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccC--CCCCceEEEEeCCCCC
Confidence 77775444433 2333345667533 3456789999875543
No 493
>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=35.24 E-value=1.2e+02 Score=31.15 Aligned_cols=77 Identities=5% Similarity=-0.056 Sum_probs=50.4
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhh--cccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChh-HHHHHHHHH
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAA 242 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~-~~~~il~~a 242 (914)
|+++.. ++.|-......+.+++++ .|..+..... ..........++.+...++|.||+..... .....++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~ 78 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVSA---DYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRA 78 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEccC---CCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHH
Confidence 556664 356777888899999999 6666544321 12334455677777778899998875432 245677777
Q ss_pred HhcCC
Q 002505 243 KHLRM 247 (914)
Q Consensus 243 ~~~g~ 247 (914)
.+.|.
T Consensus 79 ~~~~i 83 (271)
T cd06321 79 QAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 494
>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=35.24 E-value=3.2e+02 Score=29.85 Aligned_cols=99 Identities=9% Similarity=-0.075 Sum_probs=61.3
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEee--ccCCCCChhHHHHHHHHhccCCCe---EEEEE
Q 002505 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMSR---ILILH 229 (914)
Q Consensus 155 a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~--~~~~~~~~~d~~~~l~~i~~~~~~---viil~ 229 (914)
.+.++++.++-+++.+++....+ ....+.+.+.+++.|+.+.... ...+..+.+.....+..+++.++| +||..
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAv 91 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVAL 91 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 34566777777898888855443 3356788888988887653221 122223556788888888888787 77766
Q ss_pred eCh--hHHHHHHHHHHhcCCCCCCeEEEEe
Q 002505 230 TYD--IWGLEVLNAAKHLRMMESGYVWIVT 257 (914)
Q Consensus 230 ~~~--~~~~~il~~a~~~g~~~~~~~~i~~ 257 (914)
+.+ .++..++......| ..++.|-|
T Consensus 92 GGGsv~D~ak~~A~~~~rg---ip~I~IPT 118 (355)
T cd08197 92 GGGVVGNIAGLLAALLFRG---IRLVHIPT 118 (355)
T ss_pred CCcHHHHHHHHHHHHhccC---CCEEEecC
Confidence 543 46666655444334 24444444
No 495
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=35.06 E-value=37 Score=30.77 Aligned_cols=24 Identities=25% Similarity=0.487 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 002505 839 VLCGVACLLALLIYLIQIVRQFARH 863 (914)
Q Consensus 839 ~il~~g~~ls~~vf~~e~~~~~~~~ 863 (914)
+++++. +++++++++-++++.+|+
T Consensus 3 ~l~~ii-i~~i~l~~~~~~~~~rRR 26 (130)
T PF12273_consen 3 VLFAII-IVAILLFLFLFYCHNRRR 26 (130)
T ss_pred eeHHHH-HHHHHHHHHHHHHHHHHH
Confidence 344443 333333333333333333
No 496
>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=35.01 E-value=2.2e+02 Score=26.59 Aligned_cols=82 Identities=11% Similarity=0.051 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeC
Q 002505 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (914)
Q Consensus 152 ~~~a~~~~l~~~~w~~v~ii~~d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~ 231 (914)
.++.+..+.++++.+++.++- |..-...+.+.+.....-.|+++... +..+....+.+-+..+.++++++-.
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~il~k~ 83 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIF-------TVEKAIEAINSPKYDKQRVFLLFKN 83 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 567888899999999997764 44344445566656555567776643 2345555566555567789999999
Q ss_pred hhHHHHHHHH
Q 002505 232 DIWGLEVLNA 241 (914)
Q Consensus 232 ~~~~~~il~~ 241 (914)
+.++..+++.
T Consensus 84 ~~~~~~l~~~ 93 (151)
T cd00001 84 PQDVLRLVEG 93 (151)
T ss_pred HHHHHHHHHc
Confidence 9999888763
No 497
>cd08470 PBP2_CrgA_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 1. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene
Probab=34.88 E-value=3e+02 Score=26.02 Aligned_cols=69 Identities=14% Similarity=0.102 Sum_probs=37.7
Q ss_pred ccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEec--cccccccceeeecCCCCChhhHHHHHHhh
Q 002505 724 VPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIG--QEFTRIGWGFAFPRDSPLAVDMSIAILEL 798 (914)
Q Consensus 724 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~i~~l 798 (914)
...++.....+.+.. |..-+++-+. .+...... ..+..+. .......++++.+++..........+..+
T Consensus 123 ~~~~~~~~~~~~v~~----g~Gi~~lp~~-~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 193 (197)
T cd08470 123 WRCNSGVALLDAALK----GMGLAQLPDY-YVDEHLAA-GRLVPVLEDYRPPDEGIWALYPHNRHLSPKVRLLVDYL 193 (197)
T ss_pred EEECCHHHHHHHHHc----CCcEEEechH-HhHHHHHc-CCcEEccccccCCCCcEEEEeCCchhccHHHHHHHHHH
Confidence 446778888899988 5555555543 33322222 2233322 12234567788888776655555554433
No 498
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=34.83 E-value=72 Score=28.41 Aligned_cols=23 Identities=22% Similarity=0.160 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 002505 835 WGLFVLCGVACLLALLIYLIQIV 857 (914)
Q Consensus 835 ~g~f~il~~g~~ls~~vf~~e~~ 857 (914)
..+.+++|+.+++.++++++-++
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi~y~ 87 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLISYC 87 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceeehhHHHHHHHHHHHHHHHHH
Confidence 44555555555554444443333
No 499
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=34.77 E-value=4.7e+02 Score=26.12 Aligned_cols=93 Identities=13% Similarity=0.108 Sum_probs=54.3
Q ss_pred CCCCeEEEeCchhhhhhhhhcCCCCCCcccCCCHHHHHHHHhcCCCCCCeEEEEechhhHHHHHhcCceEEEeccccccc
Q 002505 696 SSDPIGYQRGSFAENYLTDELNIDKSRLVPLNTAEEYEKALTDGPKNGGVSAVIDERAYMEVFLSTRCEFSIIGQEFTRI 775 (914)
Q Consensus 696 ~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~ 775 (914)
.+++|+.........||.+ .+.. .+++.....-|.. -.. |-.|++++=.....-+..+ +|.++.. +...
T Consensus 114 ~~~rIATkYp~it~~yf~~-~gv~-~~iv~l~GsvE~a--P~~----GlAD~IvDivsTG~TLr~N--gL~~ie~-Il~s 182 (215)
T PRK01686 114 PRLRVATKYPNIARRYFAE-KGEQ-VEIIKLYGSVELA--PLV----GLADAIVDIVETGNTLRAN--GLVEVEE-IMDI 182 (215)
T ss_pred CCCEEEeCCHHHHHHHHHH-cCCe-EEEEECcCceeec--ccc----CCccEEEEeecChHHHHHC--cCEEeeE-EEee
Confidence 3678888888888888854 3443 4555555444432 222 6677888765555554333 3555543 3445
Q ss_pred cceeeecCCCC--ChhhHHHHHHhhh
Q 002505 776 GWGFAFPRDSP--LAVDMSIAILELS 799 (914)
Q Consensus 776 ~~~~~~~k~sp--l~~~~~~~i~~l~ 799 (914)
.-.++.++.|. -.+.++..+.+|.
T Consensus 183 ~A~LI~n~~s~~~k~~~i~~l~~~l~ 208 (215)
T PRK01686 183 SARLIVNRASLKLKREEIRPLIEKLR 208 (215)
T ss_pred EEEEEEecccchhhHHHHHHHHHHHH
Confidence 55666777765 3356666666554
No 500
>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=34.74 E-value=1.2e+02 Score=30.94 Aligned_cols=78 Identities=8% Similarity=-0.024 Sum_probs=0.0
Q ss_pred EEEEEE--eCCCccchHHHHHHHHhhcccEEEEeeccCCCCChhHHHHHHHHhccCCCeEEEEEeChhHH-HHHHHHHHh
Q 002505 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWG-LEVLNAAKH 244 (914)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~~viil~~~~~~~-~~il~~a~~ 244 (914)
|++|.. ++.|.......+.+++++.|..+.....-. +..+....+.++...++|.||+....... ...++++++
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~~~---~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLDAQN---DAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecCCCC---CHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Q ss_pred cCCC
Q 002505 245 LRMM 248 (914)
Q Consensus 245 ~g~~ 248 (914)
.|..
T Consensus 79 ~~ip 82 (268)
T cd06323 79 AGIP 82 (268)
T ss_pred CCCc
Done!