Query 002301
Match_columns 940
No_of_seqs 494 out of 3915
Neff 9.6
Searched_HMMs 46136
Date Thu Mar 28 21:00:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002301.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002301hhsearch_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 1.5E-89 3.3E-94 715.3 46.5 778 28-862 23-846 (897)
2 KOG4440 NMDA selective glutama 100.0 5.6E-84 1.2E-88 676.4 39.8 748 26-862 30-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 3.5E-77 7.6E-82 648.4 58.1 703 80-859 83-854 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 3.6E-67 7.7E-72 627.5 53.6 595 212-861 4-624 (656)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 3.6E-49 7.8E-54 433.0 38.0 367 34-424 2-399 (400)
6 cd06374 PBP1_mGluR_groupI Liga 100.0 2.2E-47 4.8E-52 439.2 39.9 378 27-424 5-468 (472)
7 cd06375 PBP1_mGluR_groupII Lig 100.0 4.4E-47 9.6E-52 432.5 41.1 369 30-419 1-454 (458)
8 cd06364 PBP1_CaSR Ligand-bindi 100.0 6.3E-47 1.4E-51 435.5 42.3 377 27-420 8-494 (510)
9 cd06362 PBP1_mGluR Ligand bind 100.0 6.1E-47 1.3E-51 435.4 40.8 375 30-423 1-450 (452)
10 cd06365 PBP1_Pheromone_recepto 100.0 6.8E-47 1.5E-51 432.8 39.1 370 30-419 1-452 (469)
11 cd06361 PBP1_GPC6A_like Ligand 100.0 1.9E-46 4E-51 420.1 40.2 345 34-422 2-396 (403)
12 cd06376 PBP1_mGluR_groupIII Li 100.0 3.1E-46 6.7E-51 429.1 41.5 371 30-419 1-452 (463)
13 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.6E-46 3.5E-51 413.0 37.0 360 33-423 1-363 (364)
14 cd06393 PBP1_iGluR_Kainate_Glu 100.0 3.5E-46 7.6E-51 418.6 38.2 370 31-424 2-382 (384)
15 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.7E-45 5.8E-50 407.6 38.2 368 33-423 1-398 (400)
16 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.5E-44 5.4E-49 394.1 38.6 366 33-423 1-371 (372)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 3.3E-44 7.2E-49 403.8 39.6 376 33-423 1-381 (382)
18 cd06386 PBP1_NPR_C_like Ligand 100.0 4.1E-44 8.8E-49 401.6 37.1 356 36-421 4-380 (387)
19 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 7.4E-44 1.6E-48 399.7 38.7 336 29-420 17-364 (377)
20 cd06367 PBP1_iGluR_NMDA N-term 100.0 1E-43 2.2E-48 396.7 35.6 339 31-419 2-351 (362)
21 cd06366 PBP1_GABAb_receptor Li 100.0 4.3E-43 9.3E-48 390.5 35.7 343 33-425 1-348 (350)
22 cd06363 PBP1_Taste_receptor Li 100.0 1.2E-42 2.7E-47 393.4 40.0 351 28-420 3-396 (410)
23 KOG1056 Glutamate-gated metabo 100.0 6.6E-43 1.4E-47 396.9 37.5 397 26-462 26-494 (878)
24 cd06370 PBP1_Speract_GC_like L 100.0 6.8E-43 1.5E-47 394.8 35.9 352 32-411 1-386 (404)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 6.9E-43 1.5E-47 395.8 35.9 362 33-421 1-392 (405)
26 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3E-42 6.5E-47 381.2 38.0 366 33-424 1-370 (371)
27 cd06373 PBP1_NPR_like Ligand b 100.0 8.2E-43 1.8E-47 394.3 34.3 363 33-421 1-390 (396)
28 cd06372 PBP1_GC_G_like Ligand- 100.0 2.9E-42 6.3E-47 389.1 37.9 362 33-421 1-387 (391)
29 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.8E-42 6.1E-47 385.6 36.2 353 33-417 1-369 (382)
30 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 8.8E-42 1.9E-46 378.7 37.9 363 33-424 1-369 (370)
31 cd06352 PBP1_NPR_GC_like Ligan 100.0 2E-41 4.3E-46 382.9 36.7 365 33-422 1-384 (389)
32 cd06394 PBP1_iGluR_Kainate_KA1 100.0 9.7E-42 2.1E-46 367.9 27.6 326 33-424 1-332 (333)
33 cd06382 PBP1_iGluR_Kainate N-t 100.0 2.9E-41 6.2E-46 371.9 30.6 321 33-423 1-326 (327)
34 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.5E-40 3.3E-45 375.3 36.1 362 33-421 1-393 (399)
35 PF01094 ANF_receptor: Recepto 100.0 1.3E-38 2.9E-43 355.0 31.4 339 48-407 2-348 (348)
36 PRK15404 leucine ABC transport 100.0 1.4E-37 2.9E-42 346.2 36.3 338 28-411 22-364 (369)
37 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.6E-37 3.5E-42 342.0 32.1 321 33-423 1-323 (324)
38 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.4E-36 3E-41 336.5 33.5 328 33-406 1-334 (334)
39 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 7.8E-37 1.7E-41 335.6 29.3 303 78-425 43-355 (362)
40 cd06381 PBP1_iGluR_delta_like 100.0 5.1E-36 1.1E-40 329.8 35.5 336 33-423 1-362 (363)
41 cd06350 PBP1_GPCR_family_C_lik 100.0 3E-36 6.4E-41 335.7 32.4 308 33-420 1-340 (348)
42 cd06338 PBP1_ABC_ligand_bindin 100.0 1.8E-35 3.9E-40 328.8 32.2 328 33-405 1-344 (345)
43 cd06345 PBP1_ABC_ligand_bindin 100.0 3.1E-35 6.8E-40 326.3 33.1 320 33-397 1-337 (344)
44 cd06346 PBP1_ABC_ligand_bindin 100.0 1.2E-35 2.7E-40 324.4 29.4 303 33-402 1-309 (312)
45 cd06348 PBP1_ABC_ligand_bindin 100.0 1.4E-34 3.1E-39 321.2 33.1 334 33-403 1-343 (344)
46 cd06383 PBP1_iGluR_AMPA_Like N 100.0 6.7E-35 1.4E-39 321.5 25.1 333 41-400 7-354 (368)
47 cd06340 PBP1_ABC_ligand_bindin 100.0 5.4E-34 1.2E-38 316.3 29.8 324 33-399 1-342 (347)
48 cd06355 PBP1_FmdD_like Peripla 100.0 3.1E-33 6.8E-38 309.8 34.5 337 33-414 1-345 (348)
49 cd06344 PBP1_ABC_ligand_bindin 100.0 8.8E-34 1.9E-38 312.9 29.8 321 33-400 1-328 (332)
50 cd06329 PBP1_SBP_like_3 Peripl 100.0 2.1E-33 4.5E-38 311.1 31.5 317 33-396 1-335 (342)
51 COG0683 LivK ABC-type branched 100.0 1E-32 2.2E-37 306.4 34.6 338 29-409 8-355 (366)
52 TIGR03669 urea_ABC_arch urea A 100.0 1.2E-32 2.6E-37 305.4 35.1 339 32-418 1-349 (374)
53 cd06343 PBP1_ABC_ligand_bindin 100.0 1.4E-32 3.1E-37 307.4 34.2 341 29-411 4-362 (362)
54 cd06347 PBP1_ABC_ligand_bindin 100.0 9.5E-33 2.1E-37 305.8 32.0 322 33-401 1-331 (334)
55 cd06331 PBP1_AmiC_like Type I 100.0 1.8E-32 4E-37 302.6 32.4 320 33-397 1-326 (333)
56 cd06349 PBP1_ABC_ligand_bindin 100.0 2.5E-32 5.3E-37 302.7 32.9 329 33-410 1-339 (340)
57 KOG1055 GABA-B ion channel rec 100.0 4.2E-34 9.1E-39 313.4 17.0 373 27-422 37-432 (865)
58 TIGR03407 urea_ABC_UrtA urea A 100.0 6.4E-32 1.4E-36 300.5 35.0 330 32-407 1-338 (359)
59 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.7E-32 3.7E-37 303.0 29.1 321 33-400 1-331 (334)
60 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 3.1E-31 6.7E-36 285.4 37.3 336 29-421 16-372 (382)
61 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 5E-32 1.1E-36 299.3 32.0 317 33-419 1-322 (328)
62 cd06336 PBP1_ABC_ligand_bindin 100.0 2E-32 4.4E-37 303.6 28.7 324 33-401 1-344 (347)
63 cd06330 PBP1_Arsenic_SBP_like 100.0 4.7E-32 1E-36 301.4 31.4 320 33-393 1-333 (346)
64 cd06359 PBP1_Nba_like Type I p 100.0 1.1E-31 2.4E-36 296.2 32.8 320 33-399 1-327 (333)
65 cd06357 PBP1_AmiC Periplasmic 100.0 2.6E-31 5.7E-36 295.7 35.6 339 33-415 1-347 (360)
66 cd06328 PBP1_SBP_like_2 Peripl 100.0 2.8E-31 6.2E-36 292.5 32.7 322 33-401 1-331 (333)
67 cd06360 PBP1_alkylbenzenes_lik 100.0 5.1E-31 1.1E-35 292.1 33.0 325 33-401 1-332 (336)
68 cd06358 PBP1_NHase Type I peri 100.0 6.7E-31 1.5E-35 290.0 31.6 320 33-400 1-328 (333)
69 PF13458 Peripla_BP_6: Peripla 100.0 4E-31 8.6E-36 294.1 27.9 332 31-407 1-339 (343)
70 cd06356 PBP1_Amide_Urea_BP_lik 100.0 2.3E-30 4.9E-35 285.4 32.8 316 33-394 1-324 (334)
71 cd06335 PBP1_ABC_ligand_bindin 100.0 2E-30 4.3E-35 287.7 32.2 321 33-393 1-335 (347)
72 cd06334 PBP1_ABC_ligand_bindin 100.0 2.4E-30 5.3E-35 285.9 29.5 333 33-393 1-345 (351)
73 cd06332 PBP1_aromatic_compound 100.0 1.2E-29 2.6E-34 280.8 32.8 322 33-401 1-329 (333)
74 PF13433 Peripla_BP_5: Peripla 100.0 6.7E-30 1.5E-34 268.0 28.1 314 32-393 1-324 (363)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 1.2E-28 2.5E-33 274.3 28.6 328 33-410 1-356 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 2.7E-27 5.9E-32 262.2 31.9 317 32-392 1-326 (336)
77 cd06269 PBP1_glutamate_recepto 100.0 2.3E-27 5E-32 258.0 29.0 224 33-262 1-235 (298)
78 cd06339 PBP1_YraM_LppC_lipopro 100.0 6.5E-28 1.4E-32 265.6 24.7 302 33-396 1-329 (336)
79 TIGR03863 PQQ_ABC_bind ABC tra 100.0 1E-26 2.2E-31 254.0 24.4 294 45-401 10-311 (347)
80 cd04509 PBP1_ABC_transporter_G 99.9 3.2E-26 6.8E-31 249.2 25.6 280 33-328 1-290 (299)
81 cd06341 PBP1_ABC_ligand_bindin 99.9 1.1E-25 2.4E-30 249.7 29.1 309 33-386 1-318 (341)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 1.8E-25 4E-30 244.6 28.2 279 33-330 1-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.9 5.4E-24 1.2E-28 231.4 27.0 280 33-330 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.6E-23 3.5E-28 218.9 27.1 324 46-422 18-367 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 1.7E-21 3.7E-26 205.1 20.3 218 467-810 24-243 (247)
86 PRK10797 glutamate and asparta 99.9 4.5E-21 9.9E-26 206.3 21.0 222 468-811 40-272 (302)
87 PF00497 SBP_bac_3: Bacterial 99.9 3.8E-21 8.2E-26 199.8 14.9 221 470-810 1-224 (225)
88 PRK11260 cystine transporter s 99.9 2.1E-20 4.5E-25 199.0 19.8 221 466-810 39-261 (266)
89 PRK15010 ABC transporter lysin 99.8 3.6E-20 7.9E-25 196.4 20.5 222 466-810 24-254 (260)
90 PRK15007 putative ABC transpor 99.8 7.3E-20 1.6E-24 192.5 20.5 217 467-810 20-242 (243)
91 TIGR01096 3A0103s03R lysine-ar 99.8 7.6E-20 1.6E-24 193.4 19.7 218 468-809 24-250 (250)
92 PRK11917 bifunctional adhesin/ 99.8 1.5E-19 3.2E-24 190.7 20.7 218 466-809 36-258 (259)
93 PRK15437 histidine ABC transpo 99.8 2.4E-19 5.2E-24 190.0 20.1 222 466-810 24-254 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 2.1E-19 4.7E-24 192.0 18.5 221 467-809 32-260 (275)
95 PRK10859 membrane-bound lytic 99.8 2.6E-18 5.7E-23 196.9 18.2 221 466-810 41-266 (482)
96 PRK09959 hybrid sensory histid 99.7 1.6E-17 3.6E-22 214.7 19.4 215 468-810 302-520 (1197)
97 TIGR03870 ABC_MoxJ methanol ox 99.7 5.1E-17 1.1E-21 170.3 16.2 208 469-808 1-241 (246)
98 TIGR02285 conserved hypothetic 99.7 5.2E-17 1.1E-21 173.0 16.1 229 466-810 16-261 (268)
99 PF00060 Lig_chan: Ligand-gate 99.7 4.3E-19 9.4E-24 170.7 -2.5 107 588-694 1-115 (148)
100 COG0834 HisJ ABC-type amino ac 99.7 7.1E-16 1.5E-20 165.6 18.6 224 466-810 32-264 (275)
101 cd00134 PBPb Bacterial peripla 99.7 1.1E-15 2.4E-20 157.2 19.1 214 470-809 1-218 (218)
102 smart00062 PBPb Bacterial peri 99.7 1.5E-15 3.3E-20 156.0 18.4 215 469-809 1-219 (219)
103 PRK09959 hybrid sensory histid 99.6 1.3E-15 2.7E-20 197.2 17.4 220 466-811 54-278 (1197)
104 cd01391 Periplasmic_Binding_Pr 99.6 2.9E-14 6.4E-19 151.7 24.0 216 33-260 1-220 (269)
105 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 6.5E-15 1.4E-19 153.6 17.9 210 470-809 2-228 (232)
106 smart00079 PBPe Eukaryotic hom 99.4 1.9E-12 4.1E-17 122.1 11.4 123 683-810 1-133 (134)
107 COG4623 Predicted soluble lyti 99.3 2.4E-11 5.2E-16 124.3 13.1 220 467-810 22-247 (473)
108 PF04348 LppC: LppC putative l 99.2 2E-10 4.3E-15 132.0 18.7 308 30-407 218-534 (536)
109 TIGR01098 3A0109s03R phosphate 98.9 1.5E-08 3.2E-13 107.2 14.2 198 468-795 32-254 (254)
110 PRK00489 hisG ATP phosphoribos 98.9 1E-08 2.2E-13 109.4 10.7 164 525-810 51-219 (287)
111 cd01537 PBP1_Repressors_Sugar_ 98.9 1.7E-07 3.7E-12 99.5 20.0 205 33-255 1-211 (264)
112 PF10613 Lig_chan-Glu_bd: Liga 98.8 1.6E-09 3.4E-14 84.3 0.3 50 487-536 13-65 (65)
113 cd01536 PBP1_ABC_sugar_binding 98.7 1.9E-06 4.1E-11 91.7 24.0 198 33-247 1-206 (267)
114 cd06267 PBP1_LacI_sugar_bindin 98.7 1.3E-06 2.8E-11 92.7 19.7 205 33-255 1-210 (264)
115 cd06300 PBP1_ABC_sugar_binding 98.7 4.7E-06 1E-10 89.1 23.7 204 33-249 1-211 (272)
116 cd06325 PBP1_ABC_uncharacteriz 98.6 3.5E-06 7.7E-11 90.5 20.3 201 33-246 1-208 (281)
117 COG3107 LppC Putative lipoprot 98.6 4.8E-06 1E-10 90.2 19.6 313 30-414 256-603 (604)
118 COG2984 ABC-type uncharacteriz 98.6 2.2E-05 4.7E-10 81.1 23.3 204 27-246 26-240 (322)
119 cd06320 PBP1_allose_binding Pe 98.4 5.2E-05 1.1E-09 81.2 23.7 199 33-247 1-207 (275)
120 cd06282 PBP1_GntR_like_2 Ligan 98.3 5.7E-05 1.2E-09 80.3 20.9 200 33-252 1-206 (266)
121 PRK10653 D-ribose transporter 98.3 0.00032 7E-09 75.9 25.3 199 31-246 26-231 (295)
122 cd06323 PBP1_ribose_binding Pe 98.2 0.00024 5.2E-09 75.6 23.0 203 34-256 2-213 (268)
123 cd06273 PBP1_GntR_like_1 This 98.2 0.00017 3.8E-09 76.7 20.5 200 33-252 1-208 (268)
124 TIGR03431 PhnD phosphonate ABC 98.2 2.8E-05 6E-10 83.8 14.3 116 682-803 125-257 (288)
125 cd06317 PBP1_ABC_sugar_binding 98.1 0.00036 7.9E-09 74.5 22.0 200 34-247 2-212 (275)
126 cd06319 PBP1_ABC_sugar_binding 98.1 0.00064 1.4E-08 72.8 23.3 199 33-247 1-210 (277)
127 cd06312 PBP1_ABC_sugar_binding 98.1 0.00094 2E-08 71.2 23.6 200 33-247 1-208 (271)
128 cd06301 PBP1_rhizopine_binding 98.0 0.00099 2.2E-08 71.0 22.9 209 33-257 1-218 (272)
129 cd06305 PBP1_methylthioribose_ 98.0 0.00078 1.7E-08 71.9 22.0 199 33-247 1-208 (273)
130 cd06310 PBP1_ABC_sugar_binding 98.0 0.0019 4.1E-08 68.9 24.2 209 33-257 1-217 (273)
131 PRK10936 TMAO reductase system 97.9 0.0048 1E-07 68.2 27.1 200 29-246 44-254 (343)
132 cd01545 PBP1_SalR Ligand-bindi 97.9 0.00084 1.8E-08 71.5 20.5 207 34-257 2-215 (270)
133 PF13407 Peripla_BP_4: Peripla 97.9 0.001 2.2E-08 70.4 20.8 202 34-249 1-209 (257)
134 cd06309 PBP1_YtfQ_like Peripla 97.9 0.0018 3.9E-08 69.1 22.8 208 33-255 1-218 (273)
135 COG1879 RbsB ABC-type sugar tr 97.8 0.0069 1.5E-07 66.4 25.7 204 31-248 33-245 (322)
136 cd06289 PBP1_MalI_like Ligand- 97.8 0.002 4.3E-08 68.5 19.7 201 33-250 1-206 (268)
137 cd06284 PBP1_LacI_like_6 Ligan 97.7 0.0031 6.7E-08 66.9 20.8 198 34-250 2-204 (267)
138 cd06298 PBP1_CcpA_like Ligand- 97.7 0.0024 5.3E-08 67.8 20.0 207 33-257 1-213 (268)
139 PRK15395 methyl-galactoside AB 97.7 0.011 2.4E-07 65.0 25.5 207 29-246 22-249 (330)
140 cd01539 PBP1_GGBP Periplasmic 97.7 0.0081 1.8E-07 65.2 23.3 208 33-249 1-228 (303)
141 PRK09701 D-allose transporter 97.6 0.032 6.8E-07 60.8 27.3 203 33-247 26-241 (311)
142 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0049 1.1E-07 65.5 20.2 202 34-254 2-213 (268)
143 cd06303 PBP1_LuxPQ_Quorum_Sens 97.6 0.011 2.4E-07 63.4 23.0 211 33-256 1-223 (280)
144 cd06321 PBP1_ABC_sugar_binding 97.6 0.011 2.3E-07 63.0 22.5 206 33-257 1-214 (271)
145 cd06308 PBP1_sensor_kinase_lik 97.6 0.015 3.1E-07 62.0 23.2 207 33-257 1-216 (270)
146 TIGR01481 ccpA catabolite cont 97.6 0.0073 1.6E-07 66.4 21.4 202 30-251 58-265 (329)
147 cd01540 PBP1_arabinose_binding 97.6 0.013 2.8E-07 63.1 22.8 214 33-257 1-229 (289)
148 cd06311 PBP1_ABC_sugar_binding 97.6 0.021 4.6E-07 60.8 24.2 202 34-247 2-210 (274)
149 cd06288 PBP1_sucrose_transcrip 97.6 0.0061 1.3E-07 64.8 19.8 205 33-256 1-211 (269)
150 cd01575 PBP1_GntR Ligand-bindi 97.5 0.0096 2.1E-07 63.2 20.8 201 34-252 2-207 (268)
151 cd06275 PBP1_PurR Ligand-bindi 97.5 0.01 2.2E-07 63.0 20.9 205 34-255 2-211 (269)
152 cd06322 PBP1_ABC_sugar_binding 97.5 0.023 5E-07 60.2 23.5 194 34-246 2-203 (267)
153 cd01542 PBP1_TreR_like Ligand- 97.5 0.0098 2.1E-07 62.8 20.1 200 34-256 2-207 (259)
154 PRK10355 xylF D-xylose transpo 97.5 0.038 8.3E-07 60.7 25.1 202 29-247 23-236 (330)
155 cd06283 PBP1_RegR_EndR_KdgR_li 97.5 0.014 3.1E-07 61.8 21.3 203 34-254 2-210 (267)
156 PRK15408 autoinducer 2-binding 97.5 0.053 1.2E-06 59.5 26.0 200 32-246 24-233 (336)
157 cd06295 PBP1_CelR Ligand bindi 97.5 0.01 2.2E-07 63.3 20.1 201 32-254 4-218 (275)
158 cd06316 PBP1_ABC_sugar_binding 97.4 0.033 7.2E-07 60.1 23.7 212 33-257 1-219 (294)
159 cd06306 PBP1_TorT-like TorT-li 97.4 0.032 6.9E-07 59.3 23.0 196 33-246 1-207 (268)
160 cd06324 PBP1_ABC_sugar_binding 97.4 0.027 5.8E-07 61.2 22.4 210 34-257 2-238 (305)
161 PRK10703 DNA-binding transcrip 97.4 0.016 3.4E-07 64.1 20.7 208 31-255 59-272 (341)
162 cd01538 PBP1_ABC_xylose_bindin 97.4 0.038 8.2E-07 59.4 23.1 199 33-248 1-216 (288)
163 cd06293 PBP1_LacI_like_11 Liga 97.4 0.025 5.4E-07 60.1 21.3 205 33-255 1-210 (269)
164 cd06278 PBP1_LacI_like_2 Ligan 97.3 0.019 4.1E-07 60.8 20.3 191 34-245 2-197 (266)
165 cd01574 PBP1_LacI Ligand-bindi 97.3 0.038 8.2E-07 58.5 22.5 200 34-254 2-206 (264)
166 cd06281 PBP1_LacI_like_5 Ligan 97.3 0.016 3.5E-07 61.6 19.6 200 33-251 1-205 (269)
167 cd06270 PBP1_GalS_like Ligand 97.3 0.029 6.3E-07 59.5 21.5 201 33-251 1-206 (268)
168 PRK10014 DNA-binding transcrip 97.3 0.028 6.2E-07 62.1 22.1 202 30-249 63-270 (342)
169 cd06299 PBP1_LacI_like_13 Liga 97.3 0.018 3.8E-07 61.0 19.7 205 33-255 1-208 (265)
170 cd06285 PBP1_LacI_like_7 Ligan 97.3 0.023 5.1E-07 60.1 20.3 197 33-250 1-203 (265)
171 PF00532 Peripla_BP_1: Peripla 97.3 0.017 3.6E-07 61.7 19.0 204 33-254 3-213 (279)
172 cd06313 PBP1_ABC_sugar_binding 97.3 0.06 1.3E-06 57.3 23.3 184 47-246 16-207 (272)
173 PRK11303 DNA-binding transcrip 97.3 0.043 9.3E-07 60.3 22.7 205 30-254 60-270 (328)
174 cd06274 PBP1_FruR Ligand bindi 97.3 0.039 8.4E-07 58.4 21.5 204 34-255 2-211 (264)
175 cd06294 PBP1_ycjW_transcriptio 97.3 0.027 5.8E-07 59.8 20.2 200 34-251 2-212 (270)
176 COG1609 PurR Transcriptional r 97.2 0.05 1.1E-06 59.7 22.5 201 30-250 57-265 (333)
177 cd06296 PBP1_CatR_like Ligand- 97.2 0.03 6.5E-07 59.5 20.4 205 34-256 2-213 (270)
178 cd06318 PBP1_ABC_sugar_binding 97.2 0.087 1.9E-06 56.3 24.0 200 33-247 1-215 (282)
179 cd06292 PBP1_LacI_like_10 Liga 97.2 0.041 8.9E-07 58.5 21.2 206 34-255 2-214 (273)
180 cd06307 PBP1_uncharacterized_s 97.2 0.12 2.6E-06 55.0 24.4 209 33-256 1-218 (275)
181 cd06314 PBP1_tmGBP Periplasmic 97.2 0.14 3.1E-06 54.3 24.8 196 33-247 1-204 (271)
182 PF12974 Phosphonate-bd: ABC t 97.1 0.0029 6.2E-08 66.2 10.8 121 682-808 95-230 (243)
183 PRK10423 transcriptional repre 97.1 0.056 1.2E-06 59.3 21.7 207 30-255 55-268 (327)
184 PRK11553 alkanesulfonate trans 97.1 0.0026 5.6E-08 69.5 10.6 71 682-758 119-193 (314)
185 cd06354 PBP1_BmpA_PnrA_like Pe 97.1 0.064 1.4E-06 56.9 21.1 195 33-245 1-206 (265)
186 cd01541 PBP1_AraR Ligand-bindi 97.1 0.051 1.1E-06 57.8 20.4 205 34-255 2-216 (273)
187 TIGR02417 fruct_sucro_rep D-fr 97.1 0.063 1.4E-06 58.9 21.6 203 31-254 60-269 (327)
188 PF04392 ABC_sub_bind: ABC tra 97.1 0.028 6.1E-07 60.6 18.3 184 33-230 1-193 (294)
189 cd06302 PBP1_LsrB_Quorum_Sensi 97.1 0.16 3.4E-06 55.0 24.0 199 33-247 1-210 (298)
190 cd06277 PBP1_LacI_like_1 Ligan 97.1 0.057 1.2E-06 57.3 20.3 198 33-250 1-205 (268)
191 PRK10727 DNA-binding transcrip 97.1 0.062 1.3E-06 59.5 21.2 207 30-255 58-270 (343)
192 cd06272 PBP1_hexuronate_repres 97.1 0.045 9.7E-07 57.8 19.3 198 33-253 1-203 (261)
193 cd06304 PBP1_BmpA_like Peripla 97.0 0.071 1.5E-06 56.3 20.7 198 33-245 1-202 (260)
194 cd06290 PBP1_LacI_like_9 Ligan 97.0 0.063 1.4E-06 56.8 20.4 199 33-251 1-205 (265)
195 cd06286 PBP1_CcpB_like Ligand- 97.0 0.048 1E-06 57.5 19.4 199 33-252 1-205 (260)
196 cd06280 PBP1_LacI_like_4 Ligan 97.0 0.081 1.8E-06 55.9 20.9 200 33-255 1-205 (263)
197 cd06291 PBP1_Qymf_like Ligand 97.0 0.075 1.6E-06 56.2 20.6 196 33-252 1-203 (265)
198 TIGR02955 TMAO_TorT TMAO reduc 97.0 0.15 3.3E-06 55.0 22.8 195 33-246 1-207 (295)
199 cd06297 PBP1_LacI_like_12 Liga 96.9 0.081 1.8E-06 56.2 19.8 200 34-255 2-213 (269)
200 cd06279 PBP1_LacI_like_3 Ligan 96.9 0.084 1.8E-06 56.5 20.1 194 34-250 2-223 (283)
201 cd01543 PBP1_XylR Ligand-bindi 96.9 0.052 1.1E-06 57.5 18.0 201 33-257 1-207 (265)
202 PRK14987 gluconate operon tran 96.8 0.16 3.4E-06 55.9 21.7 206 31-255 63-272 (331)
203 PRK09526 lacI lac repressor; R 96.8 0.23 4.9E-06 54.9 22.7 203 31-254 63-272 (342)
204 TIGR01729 taurine_ABC_bnd taur 96.8 0.0064 1.4E-07 65.9 10.0 70 682-758 90-164 (300)
205 PRK09492 treR trehalose repres 96.6 0.24 5.2E-06 54.0 21.2 192 30-246 61-256 (315)
206 PRK11041 DNA-binding transcrip 96.5 0.3 6.4E-06 53.0 21.2 207 30-255 34-246 (309)
207 PRK10401 DNA-binding transcrip 96.5 0.35 7.5E-06 53.6 22.0 206 31-255 59-270 (346)
208 TIGR02634 xylF D-xylose ABC tr 96.3 0.75 1.6E-05 49.8 22.6 197 34-247 1-209 (302)
209 TIGR02637 RhaS rhamnose ABC tr 96.2 1.7 3.8E-05 46.8 24.5 198 34-247 1-210 (302)
210 cd01544 PBP1_GalR Ligand-bindi 96.1 0.29 6.2E-06 52.0 17.9 197 33-254 1-211 (270)
211 PF13379 NMT1_2: NMT1-like fam 95.9 0.047 1E-06 57.4 10.4 74 682-760 104-189 (252)
212 TIGR03427 ABC_peri_uca ABC tra 95.9 0.033 7.1E-07 60.6 9.2 68 684-758 98-170 (328)
213 TIGR02405 trehalos_R_Ecol treh 95.8 1.2 2.6E-05 48.4 21.4 190 31-246 59-253 (311)
214 cd06353 PBP1_BmpA_Med_like Per 95.3 0.59 1.3E-05 49.2 16.0 195 33-245 1-200 (258)
215 cd05466 PBP2_LTTR_substrate Th 95.3 0.62 1.3E-05 45.5 15.6 70 494-575 13-82 (197)
216 cd06315 PBP1_ABC_sugar_binding 95.3 2.6 5.7E-05 44.9 21.5 202 33-249 2-216 (280)
217 COG3221 PhnD ABC-type phosphat 95.0 0.51 1.1E-05 50.2 14.2 110 682-797 134-260 (299)
218 TIGR02122 TRAP_TAXI TRAP trans 94.8 0.1 2.2E-06 57.0 8.8 60 682-748 131-197 (320)
219 cd08418 PBP2_TdcA The C-termin 94.6 1.8 4E-05 42.7 16.9 73 493-575 12-84 (201)
220 cd08468 PBP2_Pa0477 The C-term 94.6 1.2 2.5E-05 44.5 15.4 73 494-575 13-85 (202)
221 PF09084 NMT1: NMT1/THI5 like; 94.5 0.16 3.4E-06 51.9 8.9 59 682-746 83-145 (216)
222 cd08421 PBP2_LTTR_like_1 The C 94.4 2 4.4E-05 42.3 16.7 70 494-575 13-82 (198)
223 cd06287 PBP1_LacI_like_8 Ligan 94.4 4.2 9.2E-05 43.0 19.8 155 92-255 52-211 (269)
224 cd08459 PBP2_DntR_NahR_LinR_li 94.3 1.4 3E-05 43.8 15.1 70 494-575 13-82 (201)
225 cd08440 PBP2_LTTR_like_4 TThe 94.3 2.6 5.5E-05 41.3 17.0 71 493-575 12-82 (197)
226 cd08442 PBP2_YofA_SoxR_like Th 94.2 2.2 4.8E-05 41.8 16.3 71 493-575 12-82 (193)
227 PF03466 LysR_substrate: LysR 94.2 1 2.2E-05 45.0 13.9 195 468-796 6-205 (209)
228 COG1744 Med Uncharacterized AB 94.1 7.9 0.00017 42.4 21.1 217 14-247 15-245 (345)
229 cd08463 PBP2_DntR_like_4 The C 93.8 2.6 5.6E-05 42.1 16.1 72 493-575 12-83 (203)
230 cd08420 PBP2_CysL_like C-termi 93.7 3.5 7.7E-05 40.4 16.7 71 493-575 12-82 (201)
231 CHL00180 rbcR LysR transcripti 93.5 2.9 6.4E-05 45.2 17.0 86 468-575 95-180 (305)
232 cd08438 PBP2_CidR The C-termin 93.5 3.8 8.2E-05 40.2 16.5 70 494-575 13-82 (197)
233 cd08435 PBP2_GbpR The C-termin 93.4 5.5 0.00012 39.1 17.6 72 494-575 13-84 (201)
234 cd08412 PBP2_PAO1_like The C-t 93.3 3.3 7.2E-05 40.6 15.9 71 493-575 12-82 (198)
235 cd08433 PBP2_Nac The C-teminal 93.3 4.5 9.7E-05 39.8 16.8 70 494-575 13-82 (198)
236 PRK12684 transcriptional regul 93.3 2.9 6.3E-05 45.4 16.4 206 467-808 92-303 (313)
237 PRK11151 DNA-binding transcrip 93.2 3.4 7.4E-05 44.7 16.9 83 468-575 91-173 (305)
238 cd08466 PBP2_LeuO The C-termin 93.1 2.9 6.3E-05 41.3 15.0 70 494-575 13-82 (200)
239 cd08461 PBP2_DntR_like_3 The C 92.9 3.4 7.5E-05 40.6 15.2 71 493-575 12-82 (198)
240 TIGR01728 SsuA_fam ABC transpo 92.5 0.5 1.1E-05 50.6 8.9 71 682-758 91-165 (288)
241 PRK11242 DNA-binding transcrip 92.4 4.5 9.8E-05 43.4 16.3 83 468-575 91-173 (296)
242 cd08434 PBP2_GltC_like The sub 92.3 7 0.00015 38.1 16.5 70 494-575 13-82 (195)
243 cd08419 PBP2_CbbR_RubisCO_like 92.1 8.5 0.00018 37.6 16.9 70 494-575 12-81 (197)
244 cd08415 PBP2_LysR_opines_like 92.1 6.4 0.00014 38.5 15.9 71 493-575 12-82 (196)
245 cd08413 PBP2_CysB_like The C-t 92.0 5.2 0.00011 39.5 15.2 72 493-575 12-83 (198)
246 cd08426 PBP2_LTTR_like_5 The C 91.8 9 0.00019 37.6 16.7 70 494-575 13-82 (199)
247 PRK10339 DNA-binding transcrip 91.7 11 0.00023 41.2 18.6 147 95-252 113-264 (327)
248 cd08417 PBP2_Nitroaromatics_li 91.6 5.4 0.00012 39.2 14.9 70 494-575 13-82 (200)
249 TIGR02990 ectoine_eutA ectoine 91.6 1.8 3.9E-05 44.6 11.2 89 152-243 108-203 (239)
250 PRK09791 putative DNA-binding 91.6 5 0.00011 43.3 15.6 85 468-575 95-179 (302)
251 TIGR02424 TF_pcaQ pca operon t 91.4 6.6 0.00014 42.2 16.3 86 467-575 92-177 (300)
252 COG4213 XylF ABC-type xylose t 91.4 21 0.00046 37.5 19.3 207 27-249 21-244 (341)
253 PRK12683 transcriptional regul 91.0 7.6 0.00017 42.0 16.2 84 468-575 93-176 (309)
254 cd08462 PBP2_NodD The C-termin 91.0 5.5 0.00012 39.4 14.2 69 494-575 13-81 (200)
255 PRK12679 cbl transcriptional r 90.9 10 0.00022 41.2 17.1 207 468-810 93-306 (316)
256 cd08460 PBP2_DntR_like_1 The C 90.9 3 6.4E-05 41.3 12.1 70 493-575 12-81 (200)
257 PRK12681 cysB transcriptional 90.9 5.7 0.00012 43.4 15.1 85 467-575 92-176 (324)
258 cd08436 PBP2_LTTR_like_3 The C 90.8 13 0.00029 36.0 16.6 71 494-575 13-83 (194)
259 PF07885 Ion_trans_2: Ion chan 90.5 0.25 5.5E-06 41.1 3.1 55 622-676 22-78 (79)
260 PRK10837 putative DNA-binding 90.4 13 0.00029 39.6 17.3 83 468-575 89-171 (290)
261 cd06276 PBP1_FucR_like Ligand- 90.3 16 0.00034 38.0 17.3 143 89-252 45-192 (247)
262 cd08443 PBP2_CysB The C-termin 90.2 16 0.00035 35.9 16.8 72 493-575 12-83 (198)
263 cd08465 PBP2_ToxR The C-termin 89.7 7.3 0.00016 38.6 13.8 71 493-575 12-82 (200)
264 cd08444 PBP2_Cbl The C-termina 89.7 15 0.00033 36.0 16.2 72 493-575 12-83 (198)
265 cd08467 PBP2_SyrM The C-termin 89.6 13 0.00028 36.6 15.6 71 493-575 12-82 (200)
266 cd08464 PBP2_DntR_like_2 The C 89.6 9.5 0.00021 37.4 14.6 70 494-575 13-82 (200)
267 cd08411 PBP2_OxyR The C-termin 89.5 10 0.00022 37.3 14.6 70 494-575 14-83 (200)
268 PRK11480 tauA taurine transpor 89.5 2 4.3E-05 46.9 10.0 67 682-755 112-183 (320)
269 TIGR00787 dctP tripartite ATP- 89.4 1.3 2.9E-05 46.5 8.3 102 682-795 126-230 (257)
270 cd08456 PBP2_LysR The C-termin 89.3 13 0.00029 36.2 15.3 71 493-575 12-82 (196)
271 cd08449 PBP2_XapR The C-termin 89.2 19 0.00042 35.0 16.4 72 494-575 13-84 (197)
272 cd08423 PBP2_LTTR_like_6 The C 89.0 13 0.00027 36.4 14.9 73 494-575 13-87 (200)
273 cd08429 PBP2_NhaR The C-termin 88.9 19 0.00041 35.8 16.2 71 494-573 13-83 (204)
274 PRK12682 transcriptional regul 88.8 15 0.00032 39.8 16.2 84 468-575 93-176 (309)
275 cd08441 PBP2_MetR The C-termin 88.5 17 0.00037 35.5 15.5 69 495-575 14-82 (198)
276 cd06353 PBP1_BmpA_Med_like Per 88.3 2.3 5E-05 44.7 9.1 86 33-127 122-207 (258)
277 PF02608 Bmp: Basic membrane p 88.3 41 0.00089 36.3 19.4 199 32-246 2-212 (306)
278 cd08427 PBP2_LTTR_like_2 The C 88.0 17 0.00036 35.4 15.0 72 494-575 13-84 (195)
279 cd08425 PBP2_CynR The C-termin 88.0 20 0.00043 35.0 15.6 70 494-575 14-83 (197)
280 cd08458 PBP2_NocR The C-termin 88.0 24 0.00051 34.6 16.1 70 494-575 13-82 (196)
281 cd08457 PBP2_OccR The C-termin 87.8 28 0.00062 33.9 16.9 70 493-574 12-81 (196)
282 cd08448 PBP2_LTTR_aromatics_li 87.8 25 0.00054 34.1 16.1 70 494-575 13-82 (197)
283 TIGR01256 modA molybdenum ABC 87.6 5 0.00011 40.7 11.0 72 720-796 132-204 (216)
284 cd08437 PBP2_MleR The substrat 87.5 23 0.00049 34.7 15.6 72 494-575 13-84 (198)
285 PRK11233 nitrogen assimilation 87.1 12 0.00025 40.5 14.1 83 468-574 91-173 (305)
286 PF13531 SBP_bac_11: Bacterial 86.9 4.6 9.9E-05 41.5 10.3 195 492-807 9-226 (230)
287 PRK11482 putative DNA-binding 86.7 20 0.00044 38.9 15.8 81 468-575 117-197 (317)
288 cd08469 PBP2_PnbR The C-termin 86.7 18 0.0004 36.2 14.7 70 494-575 13-82 (221)
289 PF13377 Peripla_BP_3: Peripla 86.5 1.6 3.4E-05 41.9 6.2 98 156-255 1-101 (160)
290 PRK12680 transcriptional regul 86.1 28 0.0006 38.1 16.5 84 468-575 93-176 (327)
291 PRK10341 DNA-binding transcrip 86.1 18 0.00039 39.1 15.0 85 468-575 97-181 (312)
292 cd08414 PBP2_LTTR_aromatics_li 85.9 35 0.00076 33.0 16.5 70 494-575 13-82 (197)
293 cd08486 PBP2_CbnR The C-termin 85.9 27 0.00058 34.4 15.1 70 494-575 14-83 (198)
294 TIGR00363 lipoprotein, YaeC fa 85.7 13 0.00029 38.8 12.9 121 682-808 106-250 (258)
295 cd08445 PBP2_BenM_CatM_CatR Th 85.5 35 0.00076 33.5 15.9 71 493-575 13-83 (203)
296 PF03480 SBP_bac_7: Bacterial 85.4 1.6 3.4E-05 46.8 6.1 89 682-782 126-215 (286)
297 PF03808 Glyco_tran_WecB: Glyc 85.2 12 0.00027 36.4 11.7 99 151-259 36-136 (172)
298 PRK11063 metQ DL-methionine tr 84.5 13 0.00028 39.3 12.2 67 682-755 119-209 (271)
299 cd08430 PBP2_IlvY The C-termin 84.1 43 0.00093 32.5 17.4 72 493-575 12-83 (199)
300 COG0715 TauA ABC-type nitrate/ 83.9 5.4 0.00012 43.8 9.7 71 682-759 126-202 (335)
301 COG3473 Maleate cis-trans isom 83.2 50 0.0011 32.6 14.1 88 153-243 107-201 (238)
302 COG1454 EutG Alcohol dehydroge 83.0 8.9 0.00019 42.2 10.5 92 152-243 17-110 (377)
303 PRK09508 leuO leucine transcri 82.2 17 0.00037 39.3 12.7 84 467-575 111-194 (314)
304 PRK10094 DNA-binding transcrip 81.9 44 0.00096 36.1 15.7 70 496-575 108-177 (308)
305 PRK11013 DNA-binding transcrip 81.8 43 0.00093 36.1 15.6 83 468-575 94-176 (309)
306 PRK09860 putative alcohol dehy 81.7 5.9 0.00013 44.3 8.9 88 153-240 20-109 (383)
307 PRK11062 nhaR transcriptional 81.4 36 0.00079 36.4 14.8 85 468-574 93-177 (296)
308 PRK11074 putative DNA-binding 81.4 36 0.00077 36.6 14.8 85 468-575 92-176 (300)
309 COG1910 Periplasmic molybdate- 80.9 22 0.00047 35.3 11.1 107 682-800 87-202 (223)
310 TIGR03339 phn_lysR aminoethylp 80.7 65 0.0014 33.9 16.4 69 495-575 98-166 (279)
311 cd08416 PBP2_MdcR The C-termin 80.5 58 0.0013 31.6 16.3 73 493-575 12-84 (199)
312 PRK15421 DNA-binding transcrip 80.3 45 0.00097 36.2 15.1 83 468-575 89-171 (317)
313 PRK15454 ethanol dehydrogenase 79.9 6.5 0.00014 44.1 8.5 79 153-231 38-116 (395)
314 COG0078 ArgF Ornithine carbamo 79.9 86 0.0019 33.2 15.7 162 31-227 44-212 (310)
315 cd08453 PBP2_IlvR The C-termin 79.8 62 0.0013 31.5 16.6 73 494-575 13-85 (200)
316 cd06533 Glyco_transf_WecG_TagA 79.8 20 0.00044 34.9 10.8 100 151-258 34-133 (171)
317 cd08451 PBP2_BudR The C-termin 78.9 65 0.0014 31.2 16.6 70 495-575 15-84 (199)
318 cd08190 HOT Hydroxyacid-oxoaci 78.8 8.9 0.00019 43.4 9.2 79 153-231 12-90 (414)
319 PF12727 PBP_like: PBP superfa 78.7 30 0.00064 34.5 11.8 102 682-793 81-190 (193)
320 cd08192 Fe-ADH7 Iron-containin 78.0 9.5 0.00021 42.5 9.0 89 153-241 13-103 (370)
321 PLN02245 ATP phosphoribosyl tr 77.9 16 0.00036 40.2 10.3 93 682-783 177-277 (403)
322 PRK10624 L-1,2-propanediol oxi 77.1 9.7 0.00021 42.6 8.8 86 153-238 19-106 (382)
323 cd08193 HVD 5-hydroxyvalerate 76.1 11 0.00024 42.2 8.8 88 153-240 15-104 (376)
324 cd08551 Fe-ADH iron-containing 76.0 12 0.00027 41.6 9.3 88 153-240 12-101 (370)
325 cd08431 PBP2_HupR The C-termin 75.6 73 0.0016 30.8 14.1 72 493-575 12-83 (195)
326 KOG3857 Alcohol dehydrogenase, 75.2 19 0.00041 38.1 9.3 96 136-231 38-137 (465)
327 cd08189 Fe-ADH5 Iron-containin 75.1 13 0.00028 41.5 9.1 89 153-241 15-105 (374)
328 PRK09861 cytoplasmic membrane 74.8 40 0.00088 35.6 12.2 120 682-808 120-264 (272)
329 cd08194 Fe-ADH6 Iron-containin 74.7 13 0.00029 41.4 9.0 86 153-238 12-99 (375)
330 cd08428 PBP2_IciA_ArgP The C-t 74.3 87 0.0019 30.3 14.8 67 495-574 14-80 (195)
331 PRK03635 chromosome replicatio 73.6 62 0.0014 34.5 13.8 81 468-574 90-170 (294)
332 cd08446 PBP2_Chlorocatechol Th 73.4 92 0.002 30.1 15.9 70 494-575 14-83 (198)
333 TIGR02638 lactal_redase lactal 73.3 14 0.0003 41.3 8.8 86 153-238 18-105 (379)
334 PRK13583 hisG ATP phosphoribos 73.2 34 0.00074 34.7 10.5 93 682-783 109-212 (228)
335 PF13407 Peripla_BP_4: Peripla 73.0 10 0.00022 39.6 7.4 78 167-246 1-81 (257)
336 PRK09986 DNA-binding transcrip 73.0 1.3E+02 0.0029 31.8 16.7 85 468-575 97-181 (294)
337 PF14503 YhfZ_C: YhfZ C-termin 72.9 9.2 0.0002 38.8 6.4 88 694-789 114-208 (232)
338 PRK09906 DNA-binding transcrip 72.8 94 0.002 33.1 15.0 81 470-575 92-172 (296)
339 PF02608 Bmp: Basic membrane p 72.4 17 0.00037 39.3 8.9 89 33-128 128-221 (306)
340 TIGR00035 asp_race aspartate r 72.0 17 0.00036 37.4 8.4 87 81-196 59-146 (229)
341 COG0725 ModA ABC-type molybdat 71.6 55 0.0012 34.3 12.0 177 498-794 46-242 (258)
342 cd08185 Fe-ADH1 Iron-containin 71.1 19 0.00041 40.3 9.2 86 153-239 15-103 (380)
343 PF03401 TctC: Tripartite tric 70.7 47 0.001 35.2 11.6 121 682-807 88-241 (274)
344 PRK03692 putative UDP-N-acetyl 70.4 50 0.0011 34.2 11.3 88 150-243 92-179 (243)
345 PF00465 Fe-ADH: Iron-containi 70.2 11 0.00024 42.0 7.0 89 153-243 12-102 (366)
346 cd08188 Fe-ADH4 Iron-containin 69.7 20 0.00044 40.0 9.0 86 153-238 17-104 (377)
347 PF06506 PrpR_N: Propionate ca 69.6 96 0.0021 30.2 12.8 128 80-247 17-145 (176)
348 cd08450 PBP2_HcaR The C-termin 69.5 1.1E+02 0.0024 29.4 15.3 70 494-575 13-82 (196)
349 PRK11716 DNA-binding transcrip 69.4 1.1E+02 0.0024 31.8 14.4 83 468-574 67-149 (269)
350 cd08447 PBP2_LTTR_aromatics_li 69.1 1.1E+02 0.0024 29.4 15.9 70 493-574 12-81 (198)
351 PRK10677 modA molybdate transp 69.1 27 0.00058 36.7 9.3 71 496-575 41-117 (257)
352 PRK00945 acetyl-CoA decarbonyl 68.9 36 0.00078 32.9 9.1 120 89-218 27-168 (171)
353 PRK10200 putative racemase; Pr 68.8 57 0.0012 33.5 11.3 87 80-195 58-146 (230)
354 PRK11119 proX glycine betaine 68.4 25 0.00053 38.4 9.1 63 464-548 25-88 (331)
355 cd08452 PBP2_AlsR The C-termin 68.2 1.2E+02 0.0026 29.4 16.6 70 494-575 13-82 (197)
356 cd08181 PPD-like 1,3-propanedi 68.0 23 0.0005 39.2 8.9 77 154-231 16-93 (357)
357 PF13685 Fe-ADH_2: Iron-contai 67.8 25 0.00055 36.5 8.5 98 155-257 10-108 (250)
358 PRK10537 voltage-gated potassi 67.4 5.3 0.00011 44.6 3.7 57 620-676 164-222 (393)
359 TIGR00696 wecB_tagA_cpsF bacte 67.0 73 0.0016 31.2 11.1 86 150-243 35-122 (177)
360 cd08176 LPO Lactadehyde:propan 66.8 20 0.00044 40.0 8.3 86 153-238 17-104 (377)
361 TIGR03298 argP transcriptional 66.7 1.7E+02 0.0037 31.0 15.4 64 498-574 107-170 (292)
362 cd08170 GlyDH Glycerol dehydro 66.3 20 0.00043 39.6 8.1 76 153-231 12-87 (351)
363 cd08432 PBP2_GcdR_TrpI_HvrB_Am 66.3 50 0.0011 31.8 10.4 66 494-574 13-78 (194)
364 COG1638 DctP TRAP-type C4-dica 66.0 17 0.00037 39.6 7.2 103 682-799 157-265 (332)
365 cd08485 PBP2_ClcR The C-termin 65.9 1.4E+02 0.0029 29.1 15.8 69 494-574 14-82 (198)
366 PRK13348 chromosome replicatio 64.8 1.5E+02 0.0034 31.4 14.6 64 498-574 107-170 (294)
367 PRK07475 hypothetical protein; 64.1 35 0.00076 35.4 8.8 120 80-231 61-206 (245)
368 cd08191 HHD 6-hydroxyhexanoate 63.4 33 0.00071 38.5 9.1 86 153-239 12-99 (386)
369 COG1794 RacX Aspartate racemas 63.2 1.3E+02 0.0028 30.4 11.8 86 81-196 59-146 (230)
370 COG1744 Med Uncharacterized AB 63.0 1.1E+02 0.0025 33.5 12.9 75 31-111 161-235 (345)
371 cd08182 HEPD Hydroxyethylphosp 62.9 33 0.00071 38.2 9.0 86 153-241 12-99 (367)
372 cd08171 GlyDH-like2 Glycerol d 61.9 31 0.00068 37.9 8.5 84 153-238 12-97 (345)
373 PF01177 Asp_Glu_race: Asp/Glu 61.8 1.8E+02 0.0039 29.2 13.7 123 91-243 60-198 (216)
374 TIGR00315 cdhB CO dehydrogenas 61.8 60 0.0013 31.1 9.1 120 89-218 20-160 (162)
375 PRK03515 ornithine carbamoyltr 61.3 2.5E+02 0.0054 30.7 15.3 133 32-199 46-188 (336)
376 cd06301 PBP1_rhizopine_binding 61.1 32 0.00068 36.1 8.2 78 166-246 1-82 (272)
377 cd01537 PBP1_Repressors_Sugar_ 61.0 34 0.00074 35.3 8.5 77 167-246 2-80 (264)
378 cd08186 Fe-ADH8 Iron-containin 60.7 37 0.0008 38.0 8.9 87 153-239 12-104 (383)
379 cd07766 DHQ_Fe-ADH Dehydroquin 60.5 40 0.00087 36.9 9.1 99 154-257 13-113 (332)
380 cd08187 BDH Butanol dehydrogen 60.4 32 0.0007 38.5 8.4 85 153-238 18-105 (382)
381 TIGR00070 hisG ATP phosphoribo 60.3 42 0.00092 32.8 8.0 75 683-769 100-174 (182)
382 cd06267 PBP1_LacI_sugar_bindin 60.0 39 0.00085 34.9 8.7 76 167-246 2-79 (264)
383 cd06305 PBP1_methylthioribose_ 59.2 39 0.00083 35.4 8.5 77 167-246 2-81 (273)
384 PLN03192 Voltage-dependent pot 58.8 6.1 0.00013 49.3 2.5 53 625-677 251-305 (823)
385 PF07302 AroM: AroM protein; 58.4 1.5E+02 0.0032 30.1 11.5 88 147-241 111-200 (221)
386 PF12683 DUF3798: Protein of u 57.8 2.4E+02 0.0052 29.4 16.3 206 31-246 2-224 (275)
387 PRK11139 DNA-binding transcrip 57.8 1.4E+02 0.003 31.9 12.6 101 685-793 181-286 (297)
388 PRK03601 transcriptional regul 57.7 2E+02 0.0044 30.2 13.7 83 468-575 89-171 (275)
389 KOG1419 Voltage-gated K+ chann 57.4 13 0.00029 41.8 4.4 89 589-677 234-324 (654)
390 PRK09423 gldA glycerol dehydro 57.3 38 0.00083 37.6 8.3 83 153-238 19-103 (366)
391 cd08422 PBP2_CrgA_like The C-t 57.0 52 0.0011 31.7 8.5 67 493-574 13-79 (197)
392 TIGR03414 ABC_choline_bnd chol 56.5 1.4E+02 0.003 32.0 12.0 56 468-545 8-63 (290)
393 TIGR03316 ygeW probable carbam 56.2 3.1E+02 0.0068 30.2 16.6 139 33-199 44-208 (357)
394 PF00625 Guanylate_kin: Guanyl 55.7 1.6E+02 0.0034 28.9 11.6 129 96-244 3-135 (183)
395 cd06289 PBP1_MalI_like Ligand- 55.5 56 0.0012 34.0 9.0 77 167-246 2-80 (268)
396 cd06282 PBP1_GntR_like_2 Ligan 55.1 60 0.0013 33.7 9.1 77 167-246 2-80 (266)
397 PRK14805 ornithine carbamoyltr 55.1 3E+02 0.0065 29.6 15.0 132 32-199 39-178 (302)
398 COG1880 CdhB CO dehydrogenase/ 55.0 1.8E+02 0.0038 27.5 10.3 122 88-218 27-168 (170)
399 KOG3713 Voltage-gated K+ chann 54.5 16 0.00034 40.9 4.4 60 602-665 359-420 (477)
400 COG1464 NlpA ABC-type metal io 54.3 67 0.0014 33.3 8.5 60 17-87 16-75 (268)
401 cd08183 Fe-ADH2 Iron-containin 54.3 53 0.0011 36.7 8.8 81 154-239 13-95 (374)
402 cd01536 PBP1_ABC_sugar_binding 53.9 55 0.0012 33.9 8.6 77 166-245 1-80 (267)
403 cd01324 cbb3_Oxidase_CcoQ Cyto 53.1 15 0.00032 27.1 2.7 28 589-616 11-38 (48)
404 cd06304 PBP1_BmpA_like Peripla 53.0 1.7E+02 0.0038 30.3 12.2 127 32-167 121-247 (260)
405 cd06306 PBP1_TorT-like TorT-li 52.9 51 0.0011 34.5 8.1 80 166-246 1-82 (268)
406 cd06277 PBP1_LacI_like_1 Ligan 52.2 77 0.0017 33.0 9.4 75 167-246 2-81 (268)
407 cd08550 GlyDH-like Glycerol_de 52.0 55 0.0012 36.1 8.4 83 153-238 12-96 (349)
408 cd00423 Pterin_binding Pterin 51.8 1.5E+02 0.0032 31.1 11.1 20 153-173 110-129 (258)
409 cd06299 PBP1_LacI_like_13 Liga 51.0 85 0.0018 32.6 9.5 76 167-246 2-79 (265)
410 cd01538 PBP1_ABC_xylose_bindin 50.9 73 0.0016 33.8 9.0 77 167-246 2-81 (288)
411 PF04273 DUF442: Putative phos 50.8 1.8E+02 0.0039 25.8 10.1 79 159-238 23-103 (110)
412 cd01545 PBP1_SalR Ligand-bindi 50.5 80 0.0017 32.9 9.2 78 167-246 2-81 (270)
413 KOG1545 Voltage-gated shaker-l 50.2 11 0.00023 40.0 2.2 87 576-662 343-433 (507)
414 PRK15116 sulfur acceptor prote 50.1 2.3E+02 0.005 29.8 12.0 87 43-145 80-167 (268)
415 cd06312 PBP1_ABC_sugar_binding 50.0 61 0.0013 34.0 8.2 79 166-246 1-83 (271)
416 cd06322 PBP1_ABC_sugar_binding 49.8 67 0.0014 33.5 8.4 77 167-246 2-81 (267)
417 PRK15408 autoinducer 2-binding 49.6 66 0.0014 35.3 8.5 82 163-246 22-106 (336)
418 PRK05452 anaerobic nitric oxid 49.5 4.1E+02 0.0088 30.8 15.1 130 100-248 198-337 (479)
419 cd06318 PBP1_ABC_sugar_binding 49.4 68 0.0015 33.7 8.5 77 167-246 2-81 (282)
420 PF06084 Cytomega_TRL10: Cytom 49.3 21 0.00045 30.8 3.4 78 830-911 52-129 (150)
421 cd06303 PBP1_LuxPQ_Quorum_Sens 49.2 55 0.0012 34.6 7.7 79 167-245 2-84 (280)
422 cd01391 Periplasmic_Binding_Pr 49.2 61 0.0013 33.2 8.0 78 166-246 1-83 (269)
423 PF00205 TPP_enzyme_M: Thiamin 48.3 17 0.00036 33.8 3.1 58 87-145 2-63 (137)
424 cd06281 PBP1_LacI_like_5 Ligan 47.9 97 0.0021 32.3 9.3 76 167-245 2-79 (269)
425 PRK01686 hisG ATP phosphoribos 47.7 1.7E+02 0.0037 29.5 10.2 91 694-795 115-207 (215)
426 cd08178 AAD_C C-terminal alcoh 47.6 66 0.0014 36.2 8.3 78 162-239 19-98 (398)
427 PRK15395 methyl-galactoside AB 47.6 2E+02 0.0043 31.3 11.9 124 29-161 160-293 (330)
428 PF14981 FAM165: FAM165 family 47.5 40 0.00087 24.0 3.9 33 828-860 3-35 (51)
429 COG2358 Imp TRAP-type uncharac 47.0 1.5E+02 0.0033 31.9 10.1 79 682-766 127-214 (321)
430 cd08483 PBP2_HvrB The C-termin 46.3 2.7E+02 0.0058 26.5 12.2 64 495-573 14-77 (190)
431 PRK11303 DNA-binding transcrip 46.1 1.3E+02 0.0029 32.4 10.3 80 164-246 61-142 (328)
432 cd08475 PBP2_CrgA_like_6 The C 45.9 1.9E+02 0.0041 27.7 10.7 67 720-792 128-196 (199)
433 TIGR02122 TRAP_TAXI TRAP trans 45.3 4.1E+02 0.009 28.4 14.6 40 1-41 1-41 (320)
434 cd08175 G1PDH Glycerol-1-phosp 45.0 85 0.0018 34.6 8.5 84 153-238 12-99 (348)
435 cd02071 MM_CoA_mut_B12_BD meth 44.9 1.5E+02 0.0032 26.9 8.6 71 170-246 5-79 (122)
436 PF15050 SCIMP: SCIMP protein 44.8 1.1E+02 0.0024 27.1 7.0 11 840-850 19-29 (133)
437 PRK00865 glutamate racemase; P 44.8 2.4E+02 0.0053 29.5 11.5 36 90-125 61-96 (261)
438 COG0563 Adk Adenylate kinase a 44.5 68 0.0015 31.4 6.7 29 98-126 3-31 (178)
439 PRK14498 putative molybdopteri 43.7 1.6E+02 0.0034 35.6 11.1 67 162-231 184-262 (633)
440 PRK12562 ornithine carbamoyltr 43.7 4.7E+02 0.01 28.6 15.5 132 32-198 46-187 (334)
441 PRK10014 DNA-binding transcrip 43.4 1.5E+02 0.0032 32.3 10.2 79 165-246 65-145 (342)
442 cd06310 PBP1_ABC_sugar_binding 43.2 85 0.0018 32.8 8.0 80 166-246 1-83 (273)
443 cd00338 Ser_Recombinase Serine 42.9 2.6E+02 0.0057 25.4 11.1 27 147-174 15-41 (137)
444 cd00755 YgdL_like Family of ac 42.8 1.8E+02 0.0039 29.9 9.8 89 42-146 60-149 (231)
445 cd06317 PBP1_ABC_sugar_binding 42.7 1.1E+02 0.0023 32.0 8.7 77 167-246 2-82 (275)
446 cd06295 PBP1_CelR Ligand bindi 42.7 1.4E+02 0.0031 31.1 9.7 78 163-246 2-88 (275)
447 PRK07377 hypothetical protein; 42.6 58 0.0012 31.5 5.5 61 468-544 75-135 (184)
448 PF01634 HisG: ATP phosphoribo 41.8 25 0.00055 33.7 3.1 102 683-796 57-160 (163)
449 cd08481 PBP2_GcdR_like The C-t 41.6 1.8E+02 0.0039 27.7 9.7 65 721-791 124-190 (194)
450 TIGR01744 XPRTase xanthine pho 41.5 62 0.0013 32.1 6.0 71 55-126 4-79 (191)
451 cd06270 PBP1_GalS_like Ligand 40.8 1.5E+02 0.0032 30.8 9.4 76 167-246 2-79 (268)
452 cd01542 PBP1_TreR_like Ligand- 40.6 1.4E+02 0.003 30.8 9.1 75 167-245 2-78 (259)
453 cd06354 PBP1_BmpA_PnrA_like Pe 40.4 4.4E+02 0.0096 27.3 14.1 118 32-155 122-239 (265)
454 cd06296 PBP1_CatR_like Ligand- 40.1 1.4E+02 0.0029 31.1 9.0 75 167-245 2-78 (270)
455 TIGR02667 moaB_proteo molybden 39.9 1.6E+02 0.0034 28.4 8.4 77 163-241 3-88 (163)
456 cd08177 MAR Maleylacetate redu 39.7 91 0.002 34.2 7.6 84 153-239 12-97 (337)
457 PRK00002 aroB 3-dehydroquinate 39.3 2.1E+02 0.0046 31.6 10.5 101 153-257 20-127 (358)
458 PRK10355 xylF D-xylose transpo 39.3 1.4E+02 0.003 32.6 9.0 80 164-246 25-107 (330)
459 cd06316 PBP1_ABC_sugar_binding 39.2 1.1E+02 0.0024 32.4 8.2 79 166-246 1-82 (294)
460 PF15179 Myc_target_1: Myc tar 39.1 53 0.0011 31.5 4.6 38 823-860 13-51 (197)
461 cd06302 PBP1_LsrB_Quorum_Sensi 39.0 1.2E+02 0.0025 32.5 8.3 78 167-246 2-82 (298)
462 cd08470 PBP2_CrgA_like_1 The C 38.9 1.1E+02 0.0023 29.6 7.6 67 721-793 123-191 (197)
463 cd06271 PBP1_AglR_RafR_like Li 38.7 1.5E+02 0.0032 30.7 9.0 76 167-246 2-83 (268)
464 PRK11063 metQ DL-methionine tr 38.7 92 0.002 32.9 7.2 68 16-101 18-85 (271)
465 TIGR02417 fruct_sucro_rep D-fr 38.6 2.2E+02 0.0049 30.6 10.7 79 164-245 60-140 (327)
466 cd06319 PBP1_ABC_sugar_binding 38.1 1.2E+02 0.0026 31.7 8.2 77 167-246 2-81 (277)
467 cd01539 PBP1_GGBP Periplasmic 38.1 1.3E+02 0.0027 32.3 8.4 78 166-246 1-83 (303)
468 cd06274 PBP1_FruR Ligand bindi 38.1 1.6E+02 0.0036 30.4 9.2 76 167-246 2-79 (264)
469 TIGR02370 pyl_corrinoid methyl 37.9 2E+02 0.0043 28.7 9.0 86 166-257 86-175 (197)
470 cd06167 LabA_like LabA_like pr 37.7 3.4E+02 0.0074 25.2 11.9 91 155-246 29-124 (149)
471 TIGR00249 sixA phosphohistidin 37.7 2.4E+02 0.0051 26.7 9.2 98 144-242 23-120 (152)
472 cd06285 PBP1_LacI_like_7 Ligan 37.6 1.9E+02 0.004 30.0 9.5 76 167-246 2-79 (265)
473 cd06273 PBP1_GntR_like_1 This 37.5 1.7E+02 0.0038 30.2 9.3 76 167-246 2-79 (268)
474 COG1922 WecG Teichoic acid bio 37.4 2.4E+02 0.0052 29.2 9.5 99 150-258 95-195 (253)
475 cd06315 PBP1_ABC_sugar_binding 37.4 1.6E+02 0.0034 31.1 8.9 79 165-246 1-82 (280)
476 KOG0025 Zn2+-binding dehydroge 37.2 1.7E+02 0.0037 30.8 8.3 97 139-246 162-258 (354)
477 PRK10936 TMAO reductase system 37.0 1.4E+02 0.003 32.8 8.7 81 164-246 46-129 (343)
478 cd01540 PBP1_arabinose_binding 37.0 1.1E+02 0.0025 32.2 7.9 76 167-246 2-80 (289)
479 PF00532 Peripla_BP_1: Peripla 36.8 1.1E+02 0.0024 32.5 7.5 74 165-242 2-77 (279)
480 PRK15424 propionate catabolism 36.8 5.5E+02 0.012 30.2 13.6 129 80-248 47-176 (538)
481 cd08179 NADPH_BDH NADPH-depend 36.5 68 0.0015 35.8 6.1 79 161-239 20-101 (375)
482 PRK14804 ornithine carbamoyltr 36.4 5.8E+02 0.013 27.5 13.0 132 32-198 44-183 (311)
483 COG1179 Dinucleotide-utilizing 36.4 1.7E+02 0.0038 29.9 8.0 90 42-147 79-169 (263)
484 PRK10653 D-ribose transporter 36.4 1.5E+02 0.0031 31.6 8.6 80 164-246 26-108 (295)
485 cd06278 PBP1_LacI_like_2 Ligan 36.4 1.7E+02 0.0038 30.1 9.1 75 167-246 2-78 (266)
486 PRK10216 DNA-binding transcrip 36.2 5.7E+02 0.012 27.4 16.6 85 468-575 97-188 (319)
487 cd08197 DOIS 2-deoxy-scyllo-in 36.1 3.4E+02 0.0074 30.0 11.3 99 155-257 14-119 (355)
488 cd08549 G1PDH_related Glycerol 36.1 1.5E+02 0.0032 32.4 8.6 85 153-239 12-100 (332)
489 COG2247 LytB Putative cell wal 36.1 5.7E+02 0.012 27.4 13.3 78 96-198 77-160 (337)
490 PRK01713 ornithine carbamoyltr 35.7 6.2E+02 0.013 27.7 15.5 134 32-198 47-187 (334)
491 TIGR01098 3A0109s03R phosphate 35.6 89 0.0019 32.4 6.6 88 1-102 1-91 (254)
492 cd08471 PBP2_CrgA_like_2 The C 35.3 3.1E+02 0.0068 26.2 10.3 67 720-792 126-194 (201)
493 PF02310 B12-binding: B12 bind 35.2 3.2E+02 0.007 24.2 10.1 16 214-229 44-59 (121)
494 cd06325 PBP1_ABC_uncharacteriz 35.2 4.4E+02 0.0095 27.4 12.0 115 30-161 130-247 (281)
495 cd01575 PBP1_GntR Ligand-bindi 35.2 1.8E+02 0.0038 30.1 8.9 76 167-246 2-79 (268)
496 cd06300 PBP1_ABC_sugar_binding 35.1 1.4E+02 0.0031 31.0 8.2 80 166-246 1-86 (272)
497 PF05545 FixQ: Cbb3-type cytoc 35.1 38 0.00083 25.0 2.6 25 590-614 11-35 (49)
498 PRK02255 putrescine carbamoylt 34.9 6.4E+02 0.014 27.6 16.0 132 32-199 43-185 (338)
499 cd06323 PBP1_ribose_binding Pe 34.9 1.3E+02 0.0029 31.1 7.9 77 167-246 2-81 (268)
500 cd06324 PBP1_ABC_sugar_binding 34.9 1.6E+02 0.0034 31.6 8.6 77 167-246 2-83 (305)
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=1.5e-89 Score=715.26 Aligned_cols=778 Identities=20% Similarity=0.349 Sum_probs=629.7
Q ss_pred CCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCC--CEEEEEEecCC-CCHHHHHHHHHHHHhcCcEEEEcCC
Q 002301 28 RPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGG--TKLKLQMQDCN-HSGFLALAEALHLMEGQTVAIIGPQ 104 (940)
Q Consensus 28 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g--~~l~~~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~ 104 (940)
-+..|.||.+||..+. +...|+++|+...|.+..- .. .+|.+++..-. .+.+..+.+.|+-.+++|.||+|-.
T Consensus 23 f~~tiqigglF~~n~~---qe~~Afr~~~~~~~~~~~~-~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~y 98 (897)
T KOG1054|consen 23 FPNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNT-TEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFY 98 (897)
T ss_pred CCCceeeccccCCcch---HHHHHHHHHHHHhhcCCCC-CCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheecc
Confidence 4568999999999763 4567888888777764332 12 34544443222 5777888899999999999999999
Q ss_pred CchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 105 DAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 105 ~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
.-.....+..+|...++|+|+++. |. +...++.+++-|+- -.++++++.||+|.+++.+| |.+-|...++.+
T Consensus 99 d~ks~~~ltsfc~aLh~~~vtpsf--p~--~~~~~Fviq~RP~l---~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai 170 (897)
T KOG1054|consen 99 DKKSVNTLTSFCGALHVSFVTPSF--PT--DGDNQFVIQMRPAL---KGALLSLIDHYKWEKFVYLY-DTDRGLSILQAI 170 (897)
T ss_pred cccchhhhhhhccceeeeeecccC--Cc--CCCceEEEEeCchH---HHHHHHHHHhcccceEEEEE-cccchHHHHHHH
Confidence 999999999999999999998654 32 33457888888874 47899999999999999999 666788999999
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccC
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALD 264 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 264 (940)
.+.+.+++..|.....-.+ .+..+++.+++.+...+.+.+++.|..+...+++.++.+.+-...+|++++.+..-...|
T Consensus 171 ~~~a~~~nw~VtA~~v~~~-~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~d 249 (897)
T KOG1054|consen 171 MEAAAQNNWQVTAINVGNI-NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDID 249 (897)
T ss_pred HHHHHhcCceEEEEEcCCc-ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchhh
Confidence 9999999999987654432 355669999999999999999999999999999999999888889999999775433333
Q ss_pred CCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccC-CCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCc
Q 002301 265 TNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDA-KTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNL 343 (940)
Q Consensus 265 ~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 343 (940)
. +.+.....++.++...+.+.+..++|.++|++.... +++....++...++.+|||+.++++|++.++++...+
T Consensus 250 l-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~ 324 (897)
T KOG1054|consen 250 L-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDI 324 (897)
T ss_pred H-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhch
Confidence 3 334455667899999999999999999999986543 3333445667778999999999999999988765433
Q ss_pred ccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 344 SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 344 ~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
.. ....|.+......+|.+|..+-+++++++++|+||.++||..|.|.+.+.+|+.++.++.+++|+|+...|+
T Consensus 325 ~r------RG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~f 398 (897)
T KOG1054|consen 325 SR------RGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEGF 398 (897)
T ss_pred hc------cCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCce
Confidence 21 112232222246789999999999999999999999999999999999999999999999999999999986
Q ss_pred ceecCccccCCCCCCCCCccccceeecCCCcccCCCceeccCCCceEEEEecCcccccceEE-------eCCCcceeeee
Q 002301 424 SVVRPETLYSKPPNRSSSNQRLYSVIWPGQTTQKPRGWVFPNNGRHLRIGVPNRVSFREFVS-------VKGSEMTSGFC 496 (940)
Q Consensus 424 ~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~l~v~v~~~~~~~~~~~-------~~~~~~~~G~~ 496 (940)
....... ..+.. .-....++..|..... .||++ ..++++++|||
T Consensus 399 v~~~t~a-~~~~d-------------------------~~~~~n~tvvvttiL~---spyvm~kkn~~~~egn~ryEGyC 449 (897)
T KOG1054|consen 399 VPGSTVA-QSRND-------------------------QASKENRTVVVTTILE---SPYVMLKKNHEQLEGNERYEGYC 449 (897)
T ss_pred eeccccc-ccccc-------------------------ccccccceEEEEEecC---CchhHHHhhHHHhcCCcccceeH
Confidence 4321100 00000 0001123334444332 24443 24788999999
Q ss_pred HHHHHHHHHhCCCccCeEEee---CCCCCCCCC-HhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 497 IDVFTAAINLLPYAVPYKLIP---FGDGHNNPS-CTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 497 idll~~l~~~l~~~~~~~~~~---~~~~~~n~~-~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
+||+.+|++..++++++..+. +|..+..++ |+||++.|..|++|+++++++||.+|++.+|||.|++..|+.++++
T Consensus 450 vdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIK 529 (897)
T KOG1054|consen 450 VDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIK 529 (897)
T ss_pred HHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEe
Confidence 999999999999975555553 333346666 9999999999999999999999999999999999999999999999
Q ss_pred ccC-CCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCC------CC-------CcCCceeehhhhhhHhhc
Q 002301 573 VRK-LDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFR------GP-------PKRQVVTIFWFSFSTMFF 638 (940)
Q Consensus 573 ~~~-~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~------~~-------~~~~~~~~~~~~~~~l~~ 638 (940)
+++ ..+..+.|+.|+..+.|+||+..++.+++++++..|.++.||+ |+ +-+.+.|++||+++++++
T Consensus 530 KPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQ 609 (897)
T KOG1054|consen 530 KPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQ 609 (897)
T ss_pred CcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHh
Confidence 987 6789999999999999999999999999999999998887654 22 124588999999999999
Q ss_pred cccc-cccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCC-eEEEeCchHHHHHHhhhCCC
Q 002301 639 AHKE-KTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYP-IGYQVNSFARNYLVDELNID 716 (940)
Q Consensus 639 ~~~~-~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~-i~~~~gs~~~~~l~~~~~~~ 716 (940)
|+.+ .|++.++||+-++||||+||++++|||||++|||++++.+||.|.|||.++.+. .|+.++....+||++. .+.
T Consensus 610 QG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~S-kia 688 (897)
T KOG1054|consen 610 QGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRS-KIA 688 (897)
T ss_pred cCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhh-hHH
Confidence 9988 799999999999999999999999999999999999999999999999988764 7888887788888542 111
Q ss_pred -ccCcc----------cCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhc-CCcEEEeCCccccCcceeecCCCCcc
Q 002301 717 -ESRLV----------PLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLST-RCEFSIVGQVFTKNGWGFAFPRDSPL 784 (940)
Q Consensus 717 -~~~~~----------~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~spl 784 (940)
-.+|. -..+..|.++.+++. .+.+||+.|....+|.-++ .|+-..||..+.+.+||++.||||.|
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 11222 234667777777764 8889999999999988765 79999999999999999999999999
Q ss_pred hHHHHHHHHhcccccchHHHHHhhcc-cCCCCCCCCCc--cccceecccchhHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 002301 785 AVDISTAILKLSENGDLQRIHDKWLL-RSACSSQGAKL--DVDRLQLKSFSGLYLLCGLACLLALFIYLMQIVHQFSRHY 861 (940)
Q Consensus 785 ~~~~~~~il~l~e~G~~~~i~~kw~~-~~~c~~~~~~~--~~~~l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~ 861 (940)
+..+|.++++|.|.|+++++++|||. ++.|....... ....|+|.+++|+||||..|++||.++.++|++|+.+...
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 99999875543 4478999999999999999999999999999998766554
Q ss_pred C
Q 002301 862 P 862 (940)
Q Consensus 862 ~ 862 (940)
+
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=5.6e-84 Score=676.45 Aligned_cols=748 Identities=23% Similarity=0.412 Sum_probs=611.5
Q ss_pred CCCCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEec--CCCCHHHHH-HHHHHHHhcCcEEEEc
Q 002301 26 SGRPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQD--CNHSGFLAL-AEALHLMEGQTVAIIG 102 (940)
Q Consensus 26 ~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D--~~~~~~~a~-~~a~~li~~~v~aiiG 102 (940)
+..++.++||.++.-. ....-+.-++.++|++.+ ..++.+.... ...++.+.+ ....+|++.+|.+|+-
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 3667899999998764 345677788899997753 3566553222 223444444 4455688889988874
Q ss_pred --CCCch---hHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCc
Q 002301 103 --PQDAV---TSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDH 176 (940)
Q Consensus 103 --p~~s~---~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~ 176 (940)
|.+|. .-.+++..++.+++|++.....+..+++ +-++.|+|++|+...|+.+..+++.+|.|++|.++.+||.-
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 33332 2345667788999999999888999999 56899999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 177 GRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 177 g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
|+....+++..+++...++.....|. ++..+++..|-+.|..++||+++..+.+++..+++.|-+++|++.||+||.+
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 99888888877776665554444555 5678899999999999999999999999999999999999999999999998
Q ss_pred CccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHH
Q 002301 257 SWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSF 336 (940)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~ 336 (940)
...... .+...|++|++.....+ .....-|+|.++|.|++++
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 753322 13467899987653211 1234569999999999999
Q ss_pred hhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhcc-ccccceeEEEccCCCCCCCceEEEEe-eccceEEE
Q 002301 337 FKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQAN-MTGTAGPARFNSHGDLINPAYEIINV-IGTGYRRI 414 (940)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~~G~~~~~~~~I~~~-~~~~~~~V 414 (940)
++......++ ..||+....|..|..|.+.+...+ -+|.||+|.||+||+|....|+|+|+ ++...+.+
T Consensus 302 ~~~e~I~~~P----------~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~ 371 (993)
T KOG4440|consen 302 LEKENITDPP----------RGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGV 371 (993)
T ss_pred HhhccCCCCC----------CcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhh
Confidence 8765433222 347888889999999988887754 67999999999999999999999999 45555556
Q ss_pred EEecCCCCcceecCccccCCCCCCCCCccccceeecCCCcccCCCceeccCCCceEEEEecCcccccceEEe-----C--
Q 002301 415 GYWSNYSGLSVVRPETLYSKPPNRSSSNQRLYSVIWPGQTTQKPRGWVFPNNGRHLRIGVPNRVSFREFVSV-----K-- 487 (940)
Q Consensus 415 G~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~l~v~v~~~~~~~~~~~~-----~-- 487 (940)
|.|+.. .+. .+...|+|||+...+|+++.+|++ |||.+.+.+ ||++. +
T Consensus 372 ~~yd~~---r~~----------------~nd~~IiWpGg~~~KP~gi~~pth---LrivTi~~~---PFVYv~p~~sd~~ 426 (993)
T KOG4440|consen 372 GIYDGT---RVI----------------PNDRKIIWPGGETEKPRGIQMPTH---LRIVTIHQE---PFVYVKPTLSDGT 426 (993)
T ss_pred ccccce---eec----------------cCCceeecCCCCcCCCccccccce---eEEEEeccC---CeEEEecCCCCcc
Confidence 665432 221 123589999999999999999964 888888664 55541 0
Q ss_pred --------C-----------------------CcceeeeeHHHHHHHHHhCCCccCeEEeeCCCC----------CCC-C
Q 002301 488 --------G-----------------------SEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDG----------HNN-P 525 (940)
Q Consensus 488 --------~-----------------------~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~----------~~n-~ 525 (940)
+ .-|+.||||||+-.+++.+||+++..+++.|.- ..| .
T Consensus 427 c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~k 506 (993)
T KOG4440|consen 427 CKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKK 506 (993)
T ss_pred hhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccc
Confidence 0 127899999999999999999988888774421 122 3
Q ss_pred CHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHH
Q 002301 526 SCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAV 605 (940)
Q Consensus 526 ~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~ 605 (940)
+|+|++++|.+|++||++++++|++||.++++||.||...|+.++.++..+.+....||+||+..+|+++++++.+++++
T Consensus 507 ew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~ 586 (993)
T KOG4440|consen 507 EWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALM 586 (993)
T ss_pred eehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhhccCCC-CCCC-------CcCCceeehhhhhhHhhccccc--cccccchhhhHHHHHhhhhhhhhhccceeeeee
Q 002301 606 VWILEHRLNDE-FRGP-------PKRQVVTIFWFSFSTMFFAHKE--KTVSALGRLVLIIWLFVVLIINSSYTASLTSIL 675 (940)
Q Consensus 606 ~~~~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~l~~~~~~--~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~L 675 (940)
+++++|.++.+ |.-. ...++...+||+|+.++..+.. .|+|.+.|++-++|+-|++|++++|||||++||
T Consensus 587 lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFL 666 (993)
T KOG4440|consen 587 LYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFL 666 (993)
T ss_pred HHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhhe
Confidence 99999988753 3222 2346899999999999988733 799999999999999999999999999999999
Q ss_pred eeccccCCCCChhHhhhCC----CCeEEEeCchHHHHHHhhhCCCc--cCc--ccCCCHHHHHHHhhcCCCCCceEEEEe
Q 002301 676 TVQKLSSPIKGIDSLRSSN----YPIGYQVNSFARNYLVDELNIDE--SRL--VPLNSPEEYAKALKDGPHKGGVAAVVD 747 (940)
Q Consensus 676 t~~~~~~~i~si~dL~~~~----~~i~~~~gs~~~~~l~~~~~~~~--~~~--~~~~~~~~~~~~l~~~~~~g~~~a~~~ 747 (940)
...+.+..++++.|-.-.+ ...+.+++|.++.||+++-.... .+| -.|.+.+|+++++++ |+.+||+.
T Consensus 667 VLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~AFIW 742 (993)
T KOG4440|consen 667 VLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLHAFIW 742 (993)
T ss_pred eecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----CceeEEEe
Confidence 9999999999999954322 34788899999999976543321 112 246788899999999 99999999
Q ss_pred chhhHHHHHhcCCcEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhhccc---CCCCCCCCCcccc
Q 002301 748 DRAYAELFLSTRCEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKWLLR---SACSSQGAKLDVD 824 (940)
Q Consensus 748 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw~~~---~~c~~~~~~~~~~ 824 (940)
|+..++|.++++|++...|+.|..++||++++||||+.+.+..+|+++.|+|+|+++.++|... ..|.... ..+.
T Consensus 743 DS~rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~--k~Pa 820 (993)
T KOG4440|consen 743 DSARLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRS--KAPA 820 (993)
T ss_pred ecceeeehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhc--cCcc
Confidence 9999999999999999999999999999999999999999999999999999999999999983 4454433 3588
Q ss_pred ceecccchhHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 002301 825 RLQLKSFSGLYLLCGLACLLALFIYLMQIVHQFSRHYP 862 (940)
Q Consensus 825 ~l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~~ 862 (940)
.|+++++.|+|++.+.|+++.+...++|+.|.+++.++
T Consensus 821 tLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 821 TLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred cccccccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 89999999999999999998888889999998877654
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=3.5e-77 Score=648.36 Aligned_cols=703 Identities=20% Similarity=0.396 Sum_probs=558.7
Q ss_pred CCHHHHHHHHHHHHhc-CcEEEE-cCCCc--hhHHHHHHhhccCCccEEeeecCC-CCCCCC-CCCceEEecCChHHHHH
Q 002301 80 HSGFLALAEALHLMEG-QTVAII-GPQDA--VTSHVVSHVANELQVPLLSFSATD-PTLSSL-QFPYFVRTTQSDQYQMA 153 (940)
Q Consensus 80 ~~~~~a~~~a~~li~~-~v~aii-Gp~~s--~~a~~va~~~~~~~vP~Is~~at~-~~ls~~-~~p~~~r~~psd~~~~~ 153 (940)
.||..-+...|+++.. +|.+|+ .+.+. +++..+.-++...+||+|+..+.+ +.++++ ....|+++.|+-++|++
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 6999999999999987 888776 44444 445556667789999999986554 444543 23579999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC--ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 154 AIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK--RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
++.++|+.|+|..+++|....+.-+.++..++...... |+++.......+. .++.......++++-++.||+++|+.
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 VMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS-TDDLLAKLQAQLKKIQAPVILLYCSR 241 (1258)
T ss_pred HHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC-CCchHHHHHHHHHhcCCcEEEEEecH
Confidence 99999999999999999998888888888888777654 5555555445433 22233344445666678999999999
Q ss_pred CcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCC
Q 002301 232 NRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNG 311 (940)
Q Consensus 232 ~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 311 (940)
+++..||.+|.++||++++|+||.+...... + +.-.+...|.+.+... .|+
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---PRPAEFPLGLISVSYD------------TWR---------- 292 (1258)
T ss_pred HHHHHHHHHHHhcCCcCCceEEEeehhccCC----C---CCCccCccceeeeecc------------chh----------
Confidence 9999999999999999999999996543321 1 1112455666665422 222
Q ss_pred CCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEc
Q 002301 312 YIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFN 391 (940)
Q Consensus 312 ~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd 391 (940)
..+...+-|+|-++|.|...++...+.+..+ +. +|.-........+..+.++|.|++|+| +.++|+
T Consensus 293 ----~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~---~~-----~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~ 358 (1258)
T KOG1053|consen 293 ----YSLEARVRDGVAIVARAASSMLRIHGFLPEP---KM-----DCREQEETRLTSGETLHRFLANVTWDG--RDLSFN 358 (1258)
T ss_pred ----hhHHHHHhhhHHHHHHHHHHHHhhcccCCCc---cc-----ccccccCccccchhhhhhhhheeeecc--cceeec
Confidence 2334567799999999999987765544211 11 111111223335889999999999999 789999
Q ss_pred cCCCCCCCceEEEEeec-cceEEEEEecCCCCcceecCccccCCCCCCCCCccccceeecCCCcccCCCceeccCCCceE
Q 002301 392 SHGDLINPAYEIINVIG-TGYRRIGYWSNYSGLSVVRPETLYSKPPNRSSSNQRLYSVIWPGQTTQKPRGWVFPNNGRHL 470 (940)
Q Consensus 392 ~~G~~~~~~~~I~~~~~-~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~l 470 (940)
++|..+++...++...+ ..|.+||.|.++. | .++..+||..... ..+.| ...+|
T Consensus 359 ~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L--------------------~M~y~vWPr~~~~---~q~~~-d~~HL 413 (1258)
T KOG1053|consen 359 EDGYLVHPNLVVIDLNRDRTWERVGSWENGT-L--------------------VMKYPVWPRYHKF---LQPVP-DKLHL 413 (1258)
T ss_pred CCceeeccceEEEecCCCcchheeceecCCe-E--------------------EEeccccccccCc---cCCCC-Cccee
Confidence 99988888888887754 5689999998754 3 3445678743321 11112 23467
Q ss_pred EEEecCcccccceEE---eC--------------------------C----CcceeeeeHHHHHHHHHhCCCccCeEEee
Q 002301 471 RIGVPNRVSFREFVS---VK--------------------------G----SEMTSGFCIDVFTAAINLLPYAVPYKLIP 517 (940)
Q Consensus 471 ~v~v~~~~~~~~~~~---~~--------------------------~----~~~~~G~~idll~~l~~~l~~~~~~~~~~ 517 (940)
+|.+.+.+ ||+. .+ . ..|++|||||||+.|++.+||+++++.+.
T Consensus 414 ~VvTLeE~---PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVt 490 (1258)
T KOG1053|consen 414 TVVTLEER---PFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVT 490 (1258)
T ss_pred EEEEeccC---CeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEec
Confidence 77776553 3433 00 0 24899999999999999999996666665
Q ss_pred CCC-C-CCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHH
Q 002301 518 FGD-G-HNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVT 595 (940)
Q Consensus 518 ~~~-~-~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i 595 (940)
.|. | +.||.|+||+++|..+++||+++.++|+++|.+.+|||.||.++|+.++|.+.+...+.-+||.||++.||+.+
T Consensus 491 nGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmm 570 (1258)
T KOG1053|consen 491 NGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMM 570 (1258)
T ss_pred CCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHH
Confidence 443 2 38899999999999999999999999999999999999999999999999999989999999999999999999
Q ss_pred HHHHHHHHHH-HhhhhhccCCCCC---------CCCcCCceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhh
Q 002301 596 AIFFLAVGAV-VWILEHRLNDEFR---------GPPKRQVVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLII 663 (940)
Q Consensus 596 ~~~~~~~~~~-~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil 663 (940)
++++++++.+ ++++|+.++-.|. |.+.++++.++|..|+.+|... .++|+...+||++.+|.||++|+
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 9888866555 6788988765432 3346789999999999999886 55899999999999999999999
Q ss_pred hhhccceeeeeeeeccccCCCCChhHhhhCC-------CCeEEEeCchHHHHHHhhhCCCccCcccC--CCHHHHHHHhh
Q 002301 664 NSSYTASLTSILTVQKLSSPIKGIDSLRSSN-------YPIGYQVNSFARNYLVDELNIDESRLVPL--NSPEEYAKALK 734 (940)
Q Consensus 664 ~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~-------~~i~~~~gs~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~l~ 734 (940)
.++|||||++||+.+++..+++++.|-+-+. .++|++.++..+++++++.......|+.| ...+++++.|+
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 9999999999999999999999999965432 46898888778888876544444556665 47899999999
Q ss_pred cCCCCCceEEEEechhhHHHHHhc--CCcEEEeC--CccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhhcc
Q 002301 735 DGPHKGGVAAVVDDRAYAELFLST--RCEFSIVG--QVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 735 ~~~~~g~~~a~~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
+ |+.||||.|..+++|.+.+ .|+|..+| ..|...+||+++|||||++..+|.+|+++...|+|++++++|+.
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 9999999999999999987 69999998 89999999999999999999999999999999999999999998
Q ss_pred cCCCCCCCCCccccceecccchhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 002301 811 RSACSSQGAKLDVDRLQLKSFSGLYLLCGLACLLALFIYLMQIVHQFSR 859 (940)
Q Consensus 811 ~~~c~~~~~~~~~~~l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~ 859 (940)
+.|.+...+..+.+|++++|.|+|++|++|++||+++|++|.+++++-
T Consensus 807 -gic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~L 854 (1258)
T KOG1053|consen 807 -GICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWKL 854 (1258)
T ss_pred -cccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 788877777789999999999999999999999999999998755433
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.6e-67 Score=627.50 Aligned_cols=595 Identities=37% Similarity=0.642 Sum_probs=506.9
Q ss_pred HHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCCh
Q 002301 212 DLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSV 291 (940)
Q Consensus 212 ~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~ 291 (940)
..+.+++....+++++++.+..+..++.+|.++||+..+|+|+.+++.....+.... ....+..+|.++...+.|.+.
T Consensus 4 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~ 81 (656)
T KOG1052|consen 4 KLLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSE 81 (656)
T ss_pred hHHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccH
Confidence 345566668899999999988999999999999999999999999988776666432 344577889999999999999
Q ss_pred hHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHH
Q 002301 292 LKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNL 371 (940)
Q Consensus 292 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~ 371 (940)
..+.|..+|+.. . ...+.++.++||+++++|.|+++... .... ...|...+.|.++..
T Consensus 82 ~~~~~~~~~~~~-~-------~~~~~~~~~~~D~~~~~a~~~~~~~~-~~~~-------------~~~~~~~~~~~~~~~ 139 (656)
T KOG1052|consen 82 LLQNFVTRWQTS-N-------VELLVYALWAYDAIQALARAVESLLN-IGNL-------------SLSCGRNNSWLDALG 139 (656)
T ss_pred HHHHHHHHHhhc-c-------ccccchhhHHHHHHHHHHHHHHHhhc-CCCC-------------ceecCCCCcccchhH
Confidence 999999999865 1 34577899999999999999999754 1111 344555566778888
Q ss_pred HHHHHHhcccc---ccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCcceecCccccCCCCCCCCCcccccee
Q 002301 372 LRDSILQANMT---GTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGLSVVRPETLYSKPPNRSSSNQRLYSV 448 (940)
Q Consensus 372 l~~~l~~~~f~---g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i 448 (940)
+.+.+++.... |.+|.+.++.++.+....|+|+|+.+.+.+.||.|++..| ..+
T Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i 196 (656)
T KOG1052|consen 140 VFNFGKKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENI 196 (656)
T ss_pred HHHHHHhhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------cee
Confidence 99988887654 4567788888888899999999999999999999998764 368
Q ss_pred ecCCCcccCCCceeccCCCceEEEEecCcccccceEEe----CCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCC--
Q 002301 449 IWPGQTTQKPRGWVFPNNGRHLRIGVPNRVSFREFVSV----KGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGH-- 522 (940)
Q Consensus 449 ~Wpg~~~~~p~~~~~~~~g~~l~v~v~~~~~~~~~~~~----~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~-- 522 (940)
.||+.....|+++.+|.+|++++|+++..+||..++.. .+++++.|||+||++++++++||+++++.++.+.+.
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 99999999999999999999999999988776555543 156789999999999999999999998888876544
Q ss_pred CCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHH
Q 002301 523 NNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAV 602 (940)
Q Consensus 523 ~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~ 602 (940)
++|+|+|++++|.+|++|++ ++++++++|++++|||.||++.++++++++++.....|.|++||+++||++++++++++
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 89999999999999999999999999999998665599999999999999999999999
Q ss_pred HHHHhhhhhccCCCCCCCCc------CCceeehhhhhhHhhcccc-ccccccchhhhHHHHHhhhhhhhhhccceeeeee
Q 002301 603 GAVVWILEHRLNDEFRGPPK------RQVVTIFWFSFSTMFFAHK-EKTVSALGRLVLIIWLFVVLIINSSYTASLTSIL 675 (940)
Q Consensus 603 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~l~~~~~-~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~L 675 (940)
++++|+++|+.+.++ ++. ....+++|+++++++.|+. +.|++.++|+++++||++++|++++|||+|+|+|
T Consensus 356 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~L 433 (656)
T KOG1052|consen 356 GLLLWILERLSPYEL--PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFL 433 (656)
T ss_pred HHHHHHHhccccccC--CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999888 222 1245577999998888874 5899999999999999999999999999999999
Q ss_pred eeccccCCCCChhHhhh-CCCCeEEEeCchHHHHHHhh---hCCCcc-CcccCCCHHHHHHHhhcCCCCCceEEEEechh
Q 002301 676 TVQKLSSPIKGIDSLRS-SNYPIGYQVNSFARNYLVDE---LNIDES-RLVPLNSPEEYAKALKDGPHKGGVAAVVDDRA 750 (940)
Q Consensus 676 t~~~~~~~i~si~dL~~-~~~~i~~~~gs~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~ 750 (940)
|++++.++|++++||.+ ++..+|+..+++...++.+. ...... +.+.+.+.+|+.+.+++|.. ++..++..+..
T Consensus 434 t~~~~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~~~~~~~~~~~ 512 (656)
T KOG1052|consen 434 TVPRLRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS-GGYAFASDELY 512 (656)
T ss_pred cccccCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC-CceEEEeccHH
Confidence 99999999999999995 77789999999999999665 223334 67788999999999999544 34545554445
Q ss_pred hHHHHHhc-CCcEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhhccc----CCCCCCCCCccccc
Q 002301 751 YAELFLST-RCEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKWLLR----SACSSQGAKLDVDR 825 (940)
Q Consensus 751 ~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw~~~----~~c~~~~~~~~~~~ 825 (940)
+.+++.++ .|+++++++.+...+++ ++||||||++.++++|+++.|.|.++++++||+.. ..|.... +...
T Consensus 513 ~~~~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~ 588 (656)
T KOG1052|consen 513 LAYLFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKA 588 (656)
T ss_pred HHHHHhhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccc
Confidence 55544443 38999999999999999 99999999999999999999999999999999994 3444433 4778
Q ss_pred eecccchhHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 002301 826 LQLKSFSGLYLLCGLACLLALFIYLMQIVHQFSRHY 861 (940)
Q Consensus 826 l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~ 861 (940)
|++++++|+|+++++|+++|+++|++|++|++++..
T Consensus 589 l~~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 589 LDLESFWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999999999999888875
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=3.6e-49 Score=433.05 Aligned_cols=367 Identities=18% Similarity=0.269 Sum_probs=298.5
Q ss_pred EEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEE-ecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQM-QDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~-~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||+||+..+ .....|+++||+++|.+..++++++|.+.+ +|+.+|++.+..++|++++++|+|||||.++..+..+
T Consensus 2 iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~v 78 (400)
T cd06392 2 IGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANAL 78 (400)
T ss_pred eeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHHH
Confidence 899999865 246799999999999999999999999999 8999999999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeec-----------CCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhH
Q 002301 113 SHVANELQVPLLSFSA-----------TDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGI 181 (940)
Q Consensus 113 a~~~~~~~vP~Is~~a-----------t~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 181 (940)
+++|+..+||+|++++ ++|.++..+||++.|+. ..+.+|+++++++|+|++|++|| |++||...+
T Consensus 79 ~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~---~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~l 154 (400)
T cd06392 79 QSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPP---VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRGL 154 (400)
T ss_pred HHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCc---hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHHH
Confidence 9999999999999866 44666566777777763 36678999999999999999999 899999999
Q ss_pred HHHHHHHhcCceeEEEeec-------CCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 182 AALGDTLAAKRCRISFKAP-------LSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~-------~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.+.+.+.+.+.+|.++.. +++. -.+.....|.+++.++ ++||++|+++.+..+|++|.++||+..+|+||
T Consensus 155 q~L~~~~~~~~~~I~~~~v~~~~~~~~~~~-l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~wI 232 (400)
T cd06392 155 QSFLDQASRLGLDVSLQKVDRNISRVFTNL-FTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSHWV 232 (400)
T ss_pred HHHHHHHhhcCceEEEEEcccCcchhhhhH-HHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeEEE
Confidence 9999999999999997762 2211 1333455566666556 89999999999999999999999999999999
Q ss_pred ecCccccccCCCCCCCCccccccc-eeEEEEEecCCChhHHHHH----HHHHhhccCCCCCCCCCCCchhhhhhhHHHHH
Q 002301 255 ATSWLSTALDTNSPFPSDVMDDIQ-GVLTLRTYTPDSVLKRKFI----SRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLL 329 (940)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~~~~-g~l~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~l 329 (940)
+|++.....+. .+...... ++++++.+.|.+....+|. .+|++...+........+..+++++|||||++
T Consensus 233 ~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~~~ 307 (400)
T cd06392 233 FVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVLML 307 (400)
T ss_pred EecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHHHH
Confidence 99987765443 22333333 4555999888777555554 67764443211111114678999999999999
Q ss_pred HHHHHHHhhcCCCcccccCCCcccccCCccC--CcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee
Q 002301 330 ARAINSFFKQGGNLSFSKDSRLSDIQGHLRL--DSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI 407 (940)
Q Consensus 330 a~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~--~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~ 407 (940)
|+|++++++.....+ .. .++| +...+|++|..|+++|++++|+|+||+|+||++|+|.++.|+|+|++
T Consensus 308 A~Al~~ll~~~~~~~---------~~-~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~ 377 (400)
T cd06392 308 ANAFHRKLEDRKWHS---------MA-SLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTS 377 (400)
T ss_pred HHHHHHHhhccccCC---------CC-CCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEecc
Confidence 999998764332221 11 2455 56889999999999999999999999999999999999999999954
Q ss_pred -----ccceEEEEEecCCCCcc
Q 002301 408 -----GTGYRRIGYWSNYSGLS 424 (940)
Q Consensus 408 -----~~~~~~VG~w~~~~gl~ 424 (940)
|.|+++||+|++.+||.
T Consensus 378 ~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 378 YSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred ccccCCCCceEeEEecCCCCCC
Confidence 67799999999999863
No 6
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=2.2e-47 Score=439.21 Aligned_cols=378 Identities=21% Similarity=0.338 Sum_probs=309.9
Q ss_pred CCCceEEEEEEeecCC-----------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHH
Q 002301 27 GRPSVVNIGALLSFST-----------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEA 89 (940)
Q Consensus 27 ~~~~~i~IG~l~~~~~-----------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a 89 (940)
..+++|.||++||.+. ..|.....||.+|+|+||+++++|||++|++.++|+|+++..|+..+
T Consensus 5 ~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~ 84 (472)
T cd06374 5 RMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQS 84 (472)
T ss_pred EecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHH
Confidence 4678999999999983 13567789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceE
Q 002301 90 LHLME--------------------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFV 142 (940)
Q Consensus 90 ~~li~--------------------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~ 142 (940)
.+++. .+|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||||
T Consensus 85 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~f 164 (472)
T cd06374 85 IEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFL 164 (472)
T ss_pred HHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceE
Confidence 99985 27999999999999999999999999999999999999998 5799999
Q ss_pred EecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--
Q 002301 143 RTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT-- 220 (940)
Q Consensus 143 r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~-- 220 (940)
|+.|+|..++.++++++++|+|++|++||+|++||+...+.|.+.+++.|+||++.+.++...+..++..++++|++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~ 244 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLP 244 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999999988876545678999999999975
Q ss_pred CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHH---
Q 002301 221 ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFI--- 297 (940)
Q Consensus 221 ~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~--- 297 (940)
+++||++++....+..++++|+++||. .+++||+++.|....... ....+..+|++++.++.+..+.+++|.
T Consensus 245 da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~~l 319 (472)
T cd06374 245 KARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYLKL 319 (472)
T ss_pred CcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHHhC
Confidence 455666667777889999999999986 568999998776432111 223466799999999888877777654
Q ss_pred ------------HHHHhhccC---------------CCCCCCC----CCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 298 ------------SRWRNLTDA---------------KTPNGYI----GLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 298 ------------~~~~~~~~~---------------~~~~~~~----~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
+.|++.++. |.+.... ....++.++|||||++|+|||+++++.....
T Consensus 320 ~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~-- 397 (472)
T cd06374 320 RPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGH-- 397 (472)
T ss_pred CcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCC--
Confidence 456555531 1110000 1124566899999999999999976543111
Q ss_pred cCCCcccccCCccCCcccccCChHHHHHHHHhccccccce-eEEEccCCCCCCCceEEEEeec-----cceEEEEEecCC
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAG-PARFNSHGDLINPAYEIINVIG-----TGYRRIGYWSNY 420 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~G~~~~~~~~I~~~~~-----~~~~~VG~w~~~ 420 (940)
...|..... .+|.+|+++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||.|++
T Consensus 398 ----------~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~- 464 (472)
T cd06374 398 ----------VGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE- 464 (472)
T ss_pred ----------CCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC-
Confidence 112333322 36999999999999999999 69999999975 6899999994 25799999974
Q ss_pred CCcc
Q 002301 421 SGLS 424 (940)
Q Consensus 421 ~gl~ 424 (940)
.+|.
T Consensus 465 ~~l~ 468 (472)
T cd06374 465 GDLG 468 (472)
T ss_pred Cccc
Confidence 3554
No 7
>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=4.4e-47 Score=432.46 Aligned_cols=369 Identities=21% Similarity=0.354 Sum_probs=309.0
Q ss_pred ceEEEEEEeecCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHh--
Q 002301 30 SVVNIGALLSFST-------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLME-- 94 (940)
Q Consensus 30 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~-- 94 (940)
+++.||++||.+. ..|.+...||.+|+|+||+++++|||++|++.++|+|+++..|+.++.+++.
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 4799999999982 3477889999999999999999999999999999999999999999988883
Q ss_pred -----------------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHH
Q 002301 95 -----------------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQY 150 (940)
Q Consensus 95 -----------------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~ 150 (940)
.+|.|||||.+|..+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..
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 27999999999999999999999999999999999999998 579999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc-CCCeEEEEEe
Q 002301 151 QMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL-TESRIIVVHT 229 (940)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viv~~~ 229 (940)
|++|+++++++|||++|++||.|++||+..++.|.+++++.|+||+..+.++...+..++..++++++. .++||||+++
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 999999999999999999999999999999999999999999999998888765567899999999875 6899999999
Q ss_pred cCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHH-----------
Q 002301 230 HYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFIS----------- 298 (940)
Q Consensus 230 ~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~----------- 298 (940)
...++..++++|.++|+. +.||+++.|....... .......+|++++.+.....+.+++|++
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 7999999876432111 1233567899999999888877776664
Q ss_pred ----HHHhhccC-----------CCCCCC------CCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCC
Q 002301 299 ----RWRNLTDA-----------KTPNGY------IGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGH 357 (940)
Q Consensus 299 ----~~~~~~~~-----------~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~ 357 (940)
.|+..|+. |.+... .....++.++||||+++|||||+++++..... +
T Consensus 314 w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~------------~ 381 (458)
T cd06375 314 WFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT------------T 381 (458)
T ss_pred HHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC------------C
Confidence 45555431 211111 12245688899999999999999986543211 1
Q ss_pred ccCCcccccCChHHHH-HHHHhcccc-----ccce-eEEEccCCCCCCCceEEEEeec--cc----eEEEEEecC
Q 002301 358 LRLDSLRIFNGGNLLR-DSILQANMT-----GTAG-PARFNSHGDLINPAYEIINVIG--TG----YRRIGYWSN 419 (940)
Q Consensus 358 ~~~~~~~~~~~g~~l~-~~l~~~~f~-----g~tG-~v~Fd~~G~~~~~~~~I~~~~~--~~----~~~VG~w~~ 419 (940)
..|.....+ ++++|+ ++|++++|. |.+| +|.||+||+. ...|+|+|++. ++ +++||.|++
T Consensus 382 ~~c~~~~~~-~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 382 KLCDAMKPL-DGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCCCC-CHHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 134444455 489999 599999999 9998 5999999994 67999999993 32 689999964
No 8
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=6.3e-47 Score=435.47 Aligned_cols=377 Identities=22% Similarity=0.335 Sum_probs=311.8
Q ss_pred CCCceEEEEEEeecCC----------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHH
Q 002301 27 GRPSVVNIGALLSFST----------------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFL 84 (940)
Q Consensus 27 ~~~~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~ 84 (940)
..+++|.||++||.+. ..|.....|+++|+|+||+++++||+++|++.++|+|+++..
T Consensus 8 ~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~ 87 (510)
T cd06364 8 QKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSK 87 (510)
T ss_pred eecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHH
Confidence 4678999999999984 336677899999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-C------------------cEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEe
Q 002301 85 ALAEALHLMEG-Q------------------TVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRT 144 (940)
Q Consensus 85 a~~~a~~li~~-~------------------v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~ 144 (940)
|+..+.+++.+ + |.|||||.+|..+.++++++..++||+|+++++++.+++ .+||+|||+
T Consensus 88 a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt 167 (510)
T cd06364 88 ALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEc
Confidence 99999999864 2 469999999999999999999999999999999999998 679999999
Q ss_pred cCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeE
Q 002301 145 TQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRI 224 (940)
Q Consensus 145 ~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 224 (940)
.|+|..|++++++++++|||++|++|+.|++||+...+.|++.+++.|+||++.+.++......++..++.+++++++|+
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~v 247 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKV 247 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeE
Confidence 99999999999999999999999999999999999999999999999999999887775446789999999999999999
Q ss_pred EEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHH------
Q 002301 225 IVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFIS------ 298 (940)
Q Consensus 225 iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~------ 298 (940)
||+.+...++..++++|.++|+. +++||+++.|........ ....+.+.|++++.+.....+++++|++
T Consensus 248 Vvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~---~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~ 322 (510)
T cd06364 248 IVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAM---PEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKK 322 (510)
T ss_pred EEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccccc---CCccceeeEEEEEEECCCcCccHHHHHHhCCccc
Confidence 99999999999999999999985 479999987754332221 3455788899999988766666555543
Q ss_pred ---------HHHhhccC-----------------------------------CCCCCCC----------CCCchhhhhhh
Q 002301 299 ---------RWRNLTDA-----------------------------------KTPNGYI----------GLNAYGFYAYD 324 (940)
Q Consensus 299 ---------~~~~~~~~-----------------------------------~~~~~~~----------~~~~~~~~~YD 324 (940)
.|++.|+. |.+.... ....++.++||
T Consensus 323 ~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~ 402 (510)
T cd06364 323 SSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYL 402 (510)
T ss_pred CCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHH
Confidence 34544431 1111110 02234678999
Q ss_pred HHHHHHHHHHHHhhcCCCc-ccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccce-eEEEccCCCCCCCceE
Q 002301 325 TVWLLARAINSFFKQGGNL-SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAG-PARFNSHGDLINPAYE 402 (940)
Q Consensus 325 Av~~la~Al~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~G~~~~~~~~ 402 (940)
||+++|||||+++.|.... .++ +..|...... ++++|+++|++++|+|.+| +|.||++|+. ...|+
T Consensus 403 AVyAvAhaLh~~~~c~~~~~~~~----------~~~c~~~~~~-~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Yd 470 (510)
T cd06364 403 AVYSIAHALQDIYTCTPGKGLFT----------NGSCADIKKV-EAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNYS 470 (510)
T ss_pred HHHHHHHHHHHHhcCCCCCCCcc----------CCCCCCCCCC-CHHHHHHHHHhcEEecCCCCEEEEecCCCC-cccee
Confidence 9999999999998764221 110 1235544444 4899999999999999998 5999999995 67999
Q ss_pred EEEeec---c---ceEEEEEecCC
Q 002301 403 IINVIG---T---GYRRIGYWSNY 420 (940)
Q Consensus 403 I~~~~~---~---~~~~VG~w~~~ 420 (940)
|+|++. + .+++||.|++.
T Consensus 471 I~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 471 IINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred EEEeeecCCCCcEEEEEEEEEcCC
Confidence 999993 2 25899999753
No 9
>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=6.1e-47 Score=435.43 Aligned_cols=375 Identities=22% Similarity=0.360 Sum_probs=311.6
Q ss_pred ceEEEEEEeecCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHh--
Q 002301 30 SVVNIGALLSFST-------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLME-- 94 (940)
Q Consensus 30 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~-- 94 (940)
+++.||++||++. ..|.....|+++|+|+||+++++|||++|++.++|+|+++..|+..+.+++.
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 4799999999983 3466778999999999999999999999999999999999999999998885
Q ss_pred ---------------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHH
Q 002301 95 ---------------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQM 152 (940)
Q Consensus 95 ---------------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~ 152 (940)
++|.|||||.+|.++.++++++..+++|+|+++++++.+++ .+||||||+.|+|..|+
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 57999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc-CCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL-TESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viv~~~~~ 231 (940)
.++++++++|+|++|++|+.|++||....+.|.+.+++.|+||+..+.++...+..|+..++++|++ .++|+||+.+..
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 9999999999999999999999999999999999999999999998888755577899999999987 579999999999
Q ss_pred CcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHH--------------
Q 002301 232 NRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFI-------------- 297 (940)
Q Consensus 232 ~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~-------------- 297 (940)
.++..++++|+++|++ ..++||+++.|....... ....+..+|++++.++....+.++.|+
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 568999998775432211 233467889999888776665555433
Q ss_pred -HHHHhhccC-------------CCCCC----CCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCcc
Q 002301 298 -SRWRNLTDA-------------KTPNG----YIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLR 359 (940)
Q Consensus 298 -~~~~~~~~~-------------~~~~~----~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~ 359 (940)
+.|+..++. |+... ......++.++|||||++|+||+++++++.... ...
T Consensus 316 ~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~------------~~~ 383 (452)
T cd06362 316 REFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT------------TGL 383 (452)
T ss_pred HHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC------------CCC
Confidence 334443331 10000 012345788999999999999999986543211 112
Q ss_pred CCcccccCChHHHHHHHHhccccccce-eEEEccCCCCCCCceEEEEeec----cceEEEEEecCCCCc
Q 002301 360 LDSLRIFNGGNLLRDSILQANMTGTAG-PARFNSHGDLINPAYEIINVIG----TGYRRIGYWSNYSGL 423 (940)
Q Consensus 360 ~~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~G~~~~~~~~I~~~~~----~~~~~VG~w~~~~gl 423 (940)
|.... |.+|.+|+++|++++|+|++| .|+||++|++ ...|+|+|++. .++++||+|++..||
T Consensus 384 c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 384 CDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 33332 446999999999999999998 7999999996 46999999984 358999999877664
No 10
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=6.8e-47 Score=432.79 Aligned_cols=370 Identities=19% Similarity=0.294 Sum_probs=304.7
Q ss_pred ceEEEEEEeecCC----------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHH
Q 002301 30 SVVNIGALLSFST----------------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALA 87 (940)
Q Consensus 30 ~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~ 87 (940)
++|.||++||.+. ..|.+...||.+|+|+||+++.+|||++|++.++|+||++..|+.
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 4789999999972 125566799999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHH
Q 002301 88 EALHLME--------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQM 152 (940)
Q Consensus 88 ~a~~li~--------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~ 152 (940)
++.+++. ++++|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+
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 36999999999999999999999999999999999999998 67999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCCh--hHHHHHHHHHhcCCCeEEEEEec
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATE--DEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~--~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
.|+++++++|+|++|++|+.|++||+...+.|.+++++.|+||++.+.++..... .++..++++|+++++|+||+++.
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 9999999999999999999999999999999999999999999999988855332 47899999999999999999999
Q ss_pred CCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHH-----------
Q 002301 231 YNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISR----------- 299 (940)
Q Consensus 231 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~----------- 299 (940)
...+..++.++.+.+. .+++||+++.|....... ....+.++|+++++++.++.+++++|.++
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 8888777666666543 579999998775433221 23457789999999999888888877655
Q ss_pred ----HHhhcc------------CCCCCCCC----------CCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCccc
Q 002301 300 ----WRNLTD------------AKTPNGYI----------GLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSD 353 (940)
Q Consensus 300 ----~~~~~~------------~~~~~~~~----------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~ 353 (940)
|+..|+ .|+..... ....++.++||||+++|||||+++++.....
T Consensus 315 ~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~--------- 385 (469)
T cd06365 315 LEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQ--------- 385 (469)
T ss_pred HHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCC---------
Confidence 444332 12211111 1234577899999999999999998754210
Q ss_pred ccCCccCCcccccCChHHHHHHHHhcccccccee-EEEccCCCCCCCceEEEEeec--c---ceEEEEEecC
Q 002301 354 IQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGP-ARFNSHGDLINPAYEIINVIG--T---GYRRIGYWSN 419 (940)
Q Consensus 354 ~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~-v~Fd~~G~~~~~~~~I~~~~~--~---~~~~VG~w~~ 419 (940)
...+|.. ... ++.+|+++|++++|+|.+|. |.||+||++ ...|+|+|++. + .+++||.|+.
T Consensus 386 --~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 386 --SENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred --CcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 0112322 233 48899999999999999995 999999995 67999999982 2 3699999975
No 11
>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=1.9e-46 Score=420.08 Aligned_cols=345 Identities=24% Similarity=0.297 Sum_probs=291.8
Q ss_pred EEEEeecCCc---------------------chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 002301 34 IGALLSFSTN---------------------VGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHL 92 (940)
Q Consensus 34 IG~l~~~~~~---------------------~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~l 92 (940)
||++||.+.. .|.+...||++|+|+||+++ +|||++|+++++|+|+++..|+.++.+|
T Consensus 2 lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~l 80 (403)
T cd06361 2 IGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRF 80 (403)
T ss_pred EEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHH
Confidence 7888888742 26677899999999999998 6689999999999999999999999999
Q ss_pred Hhc-------------------CcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHH
Q 002301 93 MEG-------------------QTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQM 152 (940)
Q Consensus 93 i~~-------------------~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~ 152 (940)
+++ +|.|||||.+|..+.+++++++.++||+||+++++|.|++ .+||||||+.|+|..|+
T Consensus 81 i~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa 160 (403)
T cd06361 81 LSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQT 160 (403)
T ss_pred HhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHH
Confidence 874 7999999999999999999999999999999999999997 68999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCCh-----hHHHHHHHHHhcCCCeEEEE
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATE-----DEITDLLVKVALTESRIIVV 227 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~-----~~~~~~l~~l~~~~~~viv~ 227 (940)
+++++++++|||++|++|++|++||+...+.|++++++.|+||+..+.++....+ .++..+++.++.+++|+||+
T Consensus 161 ~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv 240 (403)
T cd06361 161 KAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV 240 (403)
T ss_pred HHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE
Confidence 9999999999999999999999999999999999999999999999988753221 45666667789999999999
Q ss_pred EecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCC
Q 002301 228 HTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAK 307 (940)
Q Consensus 228 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~ 307 (940)
++...++..++++|+++|+ +++||+++.|........ ........|.+++.+..+..+.++ +.+++++
T Consensus 241 ~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~~F~---~~~~~~~--- 308 (403)
T cd06361 241 FARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKILT---DPNVKKIGKVVGFTFKSGNISSFH---QFLKNLL--- 308 (403)
T ss_pred EeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccccc---CCcccccceEEEEEecCCccchHH---HHHHHhh---
Confidence 9999999999999999998 689999998865333221 222356788999998776655544 4444432
Q ss_pred CCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhcccccccee
Q 002301 308 TPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGP 387 (940)
Q Consensus 308 ~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~ 387 (940)
..++||||+++|+||+++..+. .|...... ++++|+++|++++|+|++|+
T Consensus 309 -----------~~~v~~AVyaiA~Al~~~~~~~------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~ 358 (403)
T cd06361 309 -----------IHSIQLAVFALAHAIRDLCQER------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNM 358 (403)
T ss_pred -----------HHHHHHHHHHHHHHHHHhccCC------------------CCCCCCCc-CHHHHHHHHheeEEecCCce
Confidence 3358999999999999964321 12222223 58999999999999999889
Q ss_pred EEEccCCCCCCCceEEEEeeccc----eEEEEEecCCCC
Q 002301 388 ARFNSHGDLINPAYEIINVIGTG----YRRIGYWSNYSG 422 (940)
Q Consensus 388 v~Fd~~G~~~~~~~~I~~~~~~~----~~~VG~w~~~~g 422 (940)
+.||++|+. ...|+|+|+++++ +++||.|++...
T Consensus 359 v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 359 YHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred EEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 999999985 6789999998532 699999988764
No 12
>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=3.1e-46 Score=429.07 Aligned_cols=371 Identities=22% Similarity=0.368 Sum_probs=302.2
Q ss_pred ceEEEEEEeecC--C-----------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHH----H
Q 002301 30 SVVNIGALLSFS--T-----------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALH----L 92 (940)
Q Consensus 30 ~~i~IG~l~~~~--~-----------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~----l 92 (940)
++|.||++||.+ . ..|.....|+++|+|+||+++++|||++|+++++|+|+++..+.+.+.. +
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 2566678999999999999999999999999999999987665555544 3
Q ss_pred Hh-------------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHH
Q 002301 93 ME-------------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQM 152 (940)
Q Consensus 93 i~-------------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~ 152 (940)
++ ++|+|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+
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 37999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhc-CCCeEEEEEec
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK-RCRISFKAPLSVEATEDEITDLLVKVAL-TESRIIVVHTH 230 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viv~~~~ 230 (940)
+|+++++++|+|++|++|+.|++||....+.|.+.+++. ++||.....++...+..|+..++++|++ .++|+||+.+.
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 999999999999999999999999999999999999987 4788776666655677899999999986 69999999999
Q ss_pred CCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHH------------
Q 002301 231 YNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFIS------------ 298 (940)
Q Consensus 231 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~------------ 298 (940)
..++..++++|+++|+++ .|+||+++.|........ .....+.|.+++.++....+.++.|.+
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 599999998765432211 123567899999988877777766554
Q ss_pred ---HHHhhccC---------------CCCCCCC------CCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccc
Q 002301 299 ---RWRNLTDA---------------KTPNGYI------GLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDI 354 (940)
Q Consensus 299 ---~~~~~~~~---------------~~~~~~~------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~ 354 (940)
.|+..|+. |.+.... .....+.++||||+++|||||+++++...-.
T Consensus 316 ~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~---------- 385 (463)
T cd06376 316 FAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGY---------- 385 (463)
T ss_pred HHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCC----------
Confidence 56554431 1111110 1123678999999999999999986543110
Q ss_pred cCCccCCcccccCChHHHHHHHHhccccccce-eEEEccCCCCCCCceEEEEeec-----cceEEEEEecC
Q 002301 355 QGHLRLDSLRIFNGGNLLRDSILQANMTGTAG-PARFNSHGDLINPAYEIINVIG-----TGYRRIGYWSN 419 (940)
Q Consensus 355 ~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~G~~~~~~~~I~~~~~-----~~~~~VG~w~~ 419 (940)
...|.... |.+|.+|+++|++++|+|.+| +|.||++|++. ..|+|+|++. .++++||.|++
T Consensus 386 --~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 386 --TGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred --CCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 11344333 446999999999999999999 69999999964 6799999983 35799999975
No 13
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.6e-46 Score=413.04 Aligned_cols=360 Identities=20% Similarity=0.286 Sum_probs=300.8
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||+||+.++ .....|+++|++++|.+..++|.+ . +-+..|.+.+.+++|++++++|+||+||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~~--~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQI--D---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccce--E---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 356899999999999987555421 1 2234689999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKR 192 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g 192 (940)
+++|+..+||+|+++. |..+ ...|++++.|+ +++|+++++++|||++|++||+++ ||...++.|.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999998744 3332 33568999998 799999999999999999999655 99999999999999999
Q ss_pred eeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCc
Q 002301 193 CRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSD 272 (940)
Q Consensus 193 ~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~ 272 (940)
++|.+...++ .+.+++..+|++++.+++|+||++|+++.+..+++++.+.+|++.+|+||+|+......+. ++
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 9999887776 4567999999999999999999999999999999999999999999999999833222222 44
Q ss_pred cccccceeEEEEEecCCChhHHHHHHHHHhhccCC-CCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCc
Q 002301 273 VMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAK-TPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRL 351 (940)
Q Consensus 273 ~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~ 351 (940)
....++|+++++++.|+++..++|.++|+++.... +......++.+++++|||||++|+|++++..++..+++..+
T Consensus 218 ~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~~--- 294 (364)
T cd06390 218 FRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRGN--- 294 (364)
T ss_pred HhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCC---
Confidence 56788999999999999999999999998765432 22233356789999999999999999998655443321111
Q ss_pred ccccCCccCC--cccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 352 SDIQGHLRLD--SLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 352 ~~~~g~~~~~--~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
+..|. ...+|..|..|+++|++++|+|+||+++||++|+|.++.|+|+|+++.++++||+|++..||
T Consensus 295 -----~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 295 -----AGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 12332 34579999999999999999999999999999999999999999999999999999998875
No 14
>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=3.5e-46 Score=418.58 Aligned_cols=370 Identities=20% Similarity=0.278 Sum_probs=309.8
Q ss_pred eEEEEEEee-cC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC-CHHHHHHHHHHHHhcCcEEEEcCCC
Q 002301 31 VVNIGALLS-FS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNH-SGFLALAEALHLMEGQTVAIIGPQD 105 (940)
Q Consensus 31 ~i~IG~l~~-~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~ 105 (940)
.|+||+++| ++ +..|...+.|+++|+++||+++++||+.+|.+.+.+.++ ++..+...+++++.++|.|||||.+
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 556778899999999999999999999999999998665 6767888888887789999999999
Q ss_pred chhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHH
Q 002301 106 AVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 106 s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
|..+.+++++++.++||+|++++++|.+++. .+||+|+.|++..++.++++++++|+|++|++||++++ |...++.+.
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 36788888999899999999999999999999997664 766677888
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
+.+++.|++|+.. .++ .++.|++.+|++|+..++++||++++...+..++++|+++||+.+.|+|+.++......+.
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 8888999999864 455 4568999999999999999999999999999999999999999999999988764433332
Q ss_pred CCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhh-ccCCCCCC----CCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNL-TDAKTPNG----YIGLNAYGFYAYDTVWLLARAINSFFKQG 340 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~----~~~~~~~~~~~YDAv~~la~Al~~~~~~~ 340 (940)
.........+++++...++.+..++|+++|++. ++..+... ...++.+++++||||+++|+|++++.+..
T Consensus 237 -----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~~ 311 (384)
T cd06393 237 -----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQMT 311 (384)
T ss_pred -----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhcC
Confidence 111112233678888888899999999999854 44321111 11235689999999999999999752211
Q ss_pred CCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEcc-CCCCCCCceEEEEeeccceEEEEEecC
Q 002301 341 GNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNS-HGDLINPAYEIINVIGTGYRRIGYWSN 419 (940)
Q Consensus 341 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~G~~~~~~~~I~~~~~~~~~~VG~w~~ 419 (940)
. ..+.|+...+|.+|..|+++|++++|+|+||+++||+ +|.|.+..++|+|+.++++++||+|++
T Consensus 312 ----~----------~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~ 377 (384)
T cd06393 312 ----V----------NSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNP 377 (384)
T ss_pred ----C----------CCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcC
Confidence 0 0346777889999999999999999999999999986 678899999999999999999999999
Q ss_pred CCCcc
Q 002301 420 YSGLS 424 (940)
Q Consensus 420 ~~gl~ 424 (940)
..||+
T Consensus 378 ~~g~~ 382 (384)
T cd06393 378 NTGLN 382 (384)
T ss_pred CCCcC
Confidence 99875
No 15
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=2.7e-45 Score=407.63 Aligned_cols=368 Identities=21% Similarity=0.308 Sum_probs=297.5
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEE--EEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKL--QMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~--~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
.||+||+.++..+ +.|+++|+++||++..+|||++|.+ ...|++ |++.+..++|++++++|.||+||.++..+.
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---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999987554 4699999999999999999995555 888994 999999999999999999999998888889
Q ss_pred HHHHhhccCCccEEee----ecCC-----CCCCC--CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchh
Q 002301 111 VVSHVANELQVPLLSF----SATD-----PTLSS--LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRN 179 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~----~at~-----~~ls~--~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~ 179 (940)
.++.+|+.++||+|++ ++++ |.+++ .+||+++| |+ ..+++|+++++++|+|++|+++ .|++||..
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 4443 34443 56888888 44 6789999999999999999875 56778999
Q ss_pred hHHHHHHHHhcCceeEEEeecCCCCCC---hhHHHH-HHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEE
Q 002301 180 GIAALGDTLAAKRCRISFKAPLSVEAT---EDEITD-LLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVW 253 (940)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~---~~~~~~-~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~w 253 (940)
.++.+.+.+++.|+||....... ... ...+.. .+++|+. .+.++||++|+++.+..+|++|+++||++.+|+|
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 99999999999999999754221 111 012222 4455654 5679999999999999999999999999999999
Q ss_pred EecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccC--C-CCCC-CCCCCchhhhhhhHHHHH
Q 002301 254 IATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDA--K-TPNG-YIGLNAYGFYAYDTVWLL 329 (940)
Q Consensus 254 i~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~--~-~~~~-~~~~~~~~~~~YDAv~~l 329 (940)
|++++....+|..+ ...+.+.|+.+++++.|.+....+|..+|+.++.. + +... ...++.+++++|||||++
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 22345678888999999888889999999877632 1 1111 123568999999999999
Q ss_pred HHHHHHHhhcCCCcccccCCCcccccCCccC--CcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee
Q 002301 330 ARAINSFFKQGGNLSFSKDSRLSDIQGHLRL--DSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI 407 (940)
Q Consensus 330 a~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~--~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~ 407 (940)
|+|++++...+...... .+.| +...+|..|..|+++|++++|+|+||+++|+++|+|.++.|+|+|+.
T Consensus 308 A~A~~~l~~~~~~~~~~----------~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~ 377 (400)
T cd06391 308 ANAFHKKLEDRKWHSMA----------SLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTN 377 (400)
T ss_pred HHHHHHHHhhccccCCC----------CcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEee
Confidence 99999875332221110 2233 24568999999999999999999999999999999999999999996
Q ss_pred -----ccceEEEEEecCCCCc
Q 002301 408 -----GTGYRRIGYWSNYSGL 423 (940)
Q Consensus 408 -----~~~~~~VG~w~~~~gl 423 (940)
+.|+++||+|++..||
T Consensus 378 ~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 378 YGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred ccccCCCcceEEEEEcCCcCC
Confidence 8899999999999886
No 16
>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=2.5e-44 Score=394.11 Aligned_cols=366 Identities=16% Similarity=0.273 Sum_probs=303.2
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCC-CEEEEEEecC-CCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGG-TKLKLQMQDC-NHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g-~~l~~~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
.||+||+.++ .....|+++|++++|.+..+++. .+|.+.+... ..|.+.+.+++|+++++||.||+||.++..+.
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 3899999654 35679999999999999877765 5888755433 46999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhc
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAA 190 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 190 (940)
.+..+|+..+||+|.+.- + .+...+|.+++.|+ +.+|+++++++|+|++|++|| |+++|...++.+.+.++.
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 TLTSFCGALHTSFITPSF-P---TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCC-C---CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 999999999999998622 2 12344788999998 689999999999999999999 778999999999999999
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCC
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFP 270 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~ 270 (940)
.+..|.+....+. ....+++.++++++.++.++||++|+++.+..++++|.++||+..+|+||+|+......+.
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 9999887765443 2456899999999999999999999999999999999999999999999999854444333
Q ss_pred CccccccceeEEEEEecCCChhHHHHHHHHHhhccC-CCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCC
Q 002301 271 SDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDA-KTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDS 349 (940)
Q Consensus 271 ~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 349 (940)
.+......++++++++.|+.+..++|.++|++.... +++....+++.+++++|||||++|+|++++..++..++...
T Consensus 224 ~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~-- 301 (372)
T cd06387 224 ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRG-- 301 (372)
T ss_pred HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCC--
Confidence 233344445999999999999999999999876542 22323335678999999999999999999754433221100
Q ss_pred CcccccCCccCC--cccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 350 RLSDIQGHLRLD--SLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 350 ~~~~~~g~~~~~--~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
.+..|. ...+|..|..|+++|++++|+|+||+++|+++|+|.++.|+|+|+.+.++++||+|++..|+
T Consensus 302 ------~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 302 ------SAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred ------CCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 022332 35589999999999999999999999999999999999999999999999999999999875
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=3.3e-44 Score=403.82 Aligned_cols=376 Identities=20% Similarity=0.336 Sum_probs=302.5
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCN-HSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||++|+.+ ++..+.|+++|+++||++..++++++|.+.+.++. +|++.++.++|++++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 489999998 46789999999999999877778888888887775 79999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK 191 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (940)
++++++.++||+|+++++.+.++ ..+||+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
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 99999999999999999888774 4679999998863 458899999999999999997665 667788888999988
Q ss_pred c--eeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCC
Q 002301 192 R--CRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPF 269 (940)
Q Consensus 192 g--~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 269 (940)
| +.|.... +.......|++.+|++|++.++|+||++++.+++..++++|+++||+.++|+||.+++.....+.
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 6666432 32112457999999999999999999999999999999999999999999999998765443332
Q ss_pred CCccccccceeEEEEEecCCChhHHHHHHHHHhhccCC-CCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccC
Q 002301 270 PSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAK-TPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKD 348 (940)
Q Consensus 270 ~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 348 (940)
.+......++.+++...+..+..++|.++|++.++.. +......++.+++++||||+++|+|++++.+.++...+...
T Consensus 228 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~ 306 (382)
T cd06380 228 -SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRID 306 (382)
T ss_pred -HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 1112233456777777777888999999999887531 11122346678999999999999999998655432110000
Q ss_pred CCcccccC-CccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 349 SRLSDIQG-HLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 349 ~~~~~~~g-~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
.. ....+ .|.-+....|.+|..|.++|++++|+|++|+++||++|++....++|++++++++++||+|++..||
T Consensus 307 ~~-~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 307 IS-RRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred cc-cCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 00 00111 2222345678899999999999999999999999999999888999999999999999999998875
No 18
>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=4.1e-44 Score=401.58 Aligned_cols=356 Identities=15% Similarity=0.242 Sum_probs=293.1
Q ss_pred EEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 36 ALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 36 ~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+++|.+ ...+.....|+++|+|+||+++++|+|++|+++++|++|++..+...+..+++++|.|||||.||..+.++
T Consensus 4 ~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~v 83 (387)
T cd06386 4 VLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAPV 83 (387)
T ss_pred EECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHHH
Confidence 566654 33356778999999999999999989999999999999998777777777777799999999999999999
Q ss_pred HHhhccCCccEEeeecCCCCCCC--CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhh---HHHHHHH
Q 002301 113 SHVANELQVPLLSFSATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNG---IAALGDT 187 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~---~~~l~~~ 187 (940)
+++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++||++++||+.. ++.+.+.
T Consensus 84 a~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~ 163 (387)
T cd06386 84 ARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHV 163 (387)
T ss_pred HHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHH
Confidence 99999999999999999999876 358999999999999999999999999999999999999999886 8999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccc-cccCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLS-TALDTN 266 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~-~~~~~~ 266 (940)
+++.|++|+....++ ..+.++..+++++++.+ |+||++++.+.+..++++|+++||+..+|+||..+... ......
T Consensus 164 ~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~~~ 240 (387)
T cd06386 164 FQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYGDG 240 (387)
T ss_pred HHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccCCC
Confidence 999999998876554 34578999999999887 99999999999999999999999999999999998764 111100
Q ss_pred -----CCCCC---ccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCC-CCCCCchhhhhhhHHHHHHHHHHHHh
Q 002301 267 -----SPFPS---DVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNG-YIGLNAYGFYAYDTVWLLARAINSFF 337 (940)
Q Consensus 267 -----~~~~~---~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~~YDAv~~la~Al~~~~ 337 (940)
+..+. ...+.+.|+.++.+ ..+.+++|.+++++++...+... ...++.+++++||||+++|+|+++++
T Consensus 241 ~w~~~~~~~~~~~~a~~~~~~v~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~~~ 317 (387)
T cd06386 241 SWKRGDKHDFEAKQAYSSLNTVTLLRT---VKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHEVL 317 (387)
T ss_pred CCccCCCcCHHHHHHHHhheEEeccCC---CChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHHHh
Confidence 00111 12234455555444 45678889998885554321111 12456889999999999999999987
Q ss_pred hcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeec---cceEEE
Q 002301 338 KQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIG---TGYRRI 414 (940)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~---~~~~~V 414 (940)
+.++. +.+|..|.++|++++|+|++|++.||++|+|. ..|.|+.+++ ++++.|
T Consensus 318 ~~g~~-----------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~ 373 (387)
T cd06386 318 KNGYS-----------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVV 373 (387)
T ss_pred hCCCC-----------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEE
Confidence 55431 23699999999999999999999999999985 6999999964 578999
Q ss_pred EEecCCC
Q 002301 415 GYWSNYS 421 (940)
Q Consensus 415 G~w~~~~ 421 (940)
|.|..+.
T Consensus 374 ~~~~~~~ 380 (387)
T cd06386 374 GNYFGKN 380 (387)
T ss_pred eEEcccc
Confidence 9997543
No 19
>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=7.4e-44 Score=399.69 Aligned_cols=336 Identities=25% Similarity=0.368 Sum_probs=274.8
Q ss_pred CceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHH-HHHHHHHHHhcCcEEEEc-CC-C
Q 002301 29 PSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFL-ALAEALHLMEGQTVAIIG-PQ-D 105 (940)
Q Consensus 29 ~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~-a~~~a~~li~~~v~aiiG-p~-~ 105 (940)
+.+|+||+++|. .....|+++|++++|++.+.+++.++.-...+.++++.. +...+.+|++++|+|||| +. +
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 468999999984 356899999999999965543333333221111345555 445555788889999974 33 3
Q ss_pred ch---hHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhH
Q 002301 106 AV---TSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGI 181 (940)
Q Consensus 106 s~---~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 181 (940)
+. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|+|..|++++++++++|+|++|++||++++||....
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 4677888999999999999999999887 4599999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCce----eEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 182 AALGDTLAAKRC----RISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 182 ~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
+.+++.+++.|+ +|+....++ .+..|+..++++++..++|+||++++..++..++++|.++||++++|+||.++
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 888877786 46789999999999999999999999999999999999999999999999998
Q ss_pred ccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHh
Q 002301 258 WLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFF 337 (940)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~ 337 (940)
.+... .....|++++++..+ ..++.++||||+++|+|+++++
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 76321 134578999887542 1246689999999999999987
Q ss_pred hcCCCcccccCCCcccccCCccCCcc-cccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEE
Q 002301 338 KQGGNLSFSKDSRLSDIQGHLRLDSL-RIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGY 416 (940)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~ 416 (940)
++.. .+.. ...|... ..|.+|..|+++|++++|+|++|+++||++|++..+.|+|+|+++.++++||+
T Consensus 292 ~~~~-~~~~----------~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~ 360 (377)
T cd06379 292 EKEN-ITEP----------PRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGL 360 (377)
T ss_pred cCCC-CCCC----------CccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeE
Confidence 5322 1100 1233322 25888999999999999999999999999999887899999999999999999
Q ss_pred ecCC
Q 002301 417 WSNY 420 (940)
Q Consensus 417 w~~~ 420 (940)
|++.
T Consensus 361 w~~~ 364 (377)
T cd06379 361 YNGD 364 (377)
T ss_pred EcCc
Confidence 9864
No 20
>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=1e-43 Score=396.73 Aligned_cols=339 Identities=22% Similarity=0.306 Sum_probs=289.7
Q ss_pred eEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh-
Q 002301 31 VVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT- 108 (940)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~- 108 (940)
.|+||+++|.++ ...+++.|+..+|.+..+..+.+++++..|+.+||..++.++++++.+ +|.+|+||.+|..
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 589999999883 237777777777776644468999999999999999999999998765 8889999999998
Q ss_pred --HHHHHHhhccCCccEEeeecCCCCC-CC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 109 --SHVVSHVANELQVPLLSFSATDPTL-SS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 109 --a~~va~~~~~~~vP~Is~~at~~~l-s~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
+.+++++++.++||+|+++++++.+ ++ ..||||||+.|++..|++++++++++|||++|++||++++||++..+.+
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 9999999999999999999999988 76 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCcee--EEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 185 GDTLAAKRCR--ISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 185 ~~~l~~~g~~--v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
++.+++.|+| ++....++.. ...++..++.++++.++|+||++|+..++..++++|.++||++++|+||+++.+...
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 7766666642 222788999999999999999999999999999999999999999999999987642
Q ss_pred cCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCC
Q 002301 263 LDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGN 342 (940)
Q Consensus 263 ~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 342 (940)
. ....+...|++++++..+ ..++.++||||+++|+|+++++++.+.
T Consensus 236 ~-------~~~~~~~~G~~g~~~~~~---------------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~ 281 (362)
T cd06367 236 G-------LAPEGLPVGLLGVGLDTW---------------------------YSLEARVRDAVAIVARAAESLLRDKGA 281 (362)
T ss_pred c-------CCccCCCCeeEEEEeccc---------------------------ccHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 1 122356679999987542 235678999999999999999776443
Q ss_pred cccccCCCcccccCCccCCccc--ccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee-ccceEEEEEecC
Q 002301 343 LSFSKDSRLSDIQGHLRLDSLR--IFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI-GTGYRRIGYWSN 419 (940)
Q Consensus 343 ~~~~~~~~~~~~~g~~~~~~~~--~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~-~~~~~~VG~w~~ 419 (940)
...+ ...|.... .|.+|..|.++|++++|.|.+|+++||+||++..+.|+|+|++ +.++++||.|++
T Consensus 282 ~~~~----------~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 282 LPEP----------PVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred CCCC----------CCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 2211 23455443 2788999999999999999999999999999888899999999 889999999975
No 21
>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=4.3e-43 Score=390.51 Aligned_cols=343 Identities=45% Similarity=0.768 Sum_probs=302.8
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~a~ 110 (940)
|||+++|++ +..|+....|+++|+|+||+++++++|++|+++++|++|++..+++++++|+.+ +|.+||||.+|..+.
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 888999999999999999999877789999999999999999999999999987 999999999999999
Q ss_pred HHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHh
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLA 189 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (940)
+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.|++||+...+.+.+.++
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 9999999999999999999998865 568999999999999999999999999999999999999999999999999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC-CCC
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT-NSP 268 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~-~~~ 268 (940)
+.|++|+....++.+.+..|+..++++|++.++|+|++++...++..++++++++||..++|+|+.++++....+. ...
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 9999999998888543368999999999999999999999999999999999999999889999999876543211 001
Q ss_pred CCCccccccceeEEEEEecCC-ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccccc
Q 002301 269 FPSDVMDDIQGVLTLRTYTPD-SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSK 347 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 347 (940)
..+...+..+|++++.++.++ .+..++|.++|+++++..+.. ...++.++..+|||+++ .
T Consensus 241 ~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~p~~~a~~~YDav~~------~------------ 301 (350)
T cd06366 241 TDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE-LTEPSIYALYAYDAVWA------S------------ 301 (350)
T ss_pred ChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC-cCCCCcccchhhhheee------e------------
Confidence 113345678899999998887 888999999999988631111 12467889999999988 1
Q ss_pred CCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCcce
Q 002301 348 DSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGLSV 425 (940)
Q Consensus 348 ~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl~~ 425 (940)
.+|+|++|+++||++|++....|+++++.++++++||+|++..|+++
T Consensus 302 -------------------------------~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 302 -------------------------------TNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred -------------------------------ceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 15889999999999999888999999999999999999998888754
No 22
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.2e-42 Score=393.44 Aligned_cols=351 Identities=23% Similarity=0.370 Sum_probs=296.4
Q ss_pred CCceEEEEEEeecCC---------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHH
Q 002301 28 RPSVVNIGALLSFST---------------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLAL 86 (940)
Q Consensus 28 ~~~~i~IG~l~~~~~---------------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~ 86 (940)
.++++.||++||.+. ..|.....|+++|+|+||+++|+|+|++|+++++|+|+ +..++
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 578999999999973 22566789999999999999999999999999999966 77799
Q ss_pred HHHHHHHh----------------cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChH
Q 002301 87 AEALHLME----------------GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQ 149 (940)
Q Consensus 87 ~~a~~li~----------------~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~ 149 (940)
+.+.+|+. ++|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++.
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 99999884 48999999999999999999999999999999999999987 57899999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC-CChhHHHHHHHHHhcCCCeEEEEE
Q 002301 150 YQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE-ATEDEITDLLVKVALTESRIIVVH 228 (940)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viv~~ 228 (940)
.++.++++++++++|++|++|+.|++||....+.+.+.+++.|++|+..+.++.. .+..|+..++.+|+.+++|+||++
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 9999999999999999999999999999999999999999999999998888742 257899999999999999999999
Q ss_pred ecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCC
Q 002301 229 THYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKT 308 (940)
Q Consensus 229 ~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~ 308 (940)
+..+++..++++|+++||.. .+|++++.+........ ....+...+++++....+..+.+++|.++
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 48898876543211111 11223455678887777777888888776
Q ss_pred CCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeE
Q 002301 309 PNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPA 388 (940)
Q Consensus 309 ~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v 388 (940)
+++.+||||+++|+|++++++++.. .|+.. ...+++.|.++|++++|+|++|++
T Consensus 308 ---------~~~~~YDaV~~~a~Al~~a~~~~~~----------------~~~~~-~~~~~~~l~~~L~~~~~~g~~g~i 361 (410)
T cd06363 308 ---------FAFSVYAAVYAVAHALHNVLQCGSG----------------GCPKR-VPVYPWQLLEELKKVNFTLLGQTV 361 (410)
T ss_pred ---------HHHHHHHHHHHHHHHHHHHhCCCCC----------------CCCCC-CCCCHHHHHHHHhccEEecCCcEE
Confidence 3457999999999999998765432 12111 123588999999999999999999
Q ss_pred EEccCCCCCCCceEEEEeecc----ceEEEEEecCC
Q 002301 389 RFNSHGDLINPAYEIINVIGT----GYRRIGYWSNY 420 (940)
Q Consensus 389 ~Fd~~G~~~~~~~~I~~~~~~----~~~~VG~w~~~ 420 (940)
.||++|++ ...++|++++.. ++++||+|++.
T Consensus 362 ~fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 362 RFDENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred EeCCCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 99999985 467899999643 48999999874
No 23
>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=6.6e-43 Score=396.92 Aligned_cols=397 Identities=24% Similarity=0.419 Sum_probs=335.8
Q ss_pred CCCCceEEEEEEeecCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 002301 26 SGRPSVVNIGALLSFST-------------NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHL 92 (940)
Q Consensus 26 ~~~~~~i~IG~l~~~~~-------------~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~l 92 (940)
..-++++.||++||.+. ..|.+...||.+|+|+||+ +.+|||+||++.++|+|..+..|+++..++
T Consensus 26 ~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~F 104 (878)
T KOG1056|consen 26 ARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSF 104 (878)
T ss_pred ccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHH
Confidence 36688999999999972 2255678999999999999 999999999999999999999999999998
Q ss_pred Hhc-----------------CcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHH
Q 002301 93 MEG-----------------QTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAA 154 (940)
Q Consensus 93 i~~-----------------~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~a 154 (940)
+.. .|.++|||..|..+.+++.+..-++||||+|++|++.|++ .+|+||.|++|+|..|++|
T Consensus 105 v~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~A 184 (878)
T KOG1056|consen 105 VRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQA 184 (878)
T ss_pred HHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHH
Confidence 853 5899999999999999999999999999999999999999 7999999999999999999
Q ss_pred HHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc-CCCeEEEEEecCCc
Q 002301 155 IAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL-TESRIIVVHTHYNR 233 (940)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viv~~~~~~~ 233 (940)
|++++++|+|++|..++++++||+.++++|+++.+++|+||...+.++....+..+...++++.. .+++++|+++..++
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~ 264 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGED 264 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcch
Confidence 99999999999999999999999999999999999999999999888766778899999999887 89999999999999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHH--------------
Q 002301 234 GPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISR-------------- 299 (940)
Q Consensus 234 ~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~-------------- 299 (940)
++.++++|.++++.+ .++||+++.|....+... ......+|++++.+..+..+.+++|.+.
T Consensus 265 ~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~----~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e 339 (878)
T KOG1056|consen 265 ARRLLKAARRANLTG-EFLWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAE 339 (878)
T ss_pred HHHHHHHHHHhCCCc-ceEEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccch
Confidence 999999999999865 699999999987554432 2224788999999998888887776654
Q ss_pred -HHhhccC---------------CCCCC------CCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCC
Q 002301 300 -WRNLTDA---------------KTPNG------YIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGH 357 (940)
Q Consensus 300 -~~~~~~~---------------~~~~~------~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~ 357 (940)
|++.|+. |++.+ ......-...++|||+++|+||+.+.++..... .
T Consensus 340 ~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~------------~ 407 (878)
T KOG1056|consen 340 FWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGT------------S 407 (878)
T ss_pred hhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCc------------c
Confidence 3333321 11111 001112356799999999999999976543211 3
Q ss_pred ccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeecc----ceEEEEEecCCCCcceecCccccC
Q 002301 358 LRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGT----GYRRIGYWSNYSGLSVVRPETLYS 433 (940)
Q Consensus 358 ~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~----~~~~VG~w~~~~gl~~~~~~~~~~ 433 (940)
..|+++... +|.+|.+.+++++|.+..|.+.||++|| ....|+|++++.. .+..||+|++...|
T Consensus 408 ~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l---------- 475 (878)
T KOG1056|consen 408 GLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSL---------- 475 (878)
T ss_pred ccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeecccccc----------
Confidence 467777775 5999999999999999999999999999 4699999999843 57999999876532
Q ss_pred CCCCCCCCccccceeecCCCcccCCCcee
Q 002301 434 KPPNRSSSNQRLYSVIWPGQTTQKPRGWV 462 (940)
Q Consensus 434 ~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~ 462 (940)
+...+.|.++..+.|+|.|
T Consensus 476 ----------~i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 476 ----------NIEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred ----------cceeeeeccCCCCCccccc
Confidence 2357889999999999998
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=6.8e-43 Score=394.76 Aligned_cols=352 Identities=20% Similarity=0.316 Sum_probs=292.9
Q ss_pred EEEEEEeecCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCch
Q 002301 32 VNIGALLSFST----NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~~----~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 107 (940)
|+||++.|++. ..|.....|+++|+|+||+++++|+|++|+++++|++|++..|+.++++|++++|.+||||.+|.
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 68999999975 45888899999999999999999899999999999999999999999999999999999999985
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGD 186 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (940)
. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+.+++||....+.+++
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 4567999999999999999999987 579999999999999999999999999999999999999999999999999
Q ss_pred HHhcCceeEEEeecCCCCC-----ChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCC-CCCeEEEecCccc
Q 002301 187 TLAAKRCRISFKAPLSVEA-----TEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGML-GTGYVWIATSWLS 260 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~-----~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~wi~~~~~~ 260 (940)
.+++.|++|+..+.++... ...++..++++++.. ++++|+++...++..++++|+++||+ ..+|+||+++...
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 257888999988864 78888887777899999999999999 6889999865311
Q ss_pred ccc---------------CCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCC-------CCCCCCch
Q 002301 261 TAL---------------DTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPN-------GYIGLNAY 318 (940)
Q Consensus 261 ~~~---------------~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-------~~~~~~~~ 318 (940)
... ...........++++|++.+.+..+ .+..++|.++|++.....+.. ....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 100 0000011233457889888876655 677789999998865321100 12246778
Q ss_pred hhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccce-eEEEccCCCCC
Q 002301 319 GFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAG-PARFNSHGDLI 397 (940)
Q Consensus 319 ~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~G~~~ 397 (940)
++++||||+++|+|+++++++++.. .+|.+|.++|++++|+|++| ++.||++|++
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 9999999999999999987654321 15899999999999999999 8999999997
Q ss_pred CCceEEEEeeccce
Q 002301 398 NPAYEIINVIGTGY 411 (940)
Q Consensus 398 ~~~~~I~~~~~~~~ 411 (940)
...|.|++++++.|
T Consensus 373 ~~~y~v~~~~~~~~ 386 (404)
T cd06370 373 EGNYSVLALQPIPP 386 (404)
T ss_pred ccceEEEEeccccc
Confidence 58999999987644
No 25
>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=6.9e-43 Score=395.81 Aligned_cols=362 Identities=19% Similarity=0.243 Sum_probs=291.8
Q ss_pred EEEEEeecCCc---ch-hHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHH-----HHHHHHHHH-HhcCcEEEEc
Q 002301 33 NIGALLSFSTN---VG-KVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGF-----LALAEALHL-MEGQTVAIIG 102 (940)
Q Consensus 33 ~IG~l~~~~~~---~g-~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~-----~a~~~a~~l-i~~~v~aiiG 102 (940)
+||+++|++.. +| +....|+++|+|+||+++++|+|++|++++.|+++++. .+...+.++ ..++|.+|||
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 58999999843 44 67789999999999999999999999999999965554 333334433 3459999999
Q ss_pred CCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEE-EEEcCCc-chh
Q 002301 103 PQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIA-IYVDDDH-GRN 179 (940)
Q Consensus 103 p~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~i-i~~d~~~-g~~ 179 (940)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|+++++ +|.++.+ ++.
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 999999999999999999999999999999988 6799999999999999999999999999999985 5554433 333
Q ss_pred ---hHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 180 ---GIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 180 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
..+.+.+.+++.|++|+..+..+ .+..++..+|+++++. .|+||++++...+..++++|.++||++++|+||++
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 3477999999999875 49999999999999999999999999999999998
Q ss_pred CccccccCC---------CCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCC--CCCCCchhhhhhhH
Q 002301 257 SWLSTALDT---------NSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNG--YIGLNAYGFYAYDT 325 (940)
Q Consensus 257 ~~~~~~~~~---------~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~YDA 325 (940)
+++...++. .+..+....+++++++....+.+..+..++|.++|+++.....+.. ...++.+++++|||
T Consensus 238 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDa 317 (405)
T cd06385 238 DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDG 317 (405)
T ss_pred ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHH
Confidence 765432221 0111122345678888887777778889999999988532111111 11256889999999
Q ss_pred HHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEE
Q 002301 326 VWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIIN 405 (940)
Q Consensus 326 v~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~ 405 (940)
||++|.|+++++++++. +.+|..|.++|++++|+|++|++.||++|+|. ..|.|++
T Consensus 318 v~l~a~Al~~~~~~~~~-----------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~ 373 (405)
T cd06385 318 VMLYAHALNETMAKGGT-----------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWD 373 (405)
T ss_pred HHHHHHHHHHHHhcCCC-----------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEE
Confidence 99999999998765442 22699999999999999999999999999974 7787875
Q ss_pred e---eccceEEEEEecCCC
Q 002301 406 V---IGTGYRRIGYWSNYS 421 (940)
Q Consensus 406 ~---~~~~~~~VG~w~~~~ 421 (940)
+ ++++++.||+|+..+
T Consensus 374 ~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 374 MTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred ccCCCCCcEEEEEEEcccC
Confidence 5 678899999998654
No 26
>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=3e-42 Score=381.24 Aligned_cols=366 Identities=18% Similarity=0.274 Sum_probs=291.0
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCC-CCEEEEEEecCC-CCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLG-GTKLKLQMQDCN-HSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~-g~~l~~~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
+||+||+..+ .....|+++|++.+|.+..+++ +.+|...+.... .|.+.+.+++|++++++|.||+||.+|..+.
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 4899999654 3467999999999998864433 357777655443 5999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhc
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAA 190 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 190 (940)
+++++|+..+||+|+++.+ +...+.|.+++.|+ +..++++++++|+|++|++||+ +++|...++.|.+.+++
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 9999999999999987543 12344555566666 4678888999999999999994 44566779999999999
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCC
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFP 270 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~ 270 (940)
.|++|+.....+ .++.|++.+|++|+.+++++||++|+++.+..++++|+++||+.++|+||+++......+.
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 999998765554 3356999999999999999999999999999999999999999999999998752222111
Q ss_pred CccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCC
Q 002301 271 SDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSR 350 (940)
Q Consensus 271 ~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~ 350 (940)
.+......++.+++...++.+..++|.++|++.+..........+..+++++||||+++|.|++++.......+.
T Consensus 223 ~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~----- 297 (371)
T cd06388 223 ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDISR----- 297 (371)
T ss_pred HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCccc-----
Confidence 122223334888998888889999999999876543211111256788999999999999999987433221110
Q ss_pred cccccCCccC--CcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCcc
Q 002301 351 LSDIQGHLRL--DSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGLS 424 (940)
Q Consensus 351 ~~~~~g~~~~--~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl~ 424 (940)
...+..| +...+|.+|..|+++|++++|+|+||+++||++|+|.+..++|++++++|+++||+|++..||.
T Consensus 298 ---~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 298 ---RGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred ---CCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 0002234 3466899999999999999999999999999999999889999999999999999999998863
No 27
>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=8.2e-43 Score=394.25 Aligned_cols=363 Identities=19% Similarity=0.284 Sum_probs=299.3
Q ss_pred EEEEEeecCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC----CHHHHHHHHHHHH-hcCcEEEEcC
Q 002301 33 NIGALLSFST----NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNH----SGFLALAEALHLM-EGQTVAIIGP 103 (940)
Q Consensus 33 ~IG~l~~~~~----~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~----~~~~a~~~a~~li-~~~v~aiiGp 103 (940)
+||+++|.+. ..|+....|+++|+|+||+++++++|++|+++++|++| ++..++..+.+++ +++|.|||||
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 4899999983 34667889999999999999999899999999999999 8999998888887 4589999999
Q ss_pred CCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcc----h
Q 002301 104 QDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHG----R 178 (940)
Q Consensus 104 ~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g----~ 178 (940)
.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++|+.+++++ .
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 679999999999999999999999999999999999987774 5
Q ss_pred hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCc
Q 002301 179 NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSW 258 (940)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~ 258 (940)
...+.+.+.+++.|++|+... +.......|+..+|+++++.. |+||+++....+..++++|+++||+..+|+||..+.
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 568889999999999988543 442211479999999999865 999999999999999999999999999999998775
Q ss_pred cccccCCC--------CCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCC--CCCCCCCCchhhhhhhHHHH
Q 002301 259 LSTALDTN--------SPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKT--PNGYIGLNAYGFYAYDTVWL 328 (940)
Q Consensus 259 ~~~~~~~~--------~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~~~~~~~~~~~YDAv~~ 328 (940)
........ ....+...+..+|++++....++.+..++|.++|+++..... ......++.++.++||||++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 318 (396)
T cd06373 239 FGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLL 318 (396)
T ss_pred chhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHH
Confidence 53221110 000122334567888888888888889999999987532100 11122456789999999999
Q ss_pred HHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEe--
Q 002301 329 LARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINV-- 406 (940)
Q Consensus 329 la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~-- 406 (940)
+++|++++.++++. +.++.+|.++|++++|+|++|++.||++|++ ...|.|+++
T Consensus 319 ~a~Al~~~~~~~~~-----------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~~~~ 374 (396)
T cd06373 319 YALALNETLAEGGD-----------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWDMTD 374 (396)
T ss_pred HHHHHHHHHhccCC-----------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeeeccC
Confidence 99999998655432 1258999999999999999999999999996 477888765
Q ss_pred -eccceEEEEEecCCC
Q 002301 407 -IGTGYRRIGYWSNYS 421 (940)
Q Consensus 407 -~~~~~~~VG~w~~~~ 421 (940)
+++.++.||.|+..+
T Consensus 375 ~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 375 TETGTFEVVANYNGSN 390 (396)
T ss_pred CCCceEEEEeeccccc
Confidence 567899999998754
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=2.9e-42 Score=389.07 Aligned_cols=362 Identities=15% Similarity=0.246 Sum_probs=288.9
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..+.....|+++|+++||+++++|+|++|++++.|++|++..++.++++++.+ +|.+||||.||..
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 334566679999999999999999999999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC---Ccc--hhhHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD---DHG--RNGIA 182 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g--~~~~~ 182 (940)
+.+++++++.++||+|+++++++.+++ ..||+++|+.|++..++.++++++++|||++|++||.++ .++ ....+
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 678999999999999999999999999999999998643 233 22344
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
.+.+.++ .+++++....++ .+..++...+.+.+..++|+||++++..++..++++|+++||+.++|+||.+++....
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 5555553 678888887776 3456776666666668899999999999999999999999999888999996432221
Q ss_pred cCCCCCC---CCccccccceeEEEEEecCC-ChhHHHHHHHHHhhccCCCC----CCCCCCCchhhhhhhHHHHHHHHHH
Q 002301 263 LDTNSPF---PSDVMDDIQGVLTLRTYTPD-SVLKRKFISRWRNLTDAKTP----NGYIGLNAYGFYAYDTVWLLARAIN 334 (940)
Q Consensus 263 ~~~~~~~---~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~----~~~~~~~~~~~~~YDAv~~la~Al~ 334 (940)
....... .....+..+|++++.+..+. .+..++|.++|+++++..+- ......+.++.++|||||++|+|++
T Consensus 238 ~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~ 317 (391)
T cd06372 238 FWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVK 317 (391)
T ss_pred cccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 1000000 01133467788888776543 34566788888776642211 1112346789999999999999999
Q ss_pred HHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHH---hccccccceeEEEccCCCCCCCceEEEEeec--c
Q 002301 335 SFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSIL---QANMTGTAGPARFNSHGDLINPAYEIINVIG--T 409 (940)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~---~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~--~ 409 (940)
++++++. .|.+|..|.+.|+ +++|+|++|+|.||++|+| .+.|.|+++++ +
T Consensus 318 ~~~~~g~-----------------------~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~~ 373 (391)
T cd06372 318 EMLKAGK-----------------------DFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSGN 373 (391)
T ss_pred HHHhcCC-----------------------CCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccCC
Confidence 9876532 1336899999999 6899999999999999997 68999999975 2
Q ss_pred --ceEEEEEecCCC
Q 002301 410 --GYRRIGYWSNYS 421 (940)
Q Consensus 410 --~~~~VG~w~~~~ 421 (940)
.++.||+|+..+
T Consensus 374 ~~~~~~vg~~~~~~ 387 (391)
T cd06372 374 SSLFLPFLHYDSHQ 387 (391)
T ss_pred ccceeeEEEecchh
Confidence 479999998754
No 29
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=2.8e-42 Score=385.63 Aligned_cols=353 Identities=20% Similarity=0.256 Sum_probs=286.3
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+||++.|++ +..|...+.|+++|+|+||+++++++|+++++++.|++|++..++.++.++ .++|.+||||.||..+
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 589999997 455777899999999999999999889999999999999988877555443 4699999999999999
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
.++++++++++||+|+++++++.+++ ..||+|+|+.|++ ..++++++++|+|++|++|++++++|....+.+.+.+
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 6799999999986 4678899999999999999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCC-CeEEEEEecC-----CcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTE-SRIIVVHTHY-----NRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viv~~~~~-----~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
++.|++|+....++ .+..|+..+|++|++.+ +|+||+++.. ..+..++++|+++||+..+|+||.+++....
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 6778999999999999999999999854311
Q ss_pred cCC----CCC--CCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHH
Q 002301 263 LDT----NSP--FPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSF 336 (940)
Q Consensus 263 ~~~----~~~--~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~ 336 (940)
.+. ... .+++..++.++++++.+..+..+..+.|.+.|+.... .........+.++.++|||++++|+|++++
T Consensus 235 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~~YDav~~~a~Al~~a 313 (382)
T cd06371 235 LPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEI-PSDLEPEQVSPLFGTIYNSIYLLAHAVENA 313 (382)
T ss_pred CCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCC-CCCCCccccchhHHHHHHHHHHHHHHHHHH
Confidence 100 000 0123335788888887765555455556555432110 000111234566678999999999999998
Q ss_pred hhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEE
Q 002301 337 FKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGY 416 (940)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~ 416 (940)
++.++.. ++.+++++|++++|+|++|+++||++|++ .+.|.|+++.+.+++-+-.
T Consensus 314 ~~~g~~~------------------------d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~~ 368 (382)
T cd06371 314 RAAGGGV------------------------SGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYPT 368 (382)
T ss_pred HHhCCCc------------------------cHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeeee
Confidence 7654321 58999999999999999999999999986 6999999999877765544
Q ss_pred e
Q 002301 417 W 417 (940)
Q Consensus 417 w 417 (940)
+
T Consensus 369 ~ 369 (382)
T cd06371 369 Y 369 (382)
T ss_pred E
Confidence 4
No 30
>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=8.8e-42 Score=378.72 Aligned_cols=363 Identities=18% Similarity=0.283 Sum_probs=293.6
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEec-CCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQD-CNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D-~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||+||+..+ .....|+++|++.+|.. +.+|...+.. ...|.+.+.+++|+++++||.||+||.+|..+.+
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 4899998765 34679999999999986 3677765443 3459999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK 191 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (940)
++++|+.++||+|++.++. +..++|.+++.|+ ...++++++++|+|++|++||+ ++||...++.+.+.+++.
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 9999999999999875542 3467888999988 4789999999999999999996 569999999999999999
Q ss_pred ceeEEEee--cCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCC
Q 002301 192 RCRISFKA--PLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPF 269 (940)
Q Consensus 192 g~~v~~~~--~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 269 (940)
|++|+... .+.......|++.+|++|+..++++||+.|+++.+..++++|.++||+.++|+||+++......+.
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 98876443 122224567999999999999999999999999999999999999999999999998743222222
Q ss_pred CCccccccceeEEEEEecCCChhHHHHHHHHHhhcc-CCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccC
Q 002301 270 PSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTD-AKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKD 348 (940)
Q Consensus 270 ~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 348 (940)
.+......++.+++...++.+..++|.++|++... .+++.....++.+++++||||+++|.|++++...+......
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~-- 297 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRR-- 297 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC--
Confidence 11112334678888888888999999999986432 12122224567899999999999999999985443222110
Q ss_pred CCcccccCCccC--CcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCcc
Q 002301 349 SRLSDIQGHLRL--DSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGLS 424 (940)
Q Consensus 349 ~~~~~~~g~~~~--~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl~ 424 (940)
.++..| ....+|.+|..|.++|++++|+|+||+++||++|+|.+..++|++++++++++||+|++..||.
T Consensus 298 ------~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 298 ------GNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred ------CCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 012233 3356899999999999999999999999999999999889999999999999999999988863
No 31
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=2e-41 Score=382.90 Aligned_cols=365 Identities=22% Similarity=0.357 Sum_probs=312.7
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
|||+++|++ +..|.....|+++|+|+||+++++++|++|+++++|++|++..++..+.+|+.+ +|.+||||.+|..
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 599999998 556888899999999999999977689999999999999999999999999876 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC-cchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD-HGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~ 186 (940)
+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
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 999999999999999999999998886 5789999999999999999999999999999999998888 99999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC-
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT- 265 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~- 265 (940)
++++.|++|+....++......|+..+++++++.. |+||+++.+.++..+++++.++|+...+|+|+.++.+......
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 99999999999888874222688999999999887 9999998889999999999999998889999998766544211
Q ss_pred -------CCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCC---CCCCCCchhhhhhhHHHHHHHHHHH
Q 002301 266 -------NSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPN---GYIGLNAYGFYAYDTVWLLARAINS 335 (940)
Q Consensus 266 -------~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~~~YDAv~~la~Al~~ 335 (940)
.....+...+..+|++++.+..+..+..++|.++|+++++..+.. ....++.++..+||||+++++|+++
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 319 (389)
T cd06352 240 NSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNE 319 (389)
T ss_pred CCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHH
Confidence 011112344667899998888888888999999999887532110 1234678899999999999999999
Q ss_pred HhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeec--cceEE
Q 002301 336 FFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIG--TGYRR 413 (940)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~--~~~~~ 413 (940)
+..+++. +.++..+.+.|++++|.|++|++.||++|++. ..|+|+++++ +.+..
T Consensus 320 ~~~~~~~-----------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~ 375 (389)
T cd06352 320 TLAEGGD-----------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEV 375 (389)
T ss_pred HHHhCCC-----------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEE
Confidence 8665432 22588999999999999999999999999974 7899999986 56788
Q ss_pred EEEecCCCC
Q 002301 414 IGYWSNYSG 422 (940)
Q Consensus 414 VG~w~~~~g 422 (940)
++.+...++
T Consensus 376 ~~~~~~~~~ 384 (389)
T cd06352 376 VYLYDTSSG 384 (389)
T ss_pred EEeccccce
Confidence 888876654
No 32
>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=9.7e-42 Score=367.87 Aligned_cols=326 Identities=22% Similarity=0.365 Sum_probs=264.5
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHH-HHHHHHHHHHhcCcEEEEcCCCchh-HH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGF-LALAEALHLMEGQTVAIIGPQDAVT-SH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~-~a~~~a~~li~~~v~aiiGp~~s~~-a~ 110 (940)
+||+||+..+..|+..+.|+++|+++||++++++++++|++++.|++.++. .+..++|++++++|.|||||.+|.. +.
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 489999999999999999999999999999999877899999999998774 7778889999889999999999975 67
Q ss_pred HHHHhhccCCccEEeeecCC-CCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHh
Q 002301 111 VVSHVANELQVPLLSFSATD-PTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLA 189 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~-~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (940)
+++++|+..+||+|+++... |.+...+|++ +++.|++..|++|+++++++|+|++|++||+|+++ +..|.+.++
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 4333344444 89999999999999999999999999999999986 455666665
Q ss_pred cCceeEEEeecCCCC--CChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 190 AKRCRISFKAPLSVE--ATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~--~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
..++ +...++.. .++.|++.+|++|+.+++|+||++|+++.+..++++|+++||+.++|+|++|+......+.
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 4432 12222221 2466899999999999999999999999999999999999999999999999876654443
Q ss_pred CCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccC-CCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDA-KTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
.+.......+.+++...++.+..++|.+.|++.+.+ +...........++.+||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 223333556889999999999999999988876531 11111111123455666665432
Q ss_pred cCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCcc
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGLS 424 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl~ 424 (940)
|+||+|+||++|.|.+..++|++++.+|.++||+|++..||+
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 33
>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=2.9e-41 Score=371.88 Aligned_cols=321 Identities=22% Similarity=0.325 Sum_probs=273.8
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCN-HSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||++|++ ..|...+.|+++|+|+||+++|+|+|++|++++.|++ +++..+..++++|++++|.+||||.+|..+.+
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 HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK 191 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (940)
++++++.++||+|+++++++.++ .++++||+.|++..++.++++++++++|++|++||++++++.. +.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLR----LQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHH----HHHHHHhh
Confidence 99999999999999988887776 4689999999999999999999999999999999998875544 44455544
Q ss_pred ce---eEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 192 RC---RISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 192 g~---~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
+. .+.. ..++. .. |++.+|.+|+++++|+||+++...++..++++|+++||+++.|+|+.+++.....+..
T Consensus 153 ~~~g~~v~~-~~~~~--~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~-- 226 (327)
T cd06382 153 GISGITITV-RQLDD--DL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE-- 226 (327)
T ss_pred ccCCCeEEE-EEccC--Cc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh--
Confidence 44 4444 45553 34 9999999999999999999999999999999999999999999999987755443331
Q ss_pred CCCccccccceeEEEEEecCCChhHHHHHHHHHhhccC-CCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccccc
Q 002301 269 FPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDA-KTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSK 347 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 347 (940)
+......++++++++.++.+..++|.++|+++++. +++.....++.+++.+|||++++
T Consensus 227 ---~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~------------------ 285 (327)
T cd06382 227 ---DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF------------------ 285 (327)
T ss_pred ---hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe------------------
Confidence 22233457888888888889999999999999864 12222334677888899987654
Q ss_pred CCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 348 DSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 348 ~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
|+||+++||++|+|.+..|+|+|++++++++||+|+++.||
T Consensus 286 -----------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 -----------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred -----------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 78999999999999999999999999999999999988764
No 34
>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=1.5e-40 Score=375.31 Aligned_cols=362 Identities=16% Similarity=0.204 Sum_probs=285.7
Q ss_pred EEEEEeecCCc---ch-hHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCH----HHHHHHHHHH-HhcCcEEEEcC
Q 002301 33 NIGALLSFSTN---VG-KVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSG----FLALAEALHL-MEGQTVAIIGP 103 (940)
Q Consensus 33 ~IG~l~~~~~~---~g-~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~----~~a~~~a~~l-i~~~v~aiiGp 103 (940)
+||+++|.+.. ++ .....|+++|+|+||+++++++|++|++.++|+++++ ..+...+.++ +.+++.+||||
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 47888886521 12 3456899999999999999888999999999986553 3333222222 24588999999
Q ss_pred CCchhHHHHHHhhccCCccEEeeecCCCCCCC--CCCCceEEecCChHHHHHHHHHHHHHcCCe-EEEEEEEcCCcch--
Q 002301 104 QDAVTSHVVSHVANELQVPLLSFSATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEIVDHYGWR-EVIAIYVDDDHGR-- 178 (940)
Q Consensus 104 ~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~l~~~~w~-~v~ii~~d~~~g~-- 178 (940)
.||..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
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 99999999999999999999999999998886 378999999999999999988889999999 6889987543221
Q ss_pred --hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 179 --NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 179 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
...+.+.+.+++.|++|+....+. .+..|+..+|++++. ++|+||+++....+..++++|+++||+.++|+||..
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 135667788899999999865554 457899999999997 899999999999999999999999999999999988
Q ss_pred CccccccCCCC----------CCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCC--CCCCCchhhhhhh
Q 002301 257 SWLSTALDTNS----------PFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNG--YIGLNAYGFYAYD 324 (940)
Q Consensus 257 ~~~~~~~~~~~----------~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~YD 324 (940)
+++...+.... ...++..+++++++++.++.|..+..++|.++|++++....+.. +...+.+++++||
T Consensus 238 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YD 317 (399)
T cd06384 238 DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYD 317 (399)
T ss_pred hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHH
Confidence 76543221000 00133445788999999888888888999999987532211111 1123667899999
Q ss_pred HHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEE-
Q 002301 325 TVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEI- 403 (940)
Q Consensus 325 Av~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I- 403 (940)
||+++|.|+++++++++ .|.+|..|.++|++++|+|++|++.||++|+|. ..|.+
T Consensus 318 av~l~a~Al~~~~~~~~-----------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~ 373 (399)
T cd06384 318 GVMLYAMALNETLAEGG-----------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLW 373 (399)
T ss_pred HHHHHHHHHHHHHhcCC-----------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEE
Confidence 99999999999865533 233689999999999999999999999999974 56667
Q ss_pred --EEeeccceEEEEEecCCC
Q 002301 404 --INVIGTGYRRIGYWSNYS 421 (940)
Q Consensus 404 --~~~~~~~~~~VG~w~~~~ 421 (940)
.++++++++.||+|+..+
T Consensus 374 ~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 374 AMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EeecCCCCeEEEEEEEcCCC
Confidence 466789999999998654
No 35
>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=1.3e-38 Score=355.04 Aligned_cols=339 Identities=28% Similarity=0.494 Sum_probs=282.0
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHH-HHHhcCcEEEEcCCCchhHHHHHHhhccCCccEEee
Q 002301 48 AKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEAL-HLMEGQTVAIIGPQDAVTSHVVSHVANELQVPLLSF 126 (940)
Q Consensus 48 ~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~-~li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~ 126 (940)
+..|+++|+++||+++++++|++|++.+.|+|+++..+...+. .+..++|.+||||.|+..+.+++.+++.++||+|++
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 5689999999999999999999999999999965555555444 555569999999999999999999999999999999
Q ss_pred ecCCCCCCC--CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCc-eeEEEeecCCC
Q 002301 127 SATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKR-CRISFKAPLSV 203 (940)
Q Consensus 127 ~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~ 203 (940)
+++++.+++ .+||+|+|+.|++..+++++++++++|+|++|++||+++++|.+....+.+.+++.+ .++......+
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 479999999999999999999999999999999999999999999999999999965 4554412333
Q ss_pred CCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeE
Q 002301 204 EATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVL 281 (940)
Q Consensus 204 ~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l 281 (940)
....+....++++++ .++++||+++....+..++++|.++||..++|+||.++.+...... ..+.......|++
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 234455555555555 9999999999999999999999999999999999999987655321 1145668899999
Q ss_pred EEEEecCCChhHHHHHHHHHhhccC-CCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccC
Q 002301 282 TLRTYTPDSVLKRKFISRWRNLTDA-KTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRL 360 (940)
Q Consensus 282 ~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~ 360 (940)
++++..+..+.+++|.++|++.... +.......+..++.++||||+++|+|++++.++++....
T Consensus 237 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~--------------- 301 (348)
T PF01094_consen 237 GFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTN--------------- 301 (348)
T ss_dssp EEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTS---------------
T ss_pred eeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCC---------------
Confidence 9999999999999999999875321 122234567889999999999999999999876543210
Q ss_pred CcccccCChHHHHHHHHhccccccceeEEEcc-CCCCCCCceEEEEee
Q 002301 361 DSLRIFNGGNLLRDSILQANMTGTAGPARFNS-HGDLINPAYEIINVI 407 (940)
Q Consensus 361 ~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~G~~~~~~~~I~~~~ 407 (940)
....|.+|..+.+.|++++|+|++|++.||+ +|++.+..|+|+|+|
T Consensus 302 -~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 302 -GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp -SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred -CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 0146778999999999999999999999999 899889999999985
No 36
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=1.4e-37 Score=346.17 Aligned_cols=338 Identities=14% Similarity=0.186 Sum_probs=289.9
Q ss_pred CCceEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCC
Q 002301 28 RPSVVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQ 104 (940)
Q Consensus 28 ~~~~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~ 104 (940)
..++|+||++.|++ +..|.....++++|+++||+.+|+. |++|+++++|++++|..+.+.+.+|++++|.+||||.
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 34589999999998 4568889999999999999999985 8999999999999999999999999998999999999
Q ss_pred CchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHH
Q 002301 105 DAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAA 183 (940)
Q Consensus 105 ~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~ 183 (940)
+|..+.+++++++..+||+|++.++++.+++..+||+||+.+.+..++.++++++ ++++|++|++|++|+.||+...+.
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 9999999999999999999999999999888778999999999999999999975 567999999999999999999999
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcccccc
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTAL 263 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 263 (940)
+++.+++.|.+++....++ .+..|+..++.++++.++|+|++.....+...++++++++|+.. .|+++++.....
T Consensus 181 ~~~~~~~~G~~v~~~~~~~--~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~~~ 255 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGIT--AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVGNKS 255 (369)
T ss_pred HHHHHHHcCCEEEEEEeeC--CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCCCHH
Confidence 9999999999999888888 56789999999999999999988777778889999999999854 367665433210
Q ss_pred CCCCCCCCccccccceeEEEEEec-CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCC
Q 002301 264 DTNSPFPSDVMDDIQGVLTLRTYT-PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGN 342 (940)
Q Consensus 264 ~~~~~~~~~~~~~~~g~l~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 342 (940)
.. ....+..+|+++..++. ...+..++|.+.|++.++ .+++.++..+||++++++.|++++ +.
T Consensus 256 -~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~Y~~~~~l~~Al~~a----G~ 319 (369)
T PRK15404 256 -LS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ-------DPSGPFVWTTYAAVQSLAAGINRA----GS 319 (369)
T ss_pred -HH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC-------CCCccchHHHHHHHHHHHHHHHhh----CC
Confidence 00 11235678887765533 346778999999998763 234567888999999999999985 11
Q ss_pred cccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccce
Q 002301 343 LSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGY 411 (940)
Q Consensus 343 ~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~ 411 (940)
.++..|.++|++.+|+|++|++.|+++|++....|.|++|++++.
T Consensus 320 ------------------------~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 320 ------------------------DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ------------------------CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 147899999999999999999999999988788999999887654
No 37
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=1.6e-37 Score=342.00 Aligned_cols=321 Identities=23% Similarity=0.379 Sum_probs=270.2
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecC-CCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDC-NHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||++|+.++ +....|+++|+|+||+++|++++.++++.+.|+ .+++..++.++++|++++|.+||||.+|..+.+
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 5999999987 678899999999999999999777999999998 599999999999999989999999999999999
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK 191 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (940)
++++++.++||+|+++++++.++ ..++ ++..|++..++.++++++++++|++|++||++++ |...++.+.+.++++
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~~~~--~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~-~~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-RQFT--INLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDE-GLLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-Ccce--EEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcH-hHHHHHHHHHhhccC
Confidence 99999999999999999888776 2344 4445777789999999999999999999997765 555567777888888
Q ss_pred ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCC
Q 002301 192 RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPS 271 (940)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~ 271 (940)
|++|+.....+ ..+|++.+|.+++..++|+||+.+...++..++++|+++||+.++|+||.++......+. .
T Consensus 154 g~~v~~~~~~~---~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~-----~ 225 (324)
T cd06368 154 GIQVTVRRLDD---DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL-----E 225 (324)
T ss_pred CceEEEEEecC---CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-----h
Confidence 99998775444 223899999999999999999999999999999999999999999999998754432221 1
Q ss_pred ccccccceeEEEEEecCCChhHHHHHHHHHhhccCC-CCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCC
Q 002301 272 DVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAK-TPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSR 350 (940)
Q Consensus 272 ~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~ 350 (940)
.......++.++....++.+..++|.++|++.++.. +......++.++..+||||+++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~--------------------- 284 (324)
T cd06368 226 LFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF--------------------- 284 (324)
T ss_pred hhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe---------------------
Confidence 222344567777778888899999999999988631 1112235778899999998654
Q ss_pred cccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccceEEEEEecCCCCc
Q 002301 351 LSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTGYRRIGYWSNYSGL 423 (940)
Q Consensus 351 ~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~~~~VG~w~~~~gl 423 (940)
+|+++||++|+|.+..++|+++.+++++.||+|++..|+
T Consensus 285 ----------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ----------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ----------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 678999999999999999999999999999999987764
No 38
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=1.4e-36 Score=336.49 Aligned_cols=328 Identities=20% Similarity=0.282 Sum_probs=285.8
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+||++.|++ +..|.....|+++|++++|+++++ +|++|++++.|++|++..+...+.+|++++|.+|+||.+|..+
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 466888999999999999999887 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
.+++++++..+||+|+++++++.+.+..||++||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999888777776678999999999999999999975 67899999999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
++.|++|+....++ .+..|+...+.++++.++++|++.+...++..+++++++.|+.. .|+.++.+... ...
T Consensus 160 ~~~g~~v~~~~~~~--~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~~-- 231 (334)
T cd06342 160 KAAGGKVVAREGTT--DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDP-EFI-- 231 (334)
T ss_pred HHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCH-HHH--
Confidence 99999999988887 45789999999999999999999999999999999999999843 47766543211 000
Q ss_pred CCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 269 FPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
....+..+|++...++.+ ..+..++|.++|+++++ ..++.++..+||+++++++|++++ +.
T Consensus 232 --~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~al~~~----~~---- 294 (334)
T cd06342 232 --KIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG-------DPPGAYAPYAYDAANVLAEAIKKA----GS---- 294 (334)
T ss_pred --HHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHHHHHHHHHh----CC----
Confidence 112245788888777665 36788999999998875 234678899999999999999985 11
Q ss_pred cCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEe
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINV 406 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~ 406 (940)
.++..+.++|++.+|+|++|+++|+++|++.+..|+|+||
T Consensus 295 --------------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 --------------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred --------------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1488999999999999999999999999999999999875
No 39
>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=7.8e-37 Score=335.64 Aligned_cols=303 Identities=17% Similarity=0.270 Sum_probs=242.0
Q ss_pred CCCCHHHHHHHHHHHHhc-CcEEEE-cCCCch--hHHHHHHhhccCCccEEeeecCCC-CCCC-CCCCceEEecCChHHH
Q 002301 78 CNHSGFLALAEALHLMEG-QTVAII-GPQDAV--TSHVVSHVANELQVPLLSFSATDP-TLSS-LQFPYFVRTTQSDQYQ 151 (940)
Q Consensus 78 ~~~~~~~a~~~a~~li~~-~v~aii-Gp~~s~--~a~~va~~~~~~~vP~Is~~at~~-~ls~-~~~p~~~r~~psd~~~ 151 (940)
...||+..+.+.|+++.+ +|.||| ||.++. .++.++.++++++||+|+++++++ .+++ ..+|||+|+.|++..|
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 346999999999999977 699766 999987 567889999999999999987665 5666 6799999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCC-hhHHHHHHHHHhcCCCeEEEEEec
Q 002301 152 MAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEAT-EDEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
+.|+++++++|+|++|++||++++.+..+.+.+++.+...++|+.....++.... ..++..++++++..++|+||++|+
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 9999999999999999999999988888888888887766666544433332222 234788899999999999999999
Q ss_pred CCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCC
Q 002301 231 YNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPN 310 (940)
Q Consensus 231 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 310 (940)
.+.+..+|++|.++||++++|+||++++.....+. ...+...|++++.. ++|+.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~------~~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL------GPSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc------ccccCCcceEeecc------------ccccc--------
Confidence 99999999999999999999999999987655321 11134577777552 23321
Q ss_pred CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCc-cc-ccCChHHHHHHHHhccccccceeE
Q 002301 311 GYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDS-LR-IFNGGNLLRDSILQANMTGTAGPA 388 (940)
Q Consensus 311 ~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~-~~~~g~~l~~~l~~~~f~g~tG~v 388 (940)
.+.+..||||+++|+|++.++++++.++.. +.+|.. .. .|..|..|+++|++++|+|. ++
T Consensus 257 ------~~~a~~~DaV~vva~Al~~l~~~~~~~~~~----------~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i 318 (362)
T cd06378 257 ------SLRARVRDGVAIIATGASAMLRQHGFIPEA----------KGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DL 318 (362)
T ss_pred ------cHHHHHHHHHHHHHHHHHHHHhccCCCCCC----------CCCcCCCCCCCCCchHHHHHHhhcceECCC--ce
Confidence 124578999999999999987655544211 223432 33 48889999999999999996 99
Q ss_pred EEccCCCCCCCceEEEEeec-cceEEEEEecCCCCcce
Q 002301 389 RFNSHGDLINPAYEIINVIG-TGYRRIGYWSNYSGLSV 425 (940)
Q Consensus 389 ~Fd~~G~~~~~~~~I~~~~~-~~~~~VG~w~~~~gl~~ 425 (940)
+||++|++.++.|+|+|+++ .++++||+|+++ +|.+
T Consensus 319 ~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~~-~L~~ 355 (362)
T cd06378 319 SFTEDGYLVNPKLVVISLNKERVWEEVGKWENG-SLRL 355 (362)
T ss_pred eECCCCeEccceEEEEEecCCCCceEEEEEcCC-eEEE
Confidence 99999999999999999996 599999999854 4543
No 40
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=5.1e-36 Score=329.75 Aligned_cols=336 Identities=17% Similarity=0.182 Sum_probs=255.1
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||+||+.++.. .....++.+|++++|+++|+ .|..++++.+|+.+|++.|+.++|+|++++|.|||||.+|..+.++
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 589999997543 33445666677788888776 4677888889999999999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeecCC---C-----CCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHH
Q 002301 113 SHVANELQVPLLSFSATD---P-----TLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAA 183 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~---~-----~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 183 (940)
+++++..+||+|++.+.. | .+.+ ...+|.|++.|++ .+..++++++++|||++|+++|++++ |...++.
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 999999999999865321 1 1111 1224545555664 68899999999999999999998776 6666788
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh-------cCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA-------LTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
+.+.+++.|+.+.... ... .....+..+++.++ ..+.++||++|+++.+..++++|.++||+..+|+||++
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 8889999998766432 221 11223344443332 34566889999999999999999999999999999887
Q ss_pred Cccccc-cCCCCCCCCccccccceeEEEEEecCCChhHH----HHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHH
Q 002301 257 SWLSTA-LDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKR----KFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLAR 331 (940)
Q Consensus 257 ~~~~~~-~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~ 331 (940)
+.+... .+. +.......|+++++...|..+..+ .|.+.|+......++ ....+...++++|||||++
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 765542 222 345677889999999988777766 455556543321111 2224566799999999998
Q ss_pred HHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEeeccc-
Q 002301 332 AINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVIGTG- 410 (940)
Q Consensus 332 Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~~- 410 (940)
+ ++|++++|+|+||+++||++|.|.+..++|+.+.-++
T Consensus 307 -~----------------------------------------~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~ 345 (363)
T cd06381 307 -L----------------------------------------ETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSET 345 (363)
T ss_pred -H----------------------------------------HHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCc
Confidence 1 2367778999999999999999999999999998544
Q ss_pred ----eEEEEEecCCCCc
Q 002301 411 ----YRRIGYWSNYSGL 423 (940)
Q Consensus 411 ----~~~VG~w~~~~gl 423 (940)
.+.||+|++..||
T Consensus 346 ~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 346 LGKDGRWLATWNPSKGL 362 (363)
T ss_pred cccceEEeeeccCCCCC
Confidence 7899999998875
No 41
>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=3e-36 Score=335.67 Aligned_cols=308 Identities=33% Similarity=0.528 Sum_probs=265.6
Q ss_pred EEEEEeecCCc-------------chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc----
Q 002301 33 NIGALLSFSTN-------------VGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG---- 95 (940)
Q Consensus 33 ~IG~l~~~~~~-------------~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~---- 95 (940)
.||++||++.. .|.....++.+|+++||+++++++|++|++++.|++|++..|+.++.+|+.+
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 38999999852 2456678999999999999999999999999999999999999999999985
Q ss_pred ----------CcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCC
Q 002301 96 ----------QTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGW 164 (940)
Q Consensus 96 ----------~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w 164 (940)
+|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.+++++++++||
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 8999999999999999999999999999999999999976 67899999999999999999999999999
Q ss_pred eEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 165 REVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 165 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
++|++|+.|++||....+.+++.+++.|++|+....++......++..++++|++.++|+||+++...++..++++++++
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 99999999999999999999999999999999998888443378999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhh
Q 002301 245 GMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYD 324 (940)
Q Consensus 245 g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YD 324 (940)
|+ ...++|+..++.... ... ....+..+|++++.++.|.....+.|.+.+++ ++.++||
T Consensus 241 g~-~~~~~i~~~~~~~~~-~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~---------------~~~~~YD 299 (348)
T cd06350 241 GM-TGKYWIISTDWDTST-CLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK---------------YAYNVYD 299 (348)
T ss_pred CC-CCeEEEEEccccCcc-ccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH---------------HHHHHHh
Confidence 99 455555444443321 110 23346789999999888765556667776664 6778999
Q ss_pred HHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEE
Q 002301 325 TVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEII 404 (940)
Q Consensus 325 Av~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~ 404 (940)
|||+ .+.|+++|++ ...|+|+
T Consensus 300 av~~----------------------------------------------------------~v~f~~~gd~-~~~~~i~ 320 (348)
T cd06350 300 AVYA----------------------------------------------------------EVKFDENGDR-LASYDII 320 (348)
T ss_pred heeE----------------------------------------------------------EEEecCCCCc-ccceeEE
Confidence 9876 3889999996 5778999
Q ss_pred Eeec----cceEEEEEecCC
Q 002301 405 NVIG----TGYRRIGYWSNY 420 (940)
Q Consensus 405 ~~~~----~~~~~VG~w~~~ 420 (940)
+++. .++++||.|++.
T Consensus 321 ~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 321 NWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEEEcCCcEEEEEEEEEcCC
Confidence 9976 678999999863
No 42
>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=1.8e-35 Score=328.84 Aligned_cols=328 Identities=17% Similarity=0.244 Sum_probs=278.4
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCC---CCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCC
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTL---GGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQD 105 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL---~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 105 (940)
+||+++|++ +..|+....|+++|+++||+++|+. .|++|+++.+|+++++..+++.+.+|+++ +|.+||||.+
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 599999998 5668888999999999999988763 47999999999999999999999999987 9999999999
Q ss_pred chhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcC--CeEEEEEEEcCCcchhhHHH
Q 002301 106 AVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYG--WREVIAIYVDDDHGRNGIAA 183 (940)
Q Consensus 106 s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~ 183 (940)
|..+.++++++++.+||+|+++++++.+....+|++||+.|++..++.++++++++++ |+++++++.|++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888877766789999999999999999999999988 99999999999999999999
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcccccc
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTAL 263 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 263 (940)
+++.+++.|++|+....++ .+.+|++.++++|++.++|+|++.+...++..+++++.+.|+..+ .++.........+
T Consensus 161 ~~~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~~ 237 (345)
T cd06338 161 AREKAEAAGLEVVYDETYP--PGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYMTVGPAFPAF 237 (345)
T ss_pred HHHHHHHcCCEEEEEeccC--CCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEEecCCCcHHH
Confidence 9999999999999888787 456799999999999999999999999999999999999999654 3322221111111
Q ss_pred CCCCCCCCccccccceeEEEEEecCCC-------hhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHH
Q 002301 264 DTNSPFPSDVMDDIQGVLTLRTYTPDS-------VLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSF 336 (940)
Q Consensus 264 ~~~~~~~~~~~~~~~g~l~~~~~~~~~-------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~ 336 (940)
. .......+|+++..++.|.. +..++|.++|+++++. .++.++..+||+++++++|++++
T Consensus 238 ~------~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~p~~~~~~~y~a~~~~~~a~~~a 304 (345)
T cd06338 238 V------KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK-------APDYHAAGAYAAGQVLQEAVERA 304 (345)
T ss_pred H------HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC-------CCCcccHHHHHHHHHHHHHHHHh
Confidence 0 11223457888877766643 6689999999998862 35667889999999999999985
Q ss_pred hhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEE
Q 002301 337 FKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIIN 405 (940)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~ 405 (940)
+. .++..+.++|++++|+|++|++.|+++|++.. .+.|++
T Consensus 305 ----g~------------------------~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 305 ----GS------------------------LDPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ----CC------------------------CCHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 11 14789999999999999999999999998754 444554
No 43
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.1e-35 Score=326.32 Aligned_cols=320 Identities=18% Similarity=0.234 Sum_probs=272.9
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....|+++|++++|+++|+ +|++++++++|+++++..+++.+++|+++ +|.+||||.+|..
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 589999998 567899999999999999999998 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC----CCCCceEEecCChHHHHHHHHHHHHH-----cCCeEEEEEEEcCCcchh
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS----LQFPYFVRTTQSDQYQMAAIAEIVDH-----YGWREVIAIYVDDDHGRN 179 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~----~~~p~~~r~~psd~~~~~ai~~~l~~-----~~w~~v~ii~~d~~~g~~ 179 (940)
+.+++++++.++||+|+++++++.+++ ..+|++||+.|++..+..++++++.+ ++|++|++++.+++||+.
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 hHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcc
Q 002301 180 GIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWL 259 (940)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 259 (940)
..+.+++.+++.|++|+....++ .+..++..++.+|+..++++|++.+...+...+++++.++|+..+ ++..+..
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 99999999999999999888887 456789999999999999999999999999999999999998533 2332211
Q ss_pred ccccCCCCCCCCccccccceeEEEEEecC----CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHH
Q 002301 260 STALDTNSPFPSDVMDDIQGVLTLRTYTP----DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINS 335 (940)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~g~l~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~ 335 (940)
....... ....+..+|+++...+.| .++..++|.++|+++++ ..++.++..+||+++++++|+++
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 1100000 112244566665554443 56778999999999886 34678889999999999999998
Q ss_pred HhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCC
Q 002301 336 FFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLI 397 (940)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~ 397 (940)
+ +. .++..+.++|++.+|+|++|+++||++|++.
T Consensus 304 a---g~-------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 304 A---GS-------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred h---cC-------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 5 11 1478999999999999999999999999964
No 44
>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=1.2e-35 Score=324.40 Aligned_cols=303 Identities=22% Similarity=0.253 Sum_probs=262.5
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
|||++.|++ +..|+....|+++|+++||+++|+ .|++|+++++|+++++..+++++.+|+++ +|.+|+||.+|..
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 456888899999999999999999 59999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHH
Q 002301 109 SHVV-SHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGD 186 (940)
Q Consensus 109 a~~v-a~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (940)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++|+.|++||+...+.+++
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 99999999999999999999887 457999999999999999999999999999999999999999999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTN 266 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 266 (940)
.+++.|++|+....++ .+.+|+..+++++++.++|+|++.+.+.++..++++++++|+..+ |+.++.+....-.
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 567899999999999999999999999999999999999998443 6666543321100
Q ss_pred CCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 267 SPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
. .......+|+++..++.+. +..++|.++|+++++ ..++.++..+||+++++++|
T Consensus 234 ~---~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~g-------~~p~~~~~~~Yd~~~~l~~A-------------- 288 (312)
T cd06346 234 P---ADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAYG-------ESPSAFADQSYDAAALLALA-------------- 288 (312)
T ss_pred H---hhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHhC-------CCCCccchhhHHHHHHHHHH--------------
Confidence 0 1112456788877665544 788999999999986 24678889999999998876
Q ss_pred cCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceE
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYE 402 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~ 402 (940)
|.|++|++.||++|++.. .|+
T Consensus 289 ----------------------------------~~g~~g~~~f~~~g~~~~-~~~ 309 (312)
T cd06346 289 ----------------------------------YQGASGVVDFDENGDVAG-SYD 309 (312)
T ss_pred ----------------------------------hCCCccceeeCCCCCccc-cee
Confidence 357899999999998643 554
No 45
>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=1.4e-34 Score=321.18 Aligned_cols=334 Identities=19% Similarity=0.285 Sum_probs=274.3
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....|+++|+++||+++|++ |++|+++++|++++|..+.+++++|+++ +|.+|+||.+|..
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 599999999 5678999999999999999999984 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHH-HHHHHHHHc-CCeEEEEEEEcCC-cchhhHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMA-AIAEIVDHY-GWREVIAIYVDDD-HGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~-ai~~~l~~~-~w~~v~ii~~d~~-~g~~~~~~l~ 185 (940)
+.++.+++++.+||+|+++++++.+. ..+||+||+.+++..+.. ++..+++++ ||+++++||.+++ ||+...+.++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 99999999999999999887776654 346899999887765544 455667888 9999999997655 9999999999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
+.+++.|++|+....++ .+++|+..++.+|+++++|+|++.+.+.++..+++++.+.|+..+ |+.++++.... .
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 467899999999999999999999999999999999999998653 55544432211 1
Q ss_pred CCCCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCc
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNL 343 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 343 (940)
. +...+..+|++...++.+. .+..++|.++|+++++ ..++.++..+||+++++++|++++..+++..
T Consensus 233 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~ 301 (344)
T cd06348 233 F----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG-------KAPPQFSAQAFDAVQVVAEALKRLNQKQKLA 301 (344)
T ss_pred H----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC-------CCccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 0 1233567888887776653 4678999999998886 2456778899999999999999974332110
Q ss_pred ccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEE
Q 002301 344 SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEI 403 (940)
Q Consensus 344 ~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I 403 (940)
+ |. .-..+..|.++|++.+|+|++|++.||++|++....|.|
T Consensus 302 ~---------------~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 302 E---------------LP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred c---------------ch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 0 00 001367899999999999999999999999987666643
No 46
>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=6.7e-35 Score=321.52 Aligned_cols=333 Identities=17% Similarity=0.131 Sum_probs=245.3
Q ss_pred CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecC------CC-CHHHHHHHHHHHHhcCc--EEEEcCCCchhHHH
Q 002301 41 STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDC------NH-SGFLALAEALHLMEGQT--VAIIGPQDAVTSHV 111 (940)
Q Consensus 41 ~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~------~~-~~~~a~~~a~~li~~~v--~aiiGp~~s~~a~~ 111 (940)
+...|+..+.|+++|++++|++. |.+|.+...++ .+ |.+.+..++|+++++++ .|||||.++..+..
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 44468889999999999999985 67888888877 55 56666677999999988 89999999999999
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHH-HHhc
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGD-TLAA 190 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~-~l~~ 190 (940)
++.+++.++||+|+++. +..++.+||||+|+.|++..+++|+++++++|+|++|++||+|++++......+.+ ...+
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 IKSVTGALGIPTFSASY--GQEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccC--CCcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 99999999999998744 33344689999999999999999999999999999999999777644323333333 3334
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec-CCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCC
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH-YNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPF 269 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~-~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 269 (940)
.++++. + ....++...+++|+..+.+.||+.+. ++.+..+|++|.++||++.+|+||++++.....+.
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 445543 1 12356889999999988856555555 59999999999999999999999999987655443
Q ss_pred CCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCC
Q 002301 270 PSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDS 349 (940)
Q Consensus 270 ~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 349 (940)
++......++.+++...+.....+.+.++|.+..- .+.........++.+||||++++.|++.+..+.....
T Consensus 230 -~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~----- 301 (368)
T cd06383 230 -LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTL--RPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG----- 301 (368)
T ss_pred -hhhccccCcEEEeeccccchhhhccceeeccCCcc--CchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC-----
Confidence 22334456789999876665555777777632110 0111112344588999999999999997632111110
Q ss_pred CcccccCCccCCcc---ccc-CChHHHHHHHHhccccccceeEEEccCCCCCCCc
Q 002301 350 RLSDIQGHLRLDSL---RIF-NGGNLLRDSILQANMTGTAGPARFNSHGDLINPA 400 (940)
Q Consensus 350 ~~~~~~g~~~~~~~---~~~-~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~ 400 (940)
+.... ...|... -+| .+|..+.++|+.++|+|+||+|+||++|.|.+..
T Consensus 302 -~~~~~-~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~ 354 (368)
T cd06383 302 -STGTS-VLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKT 354 (368)
T ss_pred -CcCcc-ccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeee
Confidence 00000 1122221 245 5677999999999999999999999999875433
No 47
>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=5.4e-34 Score=316.27 Aligned_cols=324 Identities=19% Similarity=0.278 Sum_probs=274.2
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCC--CCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCc
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTT--LGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDA 106 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~i--L~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 106 (940)
+||++.|++ +..|.....|+++|+++||+++|+ ++|++|+++++|+++++..+++.+++|+++ +|.+|+||.+|
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 599999998 467888999999999999999973 579999999999999999999999999988 99999999999
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc------CCeEEEEEEEcCCcchhh
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY------GWREVIAIYVDDDHGRNG 180 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~------~w~~v~ii~~d~~~g~~~ 180 (940)
..+.++++++++.++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++|+.|++||...
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 99999999999999999999888888877778999999999999999999999876 469999999999999999
Q ss_pred HHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccc
Q 002301 181 IAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLS 260 (940)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 260 (940)
.+.+++.+++.|++|+....++ .+..|++.++.+|+..++|+|++.+...++..+++++++.|+..+ .++...++..
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 457799999999999999999999999999999999999998643 3322222221
Q ss_pred cccCCCCCCCCccccccceeEEEEEecCC-ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 002301 261 TALDTNSPFPSDVMDDIQGVLTLRTYTPD-SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQ 339 (940)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~ 339 (940)
... .. ....+..+|+++..++.++ .+..+.|.++|+++++ ..++.++..+||+++++++|++++.
T Consensus 238 ~~~-~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~-------~~~~~~~~~~Y~a~~~l~~A~~~ag-- 303 (347)
T cd06340 238 DPS-FV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG-------VDLSGNSARAYTAVLVIADALERAG-- 303 (347)
T ss_pred cHH-HH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC-------CCCChHHHHHHHHHHHHHHHHHHhc--
Confidence 110 00 1223456888888776665 6778999999999886 2367889999999999999999851
Q ss_pred CCCcccccCCCcccccCCccCCcccccCChHHHH--HHHHhcccc---ccceeEEEccCCCCCCC
Q 002301 340 GGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLR--DSILQANMT---GTAGPARFNSHGDLINP 399 (940)
Q Consensus 340 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~--~~l~~~~f~---g~tG~v~Fd~~G~~~~~ 399 (940)
. .++..+. .+|++..+. +..|++.||++|+..++
T Consensus 304 --~------------------------~~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 304 --S------------------------ADPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred --C------------------------CCHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 1 1477788 488777765 56889999999986554
No 48
>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=3.1e-33 Score=309.83 Aligned_cols=337 Identities=15% Similarity=0.135 Sum_probs=274.9
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....|+++|+++||+.||++ |++|+++++|++++|..+++++.+|+++ +|.+|+||.+|..
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 599999998 5668889999999999999999996 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++.+++++.++|++++.++.. ...+||+||+.+.+..++..+++++.. .++++|++|+.|++||+...+.+++.
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 99999999999999997643221 135699999999999999999998764 57999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|++|+....++ .+..|+..++.++++.++|+|++...+.++..+++++++.|+..+...++........+..
T Consensus 157 ~~~~G~~vv~~~~~~--~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~-- 232 (348)
T cd06355 157 LESLGGEVVGEEYLP--LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELRG-- 232 (348)
T ss_pred HHHcCCeEEeeEEec--CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHhh--
Confidence 999999999988888 5789999999999999999999999999999999999999987544455544322211111
Q ss_pred CCCCccccccceeEEEEEec--CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYT--PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
-..+...|+++...+. .+.+..++|.++|+++++. ...++.++..+||++++++.|++++ +.
T Consensus 233 ----~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~-----~~~~~~~a~~~Y~a~~~~~~Al~~a----g~--- 296 (348)
T cd06355 233 ----IGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQ-----DRVTNDPMEAAYIGVYLWKQAVEKA----GS--- 296 (348)
T ss_pred ----cChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHh----CC---
Confidence 1113456776654433 3567789999999998862 1234556788999999999999985 11
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee-ccceEEE
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI-GTGYRRI 414 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~-~~~~~~V 414 (940)
.+++.|.++|++++|+++.|+++|+++++.....+.|.+++ ++.++.|
T Consensus 297 ---------------------~~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 297 ---------------------FDVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred ---------------------CCHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 14889999999999999999999998443334455677775 4555544
No 49
>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=8.8e-34 Score=312.88 Aligned_cols=321 Identities=17% Similarity=0.168 Sum_probs=268.4
Q ss_pred EEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchhH
Q 002301 33 NIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~a 109 (940)
+||++.|++ +..|+....|+++|+++||+.+|+ +|++|+++++|++++|..++..+.+|+++ +|++|+|+.+|..+
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 489999998 567888899999999999999998 59999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcC-CeEEEEEEEcCC-cchhhHHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYG-WREVIAIYVDDD-HGRNGIAALGDT 187 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~-w~~v~ii~~d~~-~g~~~~~~l~~~ 187 (940)
.++++++++.++|+|++.++++.++ ..+||+||+.|++..+++++++++++++ |++|++|+.|++ ||+...+.+.+.
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 9999999999999999888888777 4679999999999999999999998886 999999998876 999999999999
Q ss_pred Hhc-CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCC
Q 002301 188 LAA-KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTN 266 (940)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 266 (940)
+++ .|+++.....++ ..+.++..++.++++.++++|++.+.......+++++.+.+. ...+++++.+... +..
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~~~ 232 (332)
T cd06344 159 LLERGGGIVVTPCDLS--SPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-DTL 232 (332)
T ss_pred HHHhcCCeeeeeccCC--CCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-HHH
Confidence 999 588887655444 456678889999999999999999888888888998887664 2334554443221 111
Q ss_pred CCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 267 SPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
.......+|+++..++.++.+..++|.+.|+++++ ..++.++..+||+++++++|++++. ..
T Consensus 233 ----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~a~~~Yda~~~l~~A~~~ag----~~--- 294 (332)
T cd06344 233 ----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG-------GDVSWRTATAYDATKALIAALSQGP----TR--- 294 (332)
T ss_pred ----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc-------CCchHHHHhHHHHHHHHHHHHHhCC----Ch---
Confidence 11224678888888888887788999999999886 2467889999999999999999841 10
Q ss_pred cCCCcccccCCccCCcccccCChHHHH-HHHHhccccccceeEEEccCCCCCCCc
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLR-DSILQANMTGTAGPARFNSHGDLINPA 400 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~-~~l~~~~f~g~tG~v~Fd~~G~~~~~~ 400 (940)
++..+. ..+++..|+|+.|+++||++|++....
T Consensus 295 ---------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~~ 328 (332)
T cd06344 295 ---------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQA 328 (332)
T ss_pred ---------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCcC
Confidence 244444 677788899999999999999976543
No 50
>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=2.1e-33 Score=311.09 Aligned_cols=317 Identities=16% Similarity=0.212 Sum_probs=271.5
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+||++.|++ +..|+....++++|+++||+.+|+. |++|+++++|+++++..+++.+.+|++++|++||||.+|..+
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 4578889999999999999999984 899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcC-CeEEEEEEEcCCcchhh
Q 002301 110 HVV-------SHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYG-WREVIAIYVDDDHGRNG 180 (940)
Q Consensus 110 ~~v-------a~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~ 180 (940)
.++ +++++.+++|+|++.++++.+++ ..+||+||+.|++..++.++++++.+.+ |++|++++.|+.||+..
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 5679999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHhc--CceeEEEeecCCCCCCh-hHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 181 IAALGDTLAA--KRCRISFKAPLSVEATE-DEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 181 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~-~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
.+.+++.+++ .|++|+....++ .+. +|+..++.++++.++++|++...+.++..++++++++|+..+ |+...
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 999999887777 455 899999999999999999999888899999999999998543 44443
Q ss_pred ccccccCCCCCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHH
Q 002301 258 WLSTALDTNSPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINS 335 (940)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~ 335 (940)
+....+. ....+..+|++...++.+ +.+..++|.++|+++++ ..++.++..+||+++++++|+++
T Consensus 235 ~~~~~~~------~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~ 301 (342)
T cd06329 235 LDQPGNP------AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG-------RVPDYYEGQAYNGIQMLADAIEK 301 (342)
T ss_pred ccchhHH------HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC-------CCCCchHHHHHHHHHHHHHHHHH
Confidence 3322110 122345678777766554 36788999999998875 24567889999999999999998
Q ss_pred HhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEcc-CCCC
Q 002301 336 FFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNS-HGDL 396 (940)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~G~~ 396 (940)
+ +.. ++..+.++|++++|+|+.|+++|++ +++.
T Consensus 302 a----g~~------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~~ 335 (342)
T cd06329 302 A----GST------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQA 335 (342)
T ss_pred h----CCC------------------------CHHHHHHHHhCCccccCCCCeEEcccCcch
Confidence 4 111 4889999999999999999999985 4443
No 51
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=1e-32 Score=306.41 Aligned_cols=338 Identities=23% Similarity=0.266 Sum_probs=278.9
Q ss_pred CceEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCC
Q 002301 29 PSVVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQ 104 (940)
Q Consensus 29 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 104 (940)
.++|+||++.|++ +.+|+....++++|+|+||+.+|++ |.+|++++.|+.+|+..+.+.+.+|+.+ +|.+|+||.
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 3479999999998 6779999999999999999999985 7889999999999999999999999984 999999999
Q ss_pred CchhHHHHHHhhccCCccEEeeecCCCCCCCCCC-CceEEecCChHHHHHHHHHHHH-HcCCeEEEEEEEcCCcchhhHH
Q 002301 105 DAVTSHVVSHVANELQVPLLSFSATDPTLSSLQF-PYFVRTTQSDQYQMAAIAEIVD-HYGWREVIAIYVDDDHGRNGIA 182 (940)
Q Consensus 105 ~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~-p~~~r~~psd~~~~~ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~ 182 (940)
+|..+.++.+++++.++|+|++++++|.+....+ +++||+.|++..|+.++++++. ..+.++|++|+.|+.||+...+
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 9999999999999999999999999998777554 5599999999999999999865 5666799999999999999999
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
.+++.+++.|++++..+.+.+ ...++..++.+++..++++|++.....+...++++++++|+... ..++........
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~--~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~~~ 243 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAP--GDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTAEF 243 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCC--CCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCchhh
Confidence 999999999998665566663 44459999999999999999999999999999999999998654 222222221111
Q ss_pred cCCCCCCCCccccccc--eeEEEEEecC-CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 002301 263 LDTNSPFPSDVMDDIQ--GVLTLRTYTP-DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQ 339 (940)
Q Consensus 263 ~~~~~~~~~~~~~~~~--g~l~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~ 339 (940)
... ...... +.+......+ ..|..+.|.++|+++++ .+..++.++..+||++++++.|++++..
T Consensus 244 ~~~-------~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g-----~~~~~~~~~~~~y~a~~~~~~ai~~a~~- 310 (366)
T COG0683 244 EEI-------AGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYG-----DPAAPSYFAAAAYDAVKLLAKAIEKAGK- 310 (366)
T ss_pred hhh-------cccCccccEEEEecccccccCcchHHHHHHHHHHhC-----CCCCcccchHHHHHHHHHHHHHHHHHhc-
Confidence 101 111122 2333333333 35677889999999986 2345677899999999999999999732
Q ss_pred CCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhcc-ccccceeEEEccCCCCCCCceEEEEeecc
Q 002301 340 GGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQAN-MTGTAGPARFNSHGDLINPAYEIINVIGT 409 (940)
Q Consensus 340 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~~G~~~~~~~~I~~~~~~ 409 (940)
. . +++++.++|+... +++.+|.+.||++|++....+.|.+++..
T Consensus 311 --~-----------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 311 --S-----------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred --C-----------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 0 0 4788999999987 78999999999999999999999888854
No 52
>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=1.2e-32 Score=305.37 Aligned_cols=339 Identities=11% Similarity=0.124 Sum_probs=271.9
Q ss_pred EEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 32 VNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
|+||++.|++ +..|...+.|+++|+|+||++||++ |++|+++++|++++|..++.++.+|+++ +|.+||||.+|.
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 6899999998 5678899999999999999999996 8999999999999999999999999985 899999999999
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHH-cCCeEEEEEEEcCCcchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDH-YGWREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
.+.++.+++.+.++|+|.... ... ...||+||+.|++..++.++++++.. .+ +++++|+.|++||+...+.++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~va~l~~d~~~g~~~~~~~~ 154 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYG-KKIYTIAADYNFGQLSADWVR 154 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCC-CeEEEEcCCcHHHHHHHHHHH
Confidence 999999999999999996421 122 33589999999999999999998765 56 679999999999999999999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
+.+++.|++++....++ .+..|+..++.+|++.++|+|++.....+...++++++++|+..+ ++...........
T Consensus 155 ~~~~~~G~~vv~~~~~~--~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~ 229 (374)
T TIGR03669 155 VIAKENGAEVVGEEFIP--LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEH 229 (374)
T ss_pred HHHHHcCCeEEeEEecC--CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhh
Confidence 99999999999888888 578999999999999999999999888899999999999998654 1222111111110
Q ss_pred CCCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCc
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNL 343 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 343 (940)
. ........|+++..++.+ +.+..++|.++|+++++. ...++.++..+||+++++++|++++ +.
T Consensus 230 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~-----~p~~~~~a~~~Yda~~~l~~Ai~~A----Gs- 295 (374)
T TIGR03669 230 K----RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPD-----APYINQEAENNYFSVYMYKQAVEEA----GT- 295 (374)
T ss_pred h----hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCC-----CCCCChHHHHHHHHHHHHHHHHHHh----CC-
Confidence 0 001134567766665554 467889999999998862 1123567888999999999999985 11
Q ss_pred ccccCCCcccccCCccCCcccccCChHHHHHHHHh-ccccccceeEEEccCCCCCCCceEEEEeec-cceEEEEEec
Q 002301 344 SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQ-ANMTGTAGPARFNSHGDLINPAYEIINVIG-TGYRRIGYWS 418 (940)
Q Consensus 344 ~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~-~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~~-~~~~~VG~w~ 418 (940)
.+++.|.++|++ ..|+|+.|+++||++++.....+.|.+++. +++..+..|+
T Consensus 296 -----------------------~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 -----------------------TDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred -----------------------CCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 158999999997 579999999999976654444455666654 3345554554
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=1.4e-32 Score=307.43 Aligned_cols=341 Identities=17% Similarity=0.209 Sum_probs=283.1
Q ss_pred CceEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCC
Q 002301 29 PSVVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQ 104 (940)
Q Consensus 29 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 104 (940)
+++|+||+++|++ +..|.....++++|++++|+.+|++ |++|+++++|+++++..+...+.+|+++ +|.+||||.
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 5689999999998 4568889999999999999999985 9999999999999999999999999985 999999999
Q ss_pred CchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHH-HHHcCCeEEEEEEEcCCcchhhHH
Q 002301 105 DAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEI-VDHYGWREVIAIYVDDDHGRNGIA 182 (940)
Q Consensus 105 ~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~ 182 (940)
+|..+.+++++++..+||+|++.++++.+++ ..+||+||+.|++..++.+++++ +++++|++|++|+.|+.||+...+
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 47899999999999999999996 567899999999999999999999
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
.+++.+++.|++++....++ .+.+|+..++.++++.++++|++.+...++..++++++++|+... ++.+++....
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 567899999999999999999999999899999999999998643 4555443221
Q ss_pred cC-CCCCCCCccccccceeEEEEEec-------CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHH
Q 002301 263 LD-TNSPFPSDVMDDIQGVLTLRTYT-------PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAIN 334 (940)
Q Consensus 263 ~~-~~~~~~~~~~~~~~g~l~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 334 (940)
.. .. ....+..+|++....+. .+.+..+.|.+.|+++++. ..+++.++..+||++.++++|++
T Consensus 238 ~~~~~----~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~a~~ 308 (362)
T cd06343 238 ASVLK----PAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPE-----GDPPDTYAVYGYAAAETLVKVLK 308 (362)
T ss_pred HHHHH----HhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCC-----CCCCchhhhHHHHHHHHHHHHHH
Confidence 10 10 11224567877766543 2357788999999988852 12467888999999999999999
Q ss_pred HHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccc---cc-cceeEEEccCCCCCCCceEEEEeeccc
Q 002301 335 SFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANM---TG-TAGPARFNSHGDLINPAYEIINVIGTG 410 (940)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f---~g-~tG~v~Fd~~G~~~~~~~~I~~~~~~~ 410 (940)
++ ++.. +++.+.++|+++++ .+ ..|++.|++++++....+.|.++++++
T Consensus 309 ~a---g~~~------------------------~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~ 361 (362)
T cd06343 309 QA---GDDL------------------------TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGR 361 (362)
T ss_pred Hh---CCCC------------------------CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCc
Confidence 85 1111 48899999999997 33 345899987655455667787777665
Q ss_pred e
Q 002301 411 Y 411 (940)
Q Consensus 411 ~ 411 (940)
|
T Consensus 362 ~ 362 (362)
T cd06343 362 W 362 (362)
T ss_pred C
Confidence 3
No 54
>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=9.5e-33 Score=305.85 Aligned_cols=322 Identities=20% Similarity=0.330 Sum_probs=271.5
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|+....|+++|+|+||+++|+ +|++|++++.|+++++..+.+.+++|+++ +|.+||||.++..
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 599999998 456788899999999999999987 69999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcC-CcchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDD-DHGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~-~~g~~~~~~l~~ 186 (940)
+.+++++++..+||+|++.++.+.+++.. +++||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 99999999999999999988877776532 589999999999999999986 678999999999876 899999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTN 266 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 266 (940)
.+++.|++++....++ .+..++...++++++.++++|++.+.......+++++++.|+. ..|++++.+......
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~~- 232 (334)
T cd06347 159 AFKKLGGEIVAEETFN--AGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKLE- 232 (334)
T ss_pred HHHHcCCEEEEEEEec--CCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHHH-
Confidence 9999999999888887 4567899999999999999999999999999999999999974 347776655432110
Q ss_pred CCCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 267 SPFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
....+..+|++...++.+. .+..+.|.++|+++++ ..++.++..+||+++++++|++++ +.
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~Al~~a---g~--- 295 (334)
T cd06347 233 ----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG-------KEPDAFAALGYDAYYLLADAIERA---GS--- 295 (334)
T ss_pred ----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhHHHHHHHHHHHHHHHHHh---CC---
Confidence 1123567887777766553 5778999999988775 346778889999999999999984 11
Q ss_pred cccCCCcccccCCccCCcccccCChHHHHHHHHhc-cccccceeEEEccCCCCCCCce
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQA-NMTGTAGPARFNSHGDLINPAY 401 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~-~f~g~tG~v~Fd~~G~~~~~~~ 401 (940)
.++..+.+.|.+. +|+|++|+++|+++|+..+..+
T Consensus 296 ----------------------~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~~ 331 (334)
T cd06347 296 ----------------------TDPEAIRDALAKTKDFDGVTGKITIDENGNPVKSAV 331 (334)
T ss_pred ----------------------CCHHHHHHHHHhCCCcccceeeeEECCCCCcCCCce
Confidence 0478899998875 6999999999999998654443
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=1.8e-32 Score=302.64 Aligned_cols=320 Identities=15% Similarity=0.153 Sum_probs=268.2
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|.....++++|+++||+++|+ .|++|+++++|++++|..+..++++|+++ +|++|+||.+|..
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 HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
+.++++++++.++|+|++.+.... ...|++||+.|++..++.++++++...+|++|++|+.|+.||+...+.+++.+
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 999999999999999986543221 23589999999999999999998766669999999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
++.|.+|+....++ .+..|+..++.+++..++|+|++.+.+.+...+++++.+.|+......++........+.
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 567899999999999999999999999999999999999999643333333222111111
Q ss_pred CCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccc
Q 002301 269 FPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFS 346 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 346 (940)
.......+|+++..++.+ +.+..+.|.++|+++++. ...++.++..+||++++++.|++++ +.
T Consensus 231 --~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~A~~~a----g~---- 295 (333)
T cd06331 231 --AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGD-----DAVINSPAEAAYEAVYLWAAAVEKA----GS---- 295 (333)
T ss_pred --ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCC-----CcCCCchhHHHHHHHHHHHHHHHHc----CC----
Confidence 111235678888776654 367789999999988752 1246788999999999999999984 11
Q ss_pred cCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCC
Q 002301 347 KDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLI 397 (940)
Q Consensus 347 ~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~ 397 (940)
.+++.|.++|++++|+|++|++.|++++++.
T Consensus 296 --------------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 --------------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred --------------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 1488999999999999999999999877653
No 56
>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=2.5e-32 Score=302.74 Aligned_cols=329 Identities=19% Similarity=0.271 Sum_probs=272.9
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|.....|+++|++++|+++|+ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+||.+|..
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 599999998 567899999999999999999999 69999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++++++++.++|+|++.++++.+++ ..+|+||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.
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 999999999999999998887777754 35999999999999999999985 7789999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|++|+....++ .+..|++.++.+++.+++|+|++.+...+...+++++.+.|+..+ ++.+...... ...
T Consensus 159 ~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~~- 231 (340)
T cd06349 159 AEKLGGQVVAHEEYV--PGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSP-KFI- 231 (340)
T ss_pred HHHcCCEEEEEEEeC--CCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCH-HHH-
Confidence 999999999888777 457899999999999999999999999999999999999998654 4443322111 000
Q ss_pred CCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
.......+|++...++.|+ .+..++|.++|+++++ ..++.++..+||+++++++|++++ +..
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~~~~~~~~a~~~a---g~~--- 295 (340)
T cd06349 232 ---ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG-------AQPDAFAAQAYDAVGILAAAVRRA---GTD--- 295 (340)
T ss_pred ---HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhhhhHHHHHHHHHHHHHHh---CCC---
Confidence 1112456888887777664 5678999999988775 235778899999999999999985 110
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHH--HhccccccceeEEEccC-CCCCCCceEEEEeeccc
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSI--LQANMTGTAGPARFNSH-GDLINPAYEIINVIGTG 410 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l--~~~~f~g~tG~v~Fd~~-G~~~~~~~~I~~~~~~~ 410 (940)
+.. ....+ .+..+.|+.|.++|+++ |+. ...|.++.+++++
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 45568899999999987 654 3477787777654
No 57
>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-34 Score=313.40 Aligned_cols=373 Identities=20% Similarity=0.330 Sum_probs=300.6
Q ss_pred CCCceEEEEEEeecC-----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc--CcEE
Q 002301 27 GRPSVVNIGALLSFS-----TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG--QTVA 99 (940)
Q Consensus 27 ~~~~~i~IG~l~~~~-----~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~--~v~a 99 (940)
....+..+++++|+. ...|+.+.+|+++|+++||+++.||||++|.+..+|++|++..+..+..+++.. ...+
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 344568888888886 234778899999999999999999999999999999999999999999999988 5667
Q ss_pred EEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcch
Q 002301 100 IIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGR 178 (940)
Q Consensus 100 iiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~ 178 (940)
++|+ |+.....++.-+..|+.-+++|++++|.|++ +.||+|||+.|++......+..++++|+|++|+.++++.+-..
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~ 195 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFS 195 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhc
Confidence 7787 9999999999999999999999999999998 7899999999999999999999999999999999999988888
Q ss_pred hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCc
Q 002301 179 NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSW 258 (940)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~ 258 (940)
.-.+.+...+.+.+++++.++.+. .|....+++++..+.|+|+...+...++.+++++++.+|.+..|+|+...|
T Consensus 196 ~~~~dl~~~~~~~~ieiv~~qsf~-----~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g~ 270 (865)
T KOG1055|consen 196 STLNDLEARLKEAGIEIVFRQSFS-----SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIGW 270 (865)
T ss_pred chHHHHHHhhhccccEEEEeeccc-----cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEEe
Confidence 889999999999999999888776 345677889999999999999999999999999999999999999998876
Q ss_pred ccccc-----CCCCCCCCccccccceeEEEEEe--cCCC------hhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhH
Q 002301 259 LSTAL-----DTNSPFPSDVMDDIQGVLTLRTY--TPDS------VLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDT 325 (940)
Q Consensus 259 ~~~~~-----~~~~~~~~~~~~~~~g~l~~~~~--~~~~------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDA 325 (940)
....+ +...+.-+++.++++|.+++... .+.. -....|...+....+..+ .......++.++|||
T Consensus 271 y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~--~~~~~~~~~~~ayd~ 348 (865)
T KOG1055|consen 271 YADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP--EETGGFQEAPLAYDA 348 (865)
T ss_pred eccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc--ccccCcccCchHHHH
Confidence 54332 22122225667788998887542 2211 123556665554433211 112346678899999
Q ss_pred HHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCccccc--CChHHHHHHHHhccccccceeEEEccCCCCCCCceEE
Q 002301 326 VWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIF--NGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEI 403 (940)
Q Consensus 326 v~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I 403 (940)
+|++|+|+++++...+..+. .+.+++.. .-..++.++|.+++|.|++|.|.|.. |+|. .--.|
T Consensus 349 Iwa~ala~n~t~e~l~~~~~-------------~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~i 413 (865)
T KOG1055|consen 349 IWALALALNKTMEGLGRSHV-------------RLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLI 413 (865)
T ss_pred HHHHHHHHHHHHhcCCccce-------------eccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHH
Confidence 99999999999765432110 01111111 01568999999999999999999976 9875 55678
Q ss_pred EEeeccceEEEEEecCCCC
Q 002301 404 INVIGTGYRRIGYWSNYSG 422 (940)
Q Consensus 404 ~~~~~~~~~~VG~w~~~~g 422 (940)
-|++++.++++|+|+...+
T Consensus 414 eQ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 414 EQFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHHhCCceEeecccccccc
Confidence 8999999999999977653
No 58
>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=6.4e-32 Score=300.48 Aligned_cols=330 Identities=15% Similarity=0.137 Sum_probs=265.6
Q ss_pred EEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 32 VNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
|+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|+.++|..++..+.+|+++ +|.+|+||.+|.
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 9999999999999999999999999975 899999999999
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCeEEEEEEEcCCcchhhHHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWREVIAIYVDDDHGRNGIAALGD 186 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (940)
.+.++.+++++.++|++.+.... .....|++||+.+++..++.++++++.. .|.++|++++.|++||+...+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 99999999999999999754221 1245699999999999999999998765 5999999999999999999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTN 266 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 266 (940)
.+++.|++|+....++ .+.+|+..++.+|++.++|+|++.........++++++++|+..+...++.+......+..
T Consensus 157 ~~~~~G~~vv~~~~~~--~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~- 233 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTP--LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIRG- 233 (359)
T ss_pred HHHHcCCEEEeeEEec--CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHhh-
Confidence 9999999999888887 5789999999999999999999888888888999999999986543333443222111111
Q ss_pred CCCCCccccccceeEEEEEe--cCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 267 SPFPSDVMDDIQGVLTLRTY--TPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
-..+..+|+++...+ ..+.+..+.|.++|++.++. ...+..++..+||+++++++|++++ +.
T Consensus 234 -----~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~A~~~a----g~-- 297 (359)
T TIGR03407 234 -----IGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGD-----DRVTNDPMEAAYLGVYLWKAAVEKA----GS-- 297 (359)
T ss_pred -----cChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHh----CC--
Confidence 112346776654332 23567889999999988752 1223445667999999999999985 11
Q ss_pred cccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEcc-CCCCCCCceEEEEee
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNS-HGDLINPAYEIINVI 407 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~G~~~~~~~~I~~~~ 407 (940)
.++..+.++|++++|+++.|+++|++ +++ ....+.+.+++
T Consensus 298 ----------------------~~~~~i~~al~~~~~~~~~G~i~f~~~~~~-~~~~~~~~~~~ 338 (359)
T TIGR03407 298 ----------------------FDVDAVRDAAIGIEFDAPEGKVKVDGKNHH-LTKTVRIGEIR 338 (359)
T ss_pred ----------------------CCHHHHHHHhcCCcccCCCccEEEeCCCCe-eeeeeEEEEEc
Confidence 14889999999999999999999997 444 33334444443
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=1.7e-32 Score=303.01 Aligned_cols=321 Identities=16% Similarity=0.143 Sum_probs=270.6
Q ss_pred EEEEEeecCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 33 NIGALLSFST----NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 33 ~IG~l~~~~~----~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
+||+++|++. ..|.....|+++|+++|| +|+ .|++|+++++|++++|..+.+++.+|+++ +|.+||||.+|.
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 5899999983 447888999999999999 777 59999999999999999999999999987 999999999999
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCC-CCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSL-QFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGD 186 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~-~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (940)
.+.++++++++.++|+|+++++++.+++. .+||+||+.+++..++.++++++...+++++++++.|++||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 99999999999999999998888888774 47999999999999999999988777899999999999999999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTN 266 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 266 (940)
.+++.|++|+....++ .+.+|+..++.++++.++|+|++.+....+..+++++++.|+.. ...++..........
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 9999999999888887 46789999999999999999999999999999999999999863 223333222111110
Q ss_pred CCCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 267 SPFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
....+..+|++...++.++ .+..++|.++|+++++ ..++.++..+||+++++++|++++. .
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~Y~~~~~~~~A~~~ag---~--- 295 (334)
T cd06327 233 ----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG-------KMPSMVQAGAYSAVLHYLKAVEAAG---T--- 295 (334)
T ss_pred ----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC-------cCCCcHHHHHHHHHHHHHHHHHHHC---C---
Confidence 1122457888887776543 6778999999999886 2367788899999999999999961 1
Q ss_pred cccCCCcccccCCccCCcccccCChHHHHHHHHhcc-ccccceeEEEcc-CCCCCCCc
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQAN-MTGTAGPARFNS-HGDLINPA 400 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~-~G~~~~~~ 400 (940)
.++..+.++|+++. ++++.|+++|+. +|+...+.
T Consensus 296 ----------------------~~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~~ 331 (334)
T cd06327 296 ----------------------DDADKVVAKMKETPIYDLFAGNGYIRACDHQMVHDM 331 (334)
T ss_pred ----------------------CChHHHHHhccccceeccCCCCceeeccccchhccc
Confidence 14677999999986 688899999987 77654443
No 60
>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=3.1e-31 Score=285.44 Aligned_cols=336 Identities=15% Similarity=0.174 Sum_probs=246.2
Q ss_pred CceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CCHHHHHHHHHHH-HhcCcEEEEcC-CC
Q 002301 29 PSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCN-HSGFLALAEALHL-MEGQTVAIIGP-QD 105 (940)
Q Consensus 29 ~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~a~~l-i~~~v~aiiGp-~~ 105 (940)
+..|+||++|+.. .....|+++|++.+|.+..++++.+|++.+..-. .|++.+....|++ +.+||.||+|| .+
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s 91 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQT 91 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCC
Confidence 4479999999976 3468999999999999988888899998887654 4999999999999 59999999994 88
Q ss_pred chhHHHHHHhhccCCccEEeeecCCCCC-CCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 106 AVTSHVVSHVANELQVPLLSFSATDPTL-SSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 106 s~~a~~va~~~~~~~vP~Is~~at~~~l-s~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
+..+..+..+|+.++||+|++...++.. ++..+.+.+++.|+...++.|+++++++|+|++|++||+.++..... +.+
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~~l-q~l 170 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPTGL-LLL 170 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHHHH-HHH
Confidence 7888999999999999999986654333 22333334466999999999999999999999999999888744433 333
Q ss_pred HHHHhcCc--eeEEEeecCCCC-CChhHH-HHHHHHHhcCC-CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcc
Q 002301 185 GDTLAAKR--CRISFKAPLSVE-ATEDEI-TDLLVKVALTE-SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWL 259 (940)
Q Consensus 185 ~~~l~~~g--~~v~~~~~~~~~-~~~~~~-~~~l~~l~~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 259 (940)
.+.....+ -.|..+ ..+.. .+..++ +.+|+++++.+ .++|+++|+.+.+..+|+++. ++|+||.++.
T Consensus 171 ~~~~~~~~~~~~i~v~-~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~------~~y~wIv~~~- 242 (382)
T cd06377 171 WTNHARFHLGSVLNLS-RNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTP------PGPHWILGDP- 242 (382)
T ss_pred HHHhcccccCceEEEE-eccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhc------cceEEEEcCC-
Confidence 33333323 122222 22211 133455 99999999999 999999999999999997764 4599999872
Q ss_pred ccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhh-
Q 002301 260 STALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFK- 338 (940)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~- 338 (940)
++..+. .....-.|+++ |.+ . ......++.||||+++|+|++.+..
T Consensus 243 ---~~le~~---~~~g~nigLl~-----------------~~~-~---------~~~~l~ali~DAV~lvA~a~~~l~~~ 289 (382)
T cd06377 243 ---LPPEAL---RTEGLPPGLLA-----------------HGE-T---------TQPPLEAYVQDALELVARAVGSATLV 289 (382)
T ss_pred ---cChhhc---cCCCCCceEEE-----------------Eee-c---------ccccHHHHHHHHHHHHHHHHHHhhhc
Confidence 122110 00122233331 111 0 0113378999999999999998631
Q ss_pred -cCCCcccccCCCcccccCCccCCcc--c-ccCChHHHHHHHHhccccccceeEEEccCCCC--CCCceEEEEee--ccc
Q 002301 339 -QGGNLSFSKDSRLSDIQGHLRLDSL--R-IFNGGNLLRDSILQANMTGTAGPARFNSHGDL--INPAYEIINVI--GTG 410 (940)
Q Consensus 339 -~~~~~~~~~~~~~~~~~g~~~~~~~--~-~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~--~~~~~~I~~~~--~~~ 410 (940)
....++.+ ..+|... . .|.+|..|.++|++++|+|.||+|.| ..|.| .+..++|++++ ..|
T Consensus 290 ~~~~~l~~~----------~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~G 358 (382)
T cd06377 290 QPELALIPA----------TVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPVG 358 (382)
T ss_pred ccccccCCC----------CCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccCC
Confidence 11122211 3456544 5 89999999999999999999999999 45777 78999999998 444
Q ss_pred ---eEEEEEecCCC
Q 002301 411 ---YRRIGYWSNYS 421 (940)
Q Consensus 411 ---~~~VG~w~~~~ 421 (940)
|++||+|++..
T Consensus 359 ~~~W~kVG~W~~~~ 372 (382)
T cd06377 359 QPTWTTVGSWQGGR 372 (382)
T ss_pred CccceEEEEecCCC
Confidence 49999999864
No 61
>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=5e-32 Score=299.31 Aligned_cols=317 Identities=25% Similarity=0.402 Sum_probs=254.8
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CCHHHHHHHHHHHH-hcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCN-HSGFLALAEALHLM-EGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~a~~li-~~~v~aiiGp~~s~~a~ 110 (940)
+||++++... +....|+++|++++|.+++++++.++.+.+.+.+ +++..++..+|+++ .++|.+|+||.++..+.
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 4899998865 5778999999999999999887777777766555 79999999999999 67999999999999999
Q ss_pred HHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHh
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLA 189 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (940)
+++++++.++||+|+++++++.+++ ..+|+++|+.|++..+++++++++++++|++|++||+++++.. .++.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~-~l~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLS-RLQELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHH-HHHHHHHhhc
Confidence 9999999999999999988887776 5789999999999999999999999999999999999888443 3344444444
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCCC-eEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTES-RIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~-~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
..+..+... .+. .+.++++.++++++..++ ++|+.++..+.+..++++|.++||++++|+||.++......+.
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 444455544 344 233489999999999988 5555544448999999999999999999999999876655443
Q ss_pred CCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccC
Q 002301 269 FPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKD 348 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 348 (940)
........|+++++...+..+..++|..+|.... .......+...+..+||+++++
T Consensus 231 --~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~d~~~~~------------------- 286 (328)
T cd06351 231 --EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEES---PGVNLRAPIYDAALLYDAVLLL------------------- 286 (328)
T ss_pred --hhhccCCcceEEEEEeCCCchHHHHHHHhhhhcc---CCCCcCccchhhHhhhcEEEEE-------------------
Confidence 3445677999999999999999999999993322 1112223333444455543211
Q ss_pred CCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee-ccceEEEEEecC
Q 002301 349 SRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI-GTGYRRIGYWSN 419 (940)
Q Consensus 349 ~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~-~~~~~~VG~w~~ 419 (940)
||+++||.+|+|.+..++|+++. +.++++||.|+.
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 899999999984
No 62
>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=2e-32 Score=303.61 Aligned_cols=324 Identities=17% Similarity=0.200 Sum_probs=270.4
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCC-CC--CEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCC
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTL-GG--TKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQD 105 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL-~g--~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 105 (940)
+||++.|++ +..|.....++++|++++|+++|++ +| ++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+
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 589999998 5568889999999999999999986 45 489999999999999999999999987 9999999999
Q ss_pred chhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHH
Q 002301 106 AVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 106 s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
+..+.. ++++++.++|+|++.++++.++...+||+||+.|++..++.++++++.+.+|++|++|+.|++||+...+.++
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 9999999999999998888887556799999999999999999999888999999999999999999999999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHHHHHcCCCCCCeEEEecCccccccC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHVAQYLGMLGTGYVWIATSWLSTALD 264 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 264 (940)
+.+++.|++|+....++ .+..|++.++.+|++.++|+|++.+... ++..++++++++|+..+ ..++..........
T Consensus 160 ~~l~~~G~~vv~~~~~~--~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~~~ 236 (347)
T cd06336 160 AAWEAAGGKVVSEEPYD--PGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDELLV 236 (347)
T ss_pred HHHHHcCCEEeeecccC--CCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHHHH
Confidence 99999999999888888 5678999999999999999999999888 99999999999998754 22221111111010
Q ss_pred CCCCCCCccccccceeEEEEEecC----CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 002301 265 TNSPFPSDVMDDIQGVLTLRTYTP----DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQG 340 (940)
Q Consensus 265 ~~~~~~~~~~~~~~g~l~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~ 340 (940)
....+..+|++...++.+ ..+..++|.++|+++++. .++.++..+||+++++++|++++
T Consensus 237 ------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~p~~~~~~~y~~~~~~~~Al~~a---- 299 (347)
T cd06336 237 ------ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE-------PPNSEAAVSYDAVYILKAAMEAA---- 299 (347)
T ss_pred ------HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC-------CCcHHHHHHHHHHHHHHHHHHhc----
Confidence 112245678888877655 467789999999998862 36788899999999999999985
Q ss_pred CCcccccCCCcccccCCccCCcccccCChHHHHHHHHh--------ccccccceeEEEccCCCCCCCce
Q 002301 341 GNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQ--------ANMTGTAGPARFNSHGDLINPAY 401 (940)
Q Consensus 341 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~--------~~f~g~tG~v~Fd~~G~~~~~~~ 401 (940)
+.. ++..+.+.+.. ..|.++.|.+.||++|+...|.+
T Consensus 300 g~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 300 GSV------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred CCC------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 110 23344444432 56889999999999999876654
No 63
>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=4.7e-32 Score=301.42 Aligned_cols=320 Identities=19% Similarity=0.186 Sum_probs=266.3
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....|+++|+++||+++|+ +|++|+++++|+++++..+.+.+.+|+++ +|.+||||.++..
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 599999998 455788899999999999999988 58999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcC--CeEEEEEEEcCCcchhhHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYG--WREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
+.+++++++..+||+|++.++++.+.+ ..+|++||+.|++..+..++++++++++ |++|++|+.|++||....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998888887776 5789999999999999999999998874 9999999999999999999999
Q ss_pred HHHhcCc--eeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcccccc
Q 002301 186 DTLAAKR--CRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTAL 263 (940)
Q Consensus 186 ~~l~~~g--~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 263 (940)
+.+++.| ++++....++ ...+|+..++.+|+..++|+|++.+.+.+...+++++++.|+.. +..|+.+.+....+
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 9999985 5555544444 45789999999999999999999999999999999999999864 56777766533321
Q ss_pred CCCCCCCCccccccceeEEEEE--ec--CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 002301 264 DTNSPFPSDVMDDIQGVLTLRT--YT--PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQ 339 (940)
Q Consensus 264 ~~~~~~~~~~~~~~~g~l~~~~--~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~ 339 (940)
. ....+..+|++.... +. ++.+..++|.++|+++++ ..++.++..+||+++++++|++++...
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 111245667655432 21 146788999999998885 345677889999999999999986322
Q ss_pred CCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccC
Q 002301 340 GGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSH 393 (940)
Q Consensus 340 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~ 393 (940)
.. ..+ ...+.++|++++|.|+.|++.|+++
T Consensus 304 ~~-----------------------~~~-~~~v~~al~~~~~~~~~G~~~f~~~ 333 (346)
T cd06330 304 DG-----------------------GAP-PEQIAAALEGLSFETPGGPITMRAA 333 (346)
T ss_pred CC-----------------------CCc-HHHHHHHHcCCCccCCCCceeeecC
Confidence 11 011 2579999999999999999999884
No 64
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=1.1e-31 Score=296.23 Aligned_cols=320 Identities=18% Similarity=0.237 Sum_probs=266.1
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|.....|+++|+++|| +++ .|++|+++++|+++++..+++.+.+|+++ +|.+|+||.+|..
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 599999998 4567888999999999998 666 69999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++++++++.+||+|+++++.+.+.+ ..+||+||+.+++..++.++++++...||++|++++.|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998766666665 3479999999999999999999999999999999999999999999999887
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
++ .+++....++ .+.+|+..++.++++.++|+|++...+..+..++++++++|+.. ...++.+.+.... +..
T Consensus 158 ~~---~~v~~~~~~~--~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~~- 229 (333)
T cd06359 158 FK---GEVVGEVYTK--LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DTL- 229 (333)
T ss_pred hC---ceeeeeecCC--CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HHH-
Confidence 74 3566555555 46789999999999999999999888888999999999999853 3345554433321 010
Q ss_pred CCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
....+..+|++...++.+ +.+..++|.++|+++++ ..++.++..+||+++++++|++++ ++..
T Consensus 230 ---~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~A~~~a---g~~~-- 294 (333)
T cd06359 230 ---PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG-------RLPTLYAAQAYDAAQLLDSAVRKV---GGNL-- 294 (333)
T ss_pred ---HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHh---cCCC--
Confidence 122356688888777766 46788999999999885 356788999999999999999985 2111
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCC
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINP 399 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~ 399 (940)
.++..+.++|++..|+|++|+++|+++|+...+
T Consensus 295 ---------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~~~ 327 (333)
T cd06359 295 ---------------------SDKDALRAALRAADFKSVRGAFRFGTNHFPIQD 327 (333)
T ss_pred ---------------------CCHHHHHHHHhcCccccCccceEECCCCCccee
Confidence 147899999999999999999999999875433
No 65
>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=2.6e-31 Score=295.68 Aligned_cols=339 Identities=16% Similarity=0.146 Sum_probs=273.3
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+..+.|+++|+++||++||++ |++|+++++|+.++|..++.++++|+++ +|.+|+||.+|..
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 699999998 6678999999999999999999995 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
+.++++++++.++|++++++... . ...|++|++.+++..++.++++++...+-+++++|+.|++||+...+.+++.+
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 99999999999999997654321 1 22377888888877778889998776555899999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccc-cccCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLS-TALDTNS 267 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~-~~~~~~~ 267 (940)
++.|++++....++.+.+..|+..++.++++.++|+|++......+..++++++++|+..+.. .+.+.... ..+.
T Consensus 157 ~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~-~~~~~~~~~~~~~--- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPARM-PIASLTTSEAEVA--- 232 (360)
T ss_pred HHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccCc-eeEEeeccHHHHh---
Confidence 999999998766665455899999999999999999999999999999999999999875432 23332211 1111
Q ss_pred CCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
....+..+|+++..++.+ +.+..+.|.+.|+++++. ...++.++..+||+++++++|++++ +.
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~-----~~~~~~~~~~~yda~~~l~~Al~~a----g~--- 297 (360)
T cd06357 233 ---AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGE-----DAPVSACAEAAYFQVHLFARALQRA----GS--- 297 (360)
T ss_pred ---hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHc----CC---
Confidence 112356788888776543 467889999999998863 1235678889999999999999985 11
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEe-eccceEEEE
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINV-IGTGYRRIG 415 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~-~~~~~~~VG 415 (940)
.++..+.++|++++|+|+.|.+.|+++++.......+.++ +++++..+.
T Consensus 298 ---------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 298 ---------------------DDPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred ---------------------CCHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 1478899999999999999999998765433334445566 455555553
No 66
>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=2.8e-31 Score=292.46 Aligned_cols=322 Identities=14% Similarity=0.130 Sum_probs=263.7
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhc-CCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNS-DPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~-~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
+||++.|++ +..|.....|+++|+++||+ .+|+ +|++|++++.|++++|..++.++.+|+++ +|.+|+||.+|.
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 599999999 45688999999999999955 5666 69999999999999999999999999998 999999999999
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCC-CCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSL-QFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGD 186 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~-~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (940)
.+.++.+++++.++|+|++.++++.++.. .++|+||+.+++..++.++++++... +++|++|+.|++||+...+.+++
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 99999999999999999988888888764 36999999998888888888887665 89999999999999999999999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
.+++.|++++....++ .+..|+..++.+|++.++|+|++...+. ....+++++.+.|+..+ .............
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 9999999999988888 5678999999999999999998876555 56677788777776532 1122211111110
Q ss_pred CCCCCCccccccceeEEEEEec-CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYT-PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
....+..+|.+...++. +.++..+.|.++|+++++ ..++.++..+||++.++++|++++. .
T Consensus 234 -----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g-------~~p~~~~~~~y~a~~~l~~Ai~~ag----~-- 295 (333)
T cd06328 234 -----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG-------SPPDLFTAGGMSAAIAVVEALEETG----D-- 295 (333)
T ss_pred -----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC-------CCcchhhHHHHHHHHHHHHHHHHhC----C--
Confidence 11223456666555554 667888999999999885 3467889999999999999999851 1
Q ss_pred cccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEcc-CCCCCCCce
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNS-HGDLINPAY 401 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~G~~~~~~~ 401 (940)
.++..+.++|++..|+++.|+++|++ +++...+.|
T Consensus 296 ----------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~ 331 (333)
T cd06328 296 ----------------------TDTEALIAAMEGMSFETPKGTMTFRKEDHQALQPMY 331 (333)
T ss_pred ----------------------CCHHHHHHHHhCCeeecCCCceEECcccchhhhccc
Confidence 15889999999999999999999985 555444443
No 67
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=5.1e-31 Score=292.13 Aligned_cols=325 Identities=18% Similarity=0.274 Sum_probs=275.6
Q ss_pred EEEEEeecCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFST---NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++. ..|.....++++|++++| +++ +|++++++++|+++++..+.+.+.+|+++ +|.+||||.++..
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 5999999984 446788999999999986 344 79999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCC-CCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSL-QFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~-~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++.+.+++.++|+|+++++++.+++. .+|++||+.+++..++..+++++...+|+++++++.|+.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 8899999999999999998888888763 479999999999999999999999999999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|++++....++ .+.+|++.++.++++.++|+|++.....++..+++++.+.|+.+ ...|+.++++......
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 999999999877777 56789999999999999999999988999999999999999853 3345665554322111
Q ss_pred CCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
....+..+|++...++.+ +.+..+.|.++|+++++ ..++.++..+||+++++++|++++. ...
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~-------~~~~~~~~~~yda~~~~~~A~~~a~---~~~-- 297 (336)
T cd06360 233 ---GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP-------DTPSVYAVQGYDAGQALILALEAVG---GDL-- 297 (336)
T ss_pred ---HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC-------CCccHHHHHHHHHHHHHHHHHHHhC---CCC--
Confidence 223356788887777655 46788999999999886 3567889999999999999999961 110
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCce
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAY 401 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~ 401 (940)
.++..+.++|++..|.|..|+++|+++|++..+.|
T Consensus 298 ---------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 ---------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred ---------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 14778999999999999999999999998766654
No 68
>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=6.7e-31 Score=290.03 Aligned_cols=320 Identities=19% Similarity=0.191 Sum_probs=264.1
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....|+++|+++||+.+|+ .|++++++++|++++|..++..+.+|+++ +|.+||||.+|..
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 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGI-LGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCc-CCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 599999998 457889999999999999999999 48999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++.++++ .+||+|++.+.+. ....|++||+.+++..++.++++++ +..+|++|++++.|+.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEG---GECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCC---CCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 9999998644332 1246999999999998888787765 6679999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC-ccccccCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS-WLSTALDTN 266 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~-~~~~~~~~~ 266 (940)
+++.|++|+....++ .+..|+..++.++++.++|+|++.....+...+++++++.|+..+ |+... .+......
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 999999999888888 568999999999999999999999888888999999999999764 22211 12111100
Q ss_pred CCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 267 SPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 267 ~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
.......+|++....+.+ ..+..++|.++|+++++. ....++.++..+||+++++++|++++ +..
T Consensus 230 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~----~~~~~~~~~~~~yda~~~~~~A~~~a----g~~- 296 (333)
T cd06358 230 ----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGD----DAPPLNSLSESCYEAVHALAAAAERA----GSL- 296 (333)
T ss_pred ----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCC----CCCCCChHHHHHHHHHHHHHHHHHHh----CCC-
Confidence 111234678777665544 567899999999998863 11246778889999999999999974 111
Q ss_pred cccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCc
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPA 400 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~ 400 (940)
++..|.++|++++|+|++|++.|++++. ..+.
T Consensus 297 -----------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~-~~~~ 328 (333)
T cd06358 297 -----------------------DPEALIAALEDVSYDGPRGTVTMRGRHA-RQPV 328 (333)
T ss_pred -----------------------CHHHHHHHhccCeeeCCCcceEEccccc-cccc
Confidence 4789999999999999999999998864 4443
No 69
>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=4e-31 Score=294.05 Aligned_cols=332 Identities=24% Similarity=0.339 Sum_probs=276.2
Q ss_pred eEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHh-cCcEEEEcCCCc
Q 002301 31 VVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLME-GQTVAIIGPQDA 106 (940)
Q Consensus 31 ~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s 106 (940)
+|+||++.|++ +..|.....|+++|++++|+++|++ |++|+++++|+.+++..+.+.+.+|++ ++|.+|+||.++
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 58999999998 4567888999999999999999995 999999999999999999999999999 699999999999
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHHHH
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
..+.++++.++..++|+|++.+.++ ...+||+||+.|++..++.++++++ ++++.+++++|+.+++||+...+.++
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 9999999999999999999654442 3567999999999999999999985 56899999999999999999999999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
+.+++.|++++....++ .+..|+..+++++++.++++|++.+.+.+...+++++.+.|+..+.+....+......+..
T Consensus 157 ~~~~~~G~~vv~~~~~~--~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 234 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYP--PGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASLQQ 234 (343)
T ss_dssp HHHHHTTCEEEEEEEE---TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHHHH
T ss_pred HHHhhcCceeccceecc--cccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHHHH
Confidence 99999999998888888 5668999999999999999999999999999999999999986544544444333222211
Q ss_pred CCCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCc
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNL 343 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 343 (940)
-.....+|++...++.| +.+..++|.++|++.++. ...++.++..+||++.+++.|++++ +..
T Consensus 235 ------~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~al~~~----g~~ 299 (343)
T PF13458_consen 235 ------LGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGE-----EPPPSLYAAQGYDAARLLAQALERA----GSL 299 (343)
T ss_dssp ------HHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSS-----TGGTCHHHHHHHHHHHHHHHHHHHH----TSH
T ss_pred ------hhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCC-----CCCCchhHHHHHHHHHHHHHHHHHh----CCC
Confidence 11246788888888776 467889999999999863 1247889999999999999999996 111
Q ss_pred ccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee
Q 002301 344 SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI 407 (940)
Q Consensus 344 ~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~ 407 (940)
++..+.++|++++|+|+.|++.|++.+......+.|++++
T Consensus 300 ------------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~ 339 (343)
T PF13458_consen 300 ------------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVK 339 (343)
T ss_dssp ------------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEE
T ss_pred ------------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEe
Confidence 5899999999999999999999976544467778888888
No 70
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.98 E-value=2.3e-30 Score=285.42 Aligned_cols=316 Identities=11% Similarity=0.097 Sum_probs=259.1
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||++.|++ +..|+....++++|+++||+.+|++ |++|+++.+|++++|..+...+.+|+++ +|.+|||+.+|..
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 599999999 5678899999999999999999985 9999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
+.++.+++++.++|+|+...... +...||+||+.+++..++.++++++...+-+++++|+.|++||....+.+++.+
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 99999999999999997533222 123489999999999999999999776544889999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC-CCCCeEEEecCccccccCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM-LGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~-~~~~~~wi~~~~~~~~~~~~~ 267 (940)
++.|++++....++ .+..|++.++.++++.++|+|++.....+...+++++++.|+ ..+ .+...+........
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~~- 230 (334)
T cd06356 157 EENGGEVVGEEFIP--LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEHK- 230 (334)
T ss_pred HHcCCEEEeeeecC--CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHHh-
Confidence 99999999888888 567899999999999999999999888899999999999998 322 22211111111000
Q ss_pred CCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
.-.....+|+++...+.++ .+..++|.++|+++++. ...++.++..+||+++++++|++++. ..
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~p~~~~~~~~~y~a~~~~~~A~~~ag----~~-- 296 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPD-----APYINEEAENNYEAIYLYKEAVEKAG----TT-- 296 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCC-----CCCCCchhHHHHHHHHHHHHHHHHHC----CC--
Confidence 0012456777776665443 56789999999998852 11235778999999999999999851 11
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHh-ccccccceeEEEccCC
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQ-ANMTGTAGPARFNSHG 394 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~-~~f~g~tG~v~Fd~~G 394 (940)
++..|.++|++ ..|+|+.|++.|++++
T Consensus 297 ----------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~ 324 (334)
T cd06356 297 ----------------------DRDAVIEALESGLVCDGPEGKVCIDGKT 324 (334)
T ss_pred ----------------------CHHHHHHHHHhCCceeCCCceEEEecCC
Confidence 47899999997 5689999999999744
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=99.98 E-value=2e-30 Score=287.72 Aligned_cols=321 Identities=19% Similarity=0.263 Sum_probs=260.8
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||.+.|++ +..|.....|+++|++++|+++|+ .|++|+++++|+++++..+.+.+.+|+++ +|.+|+||.+|..
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 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGV-LGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 599999998 467888999999999999999998 48999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC--CCCCceEEecCChHHHHHHHHHHH-HHcCCeEEEEEEEcCCcchhhHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEIV-DHYGWREVIAIYVDDDHGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (940)
+.++.++++..+||+|++.++.+.+++ ..++|+||+.+++..++.++++++ ++.+|++|+++|.|++||+...+.++
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 999999999999999998877776664 346899999999999999999986 55679999999999999999999999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDT 265 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 265 (940)
+.+++.|++++....++ .+..|++..+.+|++.++++|++.+...+...+++++++.|+..+ +...+.....+.
T Consensus 160 ~~~~~~G~~v~~~~~~~--~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~----~~~~~~~~~~~~ 233 (347)
T cd06335 160 AALAARGLKPVAVEWFN--WGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP----IISHWGLSGGNF 233 (347)
T ss_pred HHHHHcCCeeEEEeeec--CCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc----EecccCCcCchh
Confidence 99999999999888887 457899999999999999999999999999999999999998543 222221111111
Q ss_pred CCCCCCccccccceeEEEEEec---CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCC
Q 002301 266 NSPFPSDVMDDIQGVLTLRTYT---PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGN 342 (940)
Q Consensus 266 ~~~~~~~~~~~~~g~l~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 342 (940)
. ....+..+|++....+. +..+..++|.++|+++++..+.. ...++.++..+||+++++++|++++ +..
T Consensus 234 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~aYd~~~~l~~A~~~a---g~~ 305 (347)
T cd06335 234 I----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA-DIPAPVGAAHAYDAVHLLAAAIKQA---GST 305 (347)
T ss_pred h----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc-ccCcchhHHHHHHHHHHHHHHHHHh---cCC
Confidence 0 11224467776665433 25678899999999988631110 1134556778999999999999985 110
Q ss_pred cccccCCCcccccCCccCCcccccCChHHHHHHHHhcc--cccccee--EEEccC
Q 002301 343 LSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQAN--MTGTAGP--ARFNSH 393 (940)
Q Consensus 343 ~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~--f~g~tG~--v~Fd~~ 393 (940)
.+..+.++|+++. +.|+.|. +.|++.
T Consensus 306 -------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~ 335 (347)
T cd06335 306 -------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKE 335 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCceeeecccCCCCChh
Confidence 2478999998764 6677775 456543
No 72
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=2.4e-30 Score=285.88 Aligned_cols=333 Identities=14% Similarity=0.141 Sum_probs=264.6
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
|||++.|++ +..|+....|+++|+++||+.||| .|++|+++++|++++|..++..+.+|+++ +|.+|+ +.+|..
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 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGI-NGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCc-CCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 589999998 567888999999999999999999 49999999999999999999999999988 777765 578888
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcC-----CeEEEEEEEcCCcchhhHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYG-----WREVIAIYVDDDHGRNGIA 182 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~-----w~~v~ii~~d~~~g~~~~~ 182 (940)
+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|++|+.|++||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998777776664 6689999999999999999999987654 7999999999999999999
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
.+++.+++.|++|+....++ .+.+|++.++.++++.++|+|++.....++..++++++++|+..+ |+.+.+....
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 567899999999999999999999999999999999999998433 4544332211
Q ss_pred cCCCCCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 002301 263 LDTNSPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQG 340 (940)
Q Consensus 263 ~~~~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~ 340 (940)
... .......+|+++..++.+ +.+..++|.+.|+++++..++ ....++.++..+||++++++.|++++.+..
T Consensus 234 -~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~-~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 234 -EDV----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGN-DKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred -HHH----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCC-cccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 110 122345688877776554 578899999999988852110 012346788999999999999999986543
Q ss_pred CCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccC
Q 002301 341 GNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSH 393 (940)
Q Consensus 341 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~ 393 (940)
..... .......+-...++.+.+....|+.|+++|.+.
T Consensus 308 ~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 345 (351)
T cd06334 308 GETTI---------------AGEEQLENLKLDAARLEELGAEGLGPPVSVSCD 345 (351)
T ss_pred CCCCC---------------cHHHHHHhhhhhhhhhhhcCcccccCCceeccc
Confidence 32100 000000001233455666677899999999763
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=99.97 E-value=1.2e-29 Score=280.83 Aligned_cols=322 Identities=19% Similarity=0.280 Sum_probs=266.9
Q ss_pred EEEEEeecCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFST---NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++. ..|.....|+++|++++| +++ .|++++++++|+.+++..+.+.+.+|+++ +|.+||||.+|..
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 5999999984 456788999999999997 455 69999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCC-CCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSL-QFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~-~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.++.+.+.+.++|+|+++++.+.+++. .+|++||+.|++..++..+++++...||+++++|+.++.+|+...+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888899999999999998877777764 479999999999999999999999999999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
++ ..++....++ ....|+..+++++++.++|+|++...+..+..++++++++|+.. ...++.++.+......
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 3555555565 45567889999999999999999888889999999999999843 3446665544332111
Q ss_pred CCCCccccccceeEEEEEecCC--ChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCccc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTPD--SVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSF 345 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 345 (940)
.......+|++...++.++ .+..++|.++|+++++ ..++.++..+||++++++.|++++ ++.
T Consensus 230 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~a~~~a---g~~--- 293 (333)
T cd06332 230 ---PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG-------RVPSVYAAQGYDAAQLLDAALRAV---GGD--- 293 (333)
T ss_pred ---HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHh---cCC---
Confidence 2233567888887777663 5778999999999886 236778899999999999999985 111
Q ss_pred ccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCce
Q 002301 346 SKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAY 401 (940)
Q Consensus 346 ~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~ 401 (940)
..++..+.++|++.+|+|++|++.|+++|+...+.|
T Consensus 294 --------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~~~ 329 (333)
T cd06332 294 --------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQDFY 329 (333)
T ss_pred --------------------CCCHHHHHHHHhcCceecCccceeECCCCCccccee
Confidence 014678999999999999999999999998654443
No 74
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=6.7e-30 Score=268.01 Aligned_cols=314 Identities=16% Similarity=0.165 Sum_probs=230.5
Q ss_pred EEEEEEeecCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHh-cCcEEEEcCCCch
Q 002301 32 VNIGALLSFST---NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLME-GQTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~~---~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s~ 107 (940)
|+||+++++++ ..++....|+++|++|||++||+| |++|+.+++|.++|+....+.|.+|+. ++|.+|+|..+|.
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 68999999984 345677899999999999999997 899999999999999999999999987 4999999999999
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCC--CCCCceEEecCChHHHHHHHHHH-HHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEI-VDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
.-++|.++.++.+-++..+ ...+ ...|++|-+.....+|...++++ +++||-+++.+|.+|+.|++.....+
T Consensus 80 sRKaVlPvvE~~~~LL~Yp-----~~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~ 154 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYP-----TQYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRII 154 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE------S--------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEec-----cccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHH
Confidence 9999999999999999953 3333 34589999998888888888876 68899999999999999999999999
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcccc-cc
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLST-AL 263 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~-~~ 263 (940)
++.+++.|++|+.+..+| .+.+|+..++.+|++.+||+|+-...++....|+++.+++|+... .+-|.+..... .+
T Consensus 155 r~~l~~~GgevvgE~Y~p--lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 155 RDLLEARGGEVVGERYLP--LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHHHTT-EEEEEEEE---S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHHHcCCEEEEEEEec--CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHH
Confidence 999999999999999999 678999999999999999999999999999999999999998754 34455443322 22
Q ss_pred CCCCCCCCccccccceeEEEEEecC--CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCC
Q 002301 264 DTNSPFPSDVMDDIQGVLTLRTYTP--DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGG 341 (940)
Q Consensus 264 ~~~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~ 341 (940)
... ..+...|+++..++.. ++|.+++|+++|+++++. +..++.....+|.+|+++|+|++++ +
T Consensus 232 ~~~------g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~-----~~v~s~~~eaaY~~v~l~a~Av~~a----g 296 (363)
T PF13433_consen 232 AAM------GAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD-----DRVTSDPMEAAYFQVHLWAQAVEKA----G 296 (363)
T ss_dssp TTS-------HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T-----T----HHHHHHHHHHHHHHHHHHHH----T
T ss_pred hhc------ChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC-----CCCCCcHHHHHHHHHHHHHHHHHHh----C
Confidence 111 1257889999988765 589999999999999973 3345667778999999999999996 1
Q ss_pred CcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccC
Q 002301 342 NLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSH 393 (940)
Q Consensus 342 ~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~ 393 (940)
+ .+..++.++|...+|+++.|.+++|++
T Consensus 297 s------------------------~d~~~vr~al~g~~~~aP~G~v~id~~ 324 (363)
T PF13433_consen 297 S------------------------DDPEAVREALAGQSFDAPQGRVRIDPD 324 (363)
T ss_dssp S--------------------------HHHHHHHHTT--EEETTEEEEE-TT
T ss_pred C------------------------CCHHHHHHHhcCCeecCCCcceEEcCC
Confidence 1 158999999999999999999999973
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=1.2e-28 Score=274.31 Aligned_cols=328 Identities=13% Similarity=0.120 Sum_probs=257.4
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCC--CEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCc
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGG--TKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDA 106 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g--~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 106 (940)
+||++.|++ +..|.....++++|+++||..+++ .| ++|+++++|++++|..++.++.+|+++ +|.+|||+.+|
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 589999998 566888889999999999955444 45 589999999999999999999999987 99999999999
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCC-------CCCCCCceEEecCChHHHHHHHHHHHHHcC-CeEEEEEEEcCCcch
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTL-------SSLQFPYFVRTTQSDQYQMAAIAEIVDHYG-WREVIAIYVDDDHGR 178 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~l-------s~~~~p~~~r~~psd~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~ 178 (940)
..+.++++++++.+||+|++.+..+.+ ....+||+||..+++..++.+++++++..+ +++|++++.|++||+
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999865432211 123478999999999888999998888887 999999999999999
Q ss_pred hhHHHHH---HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 179 NGIAALG---DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 179 ~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
...+.+. +.+++.|++|+....++ .+.+|++.++.+|+++++|+|++.+.+.++..++++++++|+..+ ++.
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 67778999999888888 567899999999999999999999999999999999999998655 232
Q ss_pred cC-cc--ccccCCCCCCCCccccccceeEEEEEecCCC--------hhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhh
Q 002301 256 TS-WL--STALDTNSPFPSDVMDDIQGVLTLRTYTPDS--------VLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYD 324 (940)
Q Consensus 256 ~~-~~--~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~--------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YD 324 (940)
.. .. ...... ..+..+|++....+.|.. +..++|.++|+++++. .+...+.++||
T Consensus 235 ~~~~~~~~~~~~~-------~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~-------~~~~~~~~~~~ 300 (357)
T cd06337 235 IAKALLFPEDVEA-------LGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR-------QWTQPLGYAHA 300 (357)
T ss_pred EeccccCHHHHHH-------hhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC-------CccCcchHHHH
Confidence 22 11 111111 112346666554444332 3478999999988862 23455677999
Q ss_pred HHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEE
Q 002301 325 TVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEII 404 (940)
Q Consensus 325 Av~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~ 404 (940)
+++++++|++++ +. ..++..|.++|++++++++.|++.|+++ .. ....|+
T Consensus 301 ~~~~l~~Ai~~A----gs-----------------------~~d~~~v~~aL~~~~~~~~~G~~~f~~~--~~-~~~~~~ 350 (357)
T cd06337 301 LFEVGVKALVRA----DD-----------------------PDDPAAVADAIATLKLDTVVGPVDFGNS--PI-KNVAKT 350 (357)
T ss_pred HHHHHHHHHHHc----CC-----------------------CCCHHHHHHHHHcCCcccceeeeecCCC--CC-cccccc
Confidence 999999999985 11 0147899999999999999999999865 22 334566
Q ss_pred Eeeccc
Q 002301 405 NVIGTG 410 (940)
Q Consensus 405 ~~~~~~ 410 (940)
.++|+.
T Consensus 351 ~~~~~~ 356 (357)
T cd06337 351 PLVGGQ 356 (357)
T ss_pred ccccCC
Confidence 666644
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=99.96 E-value=2.7e-27 Score=262.25 Aligned_cols=317 Identities=16% Similarity=0.204 Sum_probs=256.1
Q ss_pred EEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 32 VNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
|+||++.|++ +..|+....|+++|+++||+.+|+ .|+++++...|+++++..+.+.+.+|+++ +|.+|||+.++.
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 6899999999 456788899999999999999988 59999999999999999999999999996 999999998888
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
.+..+.+++...++|+|++.++++.++....|++||+.+++..++..+++++.+.||++|++|+.++.+|....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 78888899999999999987666555444468999999999999999999999999999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|+++.....++ .+..++..++.++++.++++|++......+..++++++++|+..+ .+ ...+..... ..
T Consensus 160 ~~~~G~~~~~~~~~~--~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~-~~--~~~~~~~~~-~~- 232 (336)
T cd06326 160 LAARGLKPVATASYE--RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ-FY--NLSFVGADA-LA- 232 (336)
T ss_pred HHHcCCCeEEEEeec--CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc-EE--EEeccCHHH-HH-
Confidence 999999988776776 346789999999998899999999887789999999999998643 22 222221110 00
Q ss_pred CCCCccccccceeEEEEE----ecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCc
Q 002301 268 PFPSDVMDDIQGVLTLRT----YTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNL 343 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 343 (940)
.......+|++.... .....+..+.|.+.|++.++. .+++.++..+||+++++++|++++ ++..
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~y~~~~~~~~a~~~~---g~~~ 300 (336)
T cd06326 233 ---RLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG------APPSYVSLEGYIAAKVLVEALRRA---GPDP 300 (336)
T ss_pred ---HHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC------CCCCeeeehhHHHHHHHHHHHHHc---CCCC
Confidence 112244567664322 223467788999999887742 245777889999999999999984 2111
Q ss_pred ccccCCCcccccCCccCCcccccCChHHHHHHHHhcccc-ccceeEEEcc
Q 002301 344 SFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMT-GTAGPARFNS 392 (940)
Q Consensus 344 ~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~-g~tG~v~Fd~ 392 (940)
+++.|.++|++++.. +..|.+.|++
T Consensus 301 ------------------------~~~~v~~al~~~~~~~~~g~~~~~~~ 326 (336)
T cd06326 301 ------------------------TRESLLAALEAMGKFDLGGFRLDFSP 326 (336)
T ss_pred ------------------------CHHHHHHHHHhcCCCCCCCeEEecCc
Confidence 488999999998864 4445899965
No 77
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.96 E-value=2.3e-27 Score=258.05 Aligned_cols=224 Identities=33% Similarity=0.524 Sum_probs=206.1
Q ss_pred EEEEEeecCC-----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-----CcEEEEc
Q 002301 33 NIGALLSFST-----NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-----QTVAIIG 102 (940)
Q Consensus 33 ~IG~l~~~~~-----~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-----~v~aiiG 102 (940)
+||++|+.+. ..+.....++..|++++|++ ++|+++++.+.|++|++..+...+.+++++ ++.+|+|
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 4899999874 34556678999999999988 579999999999999999999999999975 8999999
Q ss_pred CCCchhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhH
Q 002301 103 PQDAVTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGI 181 (940)
Q Consensus 103 p~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 181 (940)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|+++++|....
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 999999999999999999999999999988887 6789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcccc
Q 002301 182 AALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLST 261 (940)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~ 261 (940)
+.+++.+.+.|+++.....++ ....++...+++++..++++||+++.+..+..++++|.++||+ .+|+||.++.+..
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 4558899999999999999999999989999999999999999 8999999987654
Q ss_pred c
Q 002301 262 A 262 (940)
Q Consensus 262 ~ 262 (940)
.
T Consensus 235 ~ 235 (298)
T cd06269 235 S 235 (298)
T ss_pred c
Confidence 3
No 78
>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=6.5e-28 Score=265.56 Aligned_cols=302 Identities=18% Similarity=0.174 Sum_probs=241.7
Q ss_pred EEEEEeecCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALLSFST---NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+||++.|++. ..|.....|+++|+++|| |++++++++|+.+ +..+...+.+|+.++|.+||||.+|..+
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 5999999984 468888999999999999 7899999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHh
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLA 189 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (940)
.++++++.+.+||+|+++++.+ +.. .|++||+.+++..++.++++++...|+++|++|+.+++||+...+.|.+.++
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 9999999999999999765443 222 5899999999999999999998888999999999999999999999999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC---------------------CCeEEEEEecCC-cHHHHHHHHHHcCCC
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT---------------------ESRIIVVHTHYN-RGPVVFHVAQYLGML 247 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~viv~~~~~~-~~~~~l~~a~~~g~~ 247 (940)
+.|++|+....++ .+..|++.++++|++. ++|+|++...+. .+..+.+++...+..
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 9999999888888 5789999999999998 999999988886 666666676665531
Q ss_pred CCCeEEEecCccccccCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCC-CchhhhhhhHH
Q 002301 248 GTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGL-NAYGFYAYDTV 326 (940)
Q Consensus 248 ~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~YDAv 326 (940)
..+-.+++++.+...... ....+..+|++...+... ...+|.++|+++++ ..| +.++..+|||+
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 112336777655532111 112245677765544211 22378999998886 345 78999999999
Q ss_pred HHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHHh-ccccccceeEEEccCCCC
Q 002301 327 WLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQ-ANMTGTAGPARFNSHGDL 396 (940)
Q Consensus 327 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~-~~f~g~tG~v~Fd~~G~~ 396 (940)
.+++.++++. +. +. +|.+ ..|+|++|+++|+++|+.
T Consensus 293 ~l~~~~~~~~----~~-------------------------~~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 293 ALAAALAQLG----QG-------------------------DA-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHHHHcc----cc-------------------------cc-----ccCCCCccccCcceEEECCCCeE
Confidence 9998877762 10 11 2333 359999999999999974
No 79
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.95 E-value=1e-26 Score=254.04 Aligned_cols=294 Identities=15% Similarity=0.166 Sum_probs=228.1
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHHHHhhccCCccEE
Q 002301 45 GKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVVSHVANELQVPLL 124 (940)
Q Consensus 45 g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~I 124 (940)
+.....|+++|+|+||+.||++ |++++++..|. ++|..++..+.+|+.++|.+|+|+.+|..+.++.+++.+.++|+|
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 89999999985 789999999999998899999999999999999999999999999
Q ss_pred eeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCC
Q 002301 125 SFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSV 203 (940)
Q Consensus 125 s~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 203 (940)
+++++++.++. ..+||+||+.|++..++.++++++...+.++|++|+.|++||....+.+++.+++.|++|+..+.++.
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 99999998887 45799999999999999999999877799999999999999999999999999999999999888874
Q ss_pred CC--ChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeE
Q 002301 204 EA--TEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVL 281 (940)
Q Consensus 204 ~~--~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l 281 (940)
.. ...++.......+.+++|+|++.....+.... + .+. .++.. ......|+.
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~---~---~~~----~~~~~----------------~~~g~~G~~ 221 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARY---L---PYA----TWLPR----------------PVAGSAGLV 221 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhh---c---ccc----ccccc----------------ccccccCcc
Confidence 31 12344432233344789999986544322111 0 000 00000 001112222
Q ss_pred EEEE-ecCCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccC
Q 002301 282 TLRT-YTPDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRL 360 (940)
Q Consensus 282 ~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~ 360 (940)
.... +..+.+..++|.++|+++++ ..|+.++..+||++++++.|++++ +.
T Consensus 222 ~~~~~~~~~~~~~~~f~~~f~~~~g-------~~p~~~~a~aY~av~~~a~Ai~~A----Gs------------------ 272 (347)
T TIGR03863 222 PTAWHRAWERWGATQLQSRFEKLAG-------RPMTELDYAAWLAVRAVGEAVTRT----RS------------------ 272 (347)
T ss_pred ccccCCcccchhHHHHHHHHHHHhC-------CCCChHHHHHHHHHHHHHHHHHHh----cC------------------
Confidence 1111 12234667899999999886 345677888999999999999996 11
Q ss_pred CcccccCChHHHHHHHHhccc--cccce-eEEEcc-CCCCCCCce
Q 002301 361 DSLRIFNGGNLLRDSILQANM--TGTAG-PARFNS-HGDLINPAY 401 (940)
Q Consensus 361 ~~~~~~~~g~~l~~~l~~~~f--~g~tG-~v~Fd~-~G~~~~~~~ 401 (940)
.++.++.++|+++.+ .+..| +++|++ ||+...+.|
T Consensus 273 ------~d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~~~~ 311 (347)
T TIGR03863 273 ------ADPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQPVL 311 (347)
T ss_pred ------CCHHHHHHHHcCCCceecccCCCcceeeCCCcccccceE
Confidence 169999999999877 47887 699986 887665543
No 80
>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=3.2e-26 Score=249.19 Aligned_cols=280 Identities=26% Similarity=0.376 Sum_probs=236.1
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|.....|+++|++++|+++|+ +|+++++++.|+++++..+...+.+++++ +|.+||||.++..
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 599999998 456788899999999999999876 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (940)
+.+++++++..+||+|++.+.++.+.+ ..+|++|++.|++..++.++++++++++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 889999999999999999887776655 5689999999999999999999999999999999999999999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|+++.....++ .+.+++...++++++.++++|++++.+..+..+++++++.|+. .++.|++.+.+......
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 3446788999999888899999998889999999999999998 78999998866543221
Q ss_pred CCCCccccccceeEEEEEecCCCh--hHHHHH---HHHHhhccCCCCCCCCCCCchhhhhhhHHHH
Q 002301 268 PFPSDVMDDIQGVLTLRTYTPDSV--LKRKFI---SRWRNLTDAKTPNGYIGLNAYGFYAYDTVWL 328 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~ 328 (940)
....+..+|+++..++.+..+ ..+.|. ..+++.++ ..++.++.++||++++
T Consensus 235 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ---EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE-------DQPDYFAALAYDAVLL 290 (299)
T ss_pred ---HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC-------CCCChhhhhhcceeee
Confidence 123356788888887766433 333333 33333332 4678899999999988
No 81
>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=99.95 E-value=1.1e-25 Score=249.74 Aligned_cols=309 Identities=15% Similarity=0.114 Sum_probs=249.7
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|.....|+++|++++|+.||+ .|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 599999998 467889999999999999999998 59999999999999999999999999998 9999999999887
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC-cchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD-HGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~ 187 (940)
+.++ +++.+.++|+|+++++++.+.. .|++|++.+++..++.++++++...+.+++++|+.++. ||+...+.+++.
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 8889999999998776665543 57889999999999999999998889999999987765 999999999999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNS 267 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 267 (940)
+++.|++++....++ .+..|+..++.++++.++|+|++......+..++++++++|+..+... ..........
T Consensus 157 ~~~~G~~v~~~~~~~--~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~~--~~~~~~~~~~--- 229 (341)
T cd06341 157 LAAAGVSVAGIVVIT--ATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVVL--SGTCYDPALL--- 229 (341)
T ss_pred HHHcCCccccccccC--CCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEEE--ecCCCCHHHH---
Confidence 999999988776666 346789999999999999999998888899999999999998765321 1111111110
Q ss_pred CCCCccccccceeEEEEEecC---CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCCcc
Q 002301 268 PFPSDVMDDIQGVLTLRTYTP---DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQGGNLS 344 (940)
Q Consensus 268 ~~~~~~~~~~~g~l~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 344 (940)
....+..+|++...++.| +.+..+.|.+.+++.... ....++.++..+||+++++++|++++ ++..
T Consensus 230 ---~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~----~~~~~~~~~~~~yda~~~~~~a~~~a---g~~~- 298 (341)
T cd06341 230 ---AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQ----LDPPEQGFALIGYIAADLFLRGLSGA---GGCP- 298 (341)
T ss_pred ---HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCC----CCCCcchHHHHHHHHHHHHHHHHHhc---CCCC-
Confidence 222356789888877765 467778888766653321 11357889999999999999999995 1111
Q ss_pred cccCCCcccccCCccCCcccccCChHH-HHHHHHhccccccce
Q 002301 345 FSKDSRLSDIQGHLRLDSLRIFNGGNL-LRDSILQANMTGTAG 386 (940)
Q Consensus 345 ~~~~~~~~~~~g~~~~~~~~~~~~g~~-l~~~l~~~~f~g~tG 386 (940)
+++. ++++|++++.....|
T Consensus 299 -----------------------~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 299 -----------------------TRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred -----------------------ChHHHHHHHhhcCCCCCCCC
Confidence 3666 999999998554444
No 82
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.94 E-value=1.8e-25 Score=244.58 Aligned_cols=279 Identities=22% Similarity=0.289 Sum_probs=227.8
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCchh
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (940)
+||+++|++ +..|.....|+++|+++||+ +|+ +|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 599999998 55678889999999999999 887 59999999999999999999999999986 9999999998887
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
+.++.+++...++|+|+++++++.+. ...+|+||+.+++..++..+++++...||++|++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 78888999999999999877654443 44689999999999999999999999999999999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
++.|+++.....++. ...++...+.+++..++++|++......+..+++++++.|+..+ ++.++..... +..
T Consensus 158 ~~~G~~v~~~~~~~~--~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~-~~~-- 229 (312)
T cd06333 158 PKYGIEVVADERYGR--TDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASP-DFL-- 229 (312)
T ss_pred HHcCCEEEEEEeeCC--CCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcH-HHH--
Confidence 999999987777763 44578888999988889999998887778889999999998655 3333322211 110
Q ss_pred CCCccccccceeEEEEEe------cC----CChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHH
Q 002301 269 FPSDVMDDIQGVLTLRTY------TP----DSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLA 330 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la 330 (940)
+...+..+|++....+ .| ..+..++|.++|+++++. ..+..++..+||++++++
T Consensus 230 --~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~------~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 230 --RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA------GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred --HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC------CCCCchhHHHHHHHHHHH
Confidence 1222456777654321 22 235689999999998862 236788999999999999
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=5.4e-24 Score=231.44 Aligned_cols=280 Identities=26% Similarity=0.331 Sum_probs=235.4
Q ss_pred EEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+||+++|++ +..|.....|+++|++++|+.+|+ +|+++++.++|+++++..+.+.+.++++++|.+||||.++..+
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 567888999999999999999987 6999999999999999999999999999999999999999888
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcC-CeEEEEEEEcCCcchhhHHHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYG-WREVIAIYVDDDHGRNGIAALGDTL 188 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~~~~l~~~l 188 (940)
..+.+.+...+||+|++.++.+.+.+..+|++|++.|++..++.++++++...+ |+++++++.+++++....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 889999999999999988877766544579999999999999999999998888 9999999999999999999999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccccCCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTALDTNSP 268 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 268 (940)
++.|+++.....++ .+..++...+++++..++++|++...+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~--- 231 (298)
T cd06268 160 KKLGGEVVAEETYP--PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL--- 231 (298)
T ss_pred HHcCCEEEEEeccC--CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH---
Confidence 99999998776666 344678899999998899999999888899999999999997 3457777655432211
Q ss_pred CCCccccccceeEEEEEecCC--ChhHHHHH-HHHHhhccCCCCCCCCCCCchhhhhhhHHHHHH
Q 002301 269 FPSDVMDDIQGVLTLRTYTPD--SVLKRKFI-SRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLA 330 (940)
Q Consensus 269 ~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la 330 (940)
....+..+|+++..++.+. .+....|. +.|++.++ ..++.++..+||++++++
T Consensus 232 --~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 --ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG-------RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred --HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC-------CCcccchHHHHHHHHHHc
Confidence 1123456888888776654 33444555 77777664 467889999999999998
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=1.6e-23 Score=218.87 Aligned_cols=324 Identities=16% Similarity=0.184 Sum_probs=245.1
Q ss_pred hHHHHHHHHHHHHHhcCCCCCCCCEEEE----------EEecCCC--CHHHHHHHHHHHHhc--CcEEEEcCCCchhHHH
Q 002301 46 KVAKLAIKAAVDDVNSDPTTLGGTKLKL----------QMQDCNH--SGFLALAEALHLMEG--QTVAIIGPQDAVTSHV 111 (940)
Q Consensus 46 ~~~~~a~~~Ave~IN~~~~iL~g~~l~~----------~~~D~~~--~~~~a~~~a~~li~~--~v~aiiGp~~s~~a~~ 111 (940)
+..+.|++.|++.++++. ..+|.++.+ ++.+..| +.=+++++..+|..+ .-.+++||.|..++-+
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 466899999999998764 336777777 6665555 334566666777765 6789999999999999
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH------HHcCCeEEEEEEEcCCcchh---hHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV------DHYGWREVIAIYVDDDHGRN---GIA 182 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l------~~~~w~~v~ii~~d~~~g~~---~~~ 182 (940)
++.+...+++|+||.++-. ++=...+.+-|+.|+....+..+.++. ++++|+... ||.+++-.++ .++
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999866643 322334689999999999999999999 489998655 9987753332 255
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccccc
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLSTA 262 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 262 (940)
++....+..+..+.+.... ...+++..+++.++ ..+||||+++.+.+.++++.+ ++...+|++|..|.+...
T Consensus 174 al~a~~~~f~~~~~~~~~l---~~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~~s 245 (380)
T cd06369 174 ALEAGVAYFSSALKFKELL---RTEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFNDV 245 (380)
T ss_pred hhhhhhhhhhhcccceeee---cCchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEecccch
Confidence 5555555555555544443 35578889998877 569999999999999999886 444579999999877544
Q ss_pred cCCCCCCCCccccccceeEEEEEecCCChhHHHHHHHHHhhccCCCCCCCCCC-CchhhhhhhHHHHHHHHHHHHhhcCC
Q 002301 263 LDTNSPFPSDVMDDIQGVLTLRTYTPDSVLKRKFISRWRNLTDAKTPNGYIGL-NAYGFYAYDTVWLLARAINSFFKQGG 341 (940)
Q Consensus 263 ~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~YDAv~~la~Al~~~~~~~~ 341 (940)
... +....++++.++.+++..|+.+..++ ... ..... +.+++..||||+++|+||+++++.++
T Consensus 246 y~~----d~~a~~amqsVLvIT~~~p~~~~~~~-------~~~-----fn~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~ 309 (380)
T cd06369 246 YYE----NTTSPPYMRNVLVLTLPPRNSTNNSS-------FTT-----DNSLLKDDYVAAYHDGVLLFGHVLKKFLESQE 309 (380)
T ss_pred hcc----CcchHHHHhceEEEecCCCCCccccc-------CCC-----CCcchHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 321 13456789999999988886654333 111 11122 28899999999999999999998876
Q ss_pred CcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee--ccceEEEEEecC
Q 002301 342 NLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI--GTGYRRIGYWSN 419 (940)
Q Consensus 342 ~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~--~~~~~~VG~w~~ 419 (940)
.. ++.++.+.|+|.+|.|++|.+.+|+|||| ...|.++.+. .++++.||.|+.
T Consensus 310 ~~------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t 364 (380)
T cd06369 310 GV------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDT 364 (380)
T ss_pred CC------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEEC
Confidence 43 24889999999999999999999999997 6899999875 378999999987
Q ss_pred CCC
Q 002301 420 YSG 422 (940)
Q Consensus 420 ~~g 422 (940)
..+
T Consensus 365 ~~n 367 (380)
T cd06369 365 STN 367 (380)
T ss_pred CCC
Confidence 553
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.88 E-value=1.7e-21 Score=205.09 Aligned_cols=218 Identities=24% Similarity=0.388 Sum_probs=188.1
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
..+|+|++.. +|+||.+. .++.+.||++|+++++++++|.++++... +|.+++.++.+|++|++++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~-~~g~~~G~~vdl~~~ia~~lg~~~~~~~~---------~~~~~~~~l~~G~vDi~~~~~ 91 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFK-QGDKYVGFDIDLWAAIAKELKLDYTLKPM---------DFSGIIPALQTKNVDLALAGI 91 (247)
T ss_pred CCeEEEEeCC--CCCCeeec-CCCceEEEeHHHHHHHHHHhCCceEEEeC---------CHHHHHHHHhCCCcCEEEecC
Confidence 4689999763 68898874 36789999999999999999988666543 399999999999999998889
Q ss_pred eeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCce
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVV 626 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (940)
+.|++|.+.++||.||+.+++.+++++..
T Consensus 92 ~~t~~R~~~~~fs~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (247)
T PRK09495 92 TITDERKKAIDFSDGYYKSGLLVMVKANN--------------------------------------------------- 120 (247)
T ss_pred ccCHHHHhhccccchheecceEEEEECCC---------------------------------------------------
Confidence 99999999999999999999999997665
Q ss_pred eehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHH
Q 002301 627 TIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFAR 706 (940)
Q Consensus 627 ~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~ 706 (940)
.++++++||. +++||+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~~~ 143 (247)
T PRK09495 121 -------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTGSV 143 (247)
T ss_pred -------------------------------------------------------CCCCChHHhC--CCEEEEecCchHH
Confidence 5688999998 8899999998888
Q ss_pred HHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC--cEEEeCCccccCcceeecCCCCcc
Q 002301 707 NYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC--EFSIVGQVFTKNGWGFAFPRDSPL 784 (940)
Q Consensus 707 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~spl 784 (940)
.++... .+..+++.+++.++.+++|.+ |++|+++.+.....+++++.. ++..++......+++++++|++.+
T Consensus 144 ~~l~~~--~~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l 217 (247)
T PRK09495 144 DYAKAN--IKTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSEL 217 (247)
T ss_pred HHHHhc--CCCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHH
Confidence 888542 334567778899999999999 999999999988888887643 566777666667899999999999
Q ss_pred hHHHHHHHHhcccccchHHHHHhhcc
Q 002301 785 AVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 785 ~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.+.+|++|.++.++|.+++|.+||+.
T Consensus 218 ~~~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 218 REKVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred HHHHHHHHHHHHHCCcHHHHHHHHcC
Confidence 99999999999999999999999997
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.87 E-value=4.5e-21 Score=206.32 Aligned_cols=222 Identities=18% Similarity=0.284 Sum_probs=185.9
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHH----hCCC-ccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEE
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAIN----LLPY-AVPYKLIPFGDGHNNPSCTELVRLITAGVYDAA 542 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~----~l~~-~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~ 542 (940)
..|+||+.. +|+||.+.+.+|++.||++|+++++++ ++|. .++++++++ +|..++..|.+|++|++
T Consensus 40 g~L~Vg~~~--~~pP~~f~~~~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~-------~~~~~i~~L~~G~~Di~ 110 (302)
T PRK10797 40 GVIVVGHRE--SSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI-------TSQNRIPLLQNGTFDFE 110 (302)
T ss_pred CeEEEEEcC--CCCCcceECCCCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc-------ChHhHHHHHHCCCccEE
Confidence 569999874 788998866678899999998777765 6664 355777773 48889999999999999
Q ss_pred eeceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCc
Q 002301 543 VGDIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPK 622 (940)
Q Consensus 543 ~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (940)
++++++|++|.+.++||.||..++..+++++..
T Consensus 111 ~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~----------------------------------------------- 143 (302)
T PRK10797 111 CGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG----------------------------------------------- 143 (302)
T ss_pred ecCCccCcchhhcceecccEeeccEEEEEECCC-----------------------------------------------
Confidence 999999999999999999999999999998653
Q ss_pred CCceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeC
Q 002301 623 RQVVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVN 702 (940)
Q Consensus 623 ~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~g 702 (940)
.|++++||. |++||+..|
T Consensus 144 ------------------------------------------------------------~i~sl~dL~--Gk~V~v~~g 161 (302)
T PRK10797 144 ------------------------------------------------------------DIKDFADLK--GKAVVVTSG 161 (302)
T ss_pred ------------------------------------------------------------CCCChHHcC--CCEEEEeCC
Confidence 478899997 889999999
Q ss_pred chHHHHHHhhhC--CCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhc--CC-cEEEeCCccccCcceee
Q 002301 703 SFARNYLVDELN--IDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLST--RC-EFSIVGQVFTKNGWGFA 777 (940)
Q Consensus 703 s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~--~~-~l~~~~~~~~~~~~~~~ 777 (940)
+....++..... ....+++.+.+.++.+++|.. |++|+++.+...+.+.+.+ .. .++++++.+...+++++
T Consensus 162 s~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a 237 (302)
T PRK10797 162 TTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCM 237 (302)
T ss_pred CcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEE
Confidence 988887753221 123567888999999999999 9999999998776654433 22 47788887777889999
Q ss_pred cCCCCc-chHHHHHHHHhcccccchHHHHHhhccc
Q 002301 778 FPRDSP-LAVDISTAILKLSENGDLQRIHDKWLLR 811 (940)
Q Consensus 778 ~~k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~~~ 811 (940)
++|+++ ++..+|++|.+++++|.+++|.+||+..
T Consensus 238 ~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 238 LRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred EeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 999988 9999999999999999999999999983
No 87
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.86 E-value=3.8e-21 Score=199.75 Aligned_cols=221 Identities=27% Similarity=0.422 Sum_probs=184.3
Q ss_pred EEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeee
Q 002301 470 LRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAII 549 (940)
Q Consensus 470 l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t 549 (940)
||||+.. +|+||.+.++++.+.|+++|+++++++++|+++++...+ |.+++.+|.+|++|+++++++.+
T Consensus 1 l~V~~~~--~~~P~~~~~~~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~~ 69 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDEDGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSIT 69 (225)
T ss_dssp EEEEEES--EBTTTBEEETTSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-B
T ss_pred CEEEEcC--CCCCeEEECCCCCEEEEhHHHHHHHHhhcccccceeecc---------ccccccccccccccccccccccc
Confidence 6888854 788999977789999999999999999999997776654 99999999999999999899999
Q ss_pred cCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeeh
Q 002301 550 TNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIF 629 (940)
Q Consensus 550 ~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (940)
++|.+.++||.||.....++++++.+..
T Consensus 70 ~~r~~~~~~s~p~~~~~~~~~~~~~~~~---------------------------------------------------- 97 (225)
T PF00497_consen 70 PERAKKFDFSDPYYSSPYVLVVRKGDAP---------------------------------------------------- 97 (225)
T ss_dssp HHHHTTEEEESESEEEEEEEEEETTSTC----------------------------------------------------
T ss_pred ccccccccccccccchhheeeecccccc----------------------------------------------------
Confidence 9999999999999999999999975310
Q ss_pred hhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHHHH
Q 002301 630 WFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARNYL 709 (940)
Q Consensus 630 ~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~~l 709 (940)
....+++++||. +.+||+..|+....++
T Consensus 98 --------------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~l 125 (225)
T PF00497_consen 98 --------------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADYL 125 (225)
T ss_dssp --------------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHHH
T ss_pred --------------------------------------------------ccccccchhhhc--CcccccccchhHHHHh
Confidence 014667788995 7889999999888888
Q ss_pred HhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC--cEEEeCCccccCcceeecCCCCc-chH
Q 002301 710 VDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC--EFSIVGQVFTKNGWGFAFPRDSP-LAV 786 (940)
Q Consensus 710 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~sp-l~~ 786 (940)
.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++.. ............+++++++++.+ +.+
T Consensus 126 ~~~~~~-~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 200 (225)
T PF00497_consen 126 KQQYPS-NINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLE 200 (225)
T ss_dssp HHHTHH-TSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHH
T ss_pred hhhccc-hhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHH
Confidence 553211 3567788999999999999 999999999999999998864 23332455556667777776555 999
Q ss_pred HHHHHHHhcccccchHHHHHhhcc
Q 002301 787 DISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 787 ~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.||++|.++.++|.+++|.+||++
T Consensus 201 ~~n~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 201 IFNKAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHHHHhCcHHHHHHHHHcC
Confidence 999999999999999999999986
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.85 E-value=2.1e-20 Score=198.99 Aligned_cols=221 Identities=19% Similarity=0.351 Sum_probs=190.1
Q ss_pred CCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
..++|+||+.. +|+||.+.+++|.+.||.+|+++.+++++|.++++... .|.+++.++.+|++|+++++
T Consensus 39 ~~~~l~v~~~~--~~~P~~~~~~~g~~~G~~~dl~~~i~~~lg~~~e~~~~---------~~~~~~~~l~~G~~D~~~~~ 107 (266)
T PRK11260 39 ERGTLLVGLEG--TYPPFSFQGEDGKLTGFEVEFAEALAKHLGVKASLKPT---------KWDGMLASLDSKRIDVVINQ 107 (266)
T ss_pred cCCeEEEEeCC--CcCCceEECCCCCEEEehHHHHHHHHHHHCCeEEEEeC---------CHHHHHHHHhcCCCCEEEec
Confidence 45789999864 68899886677899999999999999999988666543 39999999999999999988
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
++.+++|.+.+.||.||...+.++++++..
T Consensus 108 ~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 137 (266)
T PRK11260 108 VTISDERKKKYDFSTPYTVSGIQALVKKGN-------------------------------------------------- 137 (266)
T ss_pred cccCHHHHhccccCCceeecceEEEEEcCC--------------------------------------------------
Confidence 999999999999999999999999988654
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchH
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFA 705 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~ 705 (940)
...+++++||. +++||+..|+..
T Consensus 138 -------------------------------------------------------~~~~~~~~dL~--g~~Igv~~G~~~ 160 (266)
T PRK11260 138 -------------------------------------------------------EGTIKTAADLK--GKKVGVGLGTNY 160 (266)
T ss_pred -------------------------------------------------------cCCCCCHHHcC--CCEEEEecCCcH
Confidence 14678899996 889999999988
Q ss_pred HHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCc-EEEeCCccccCcceeecCCCCc-
Q 002301 706 RNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCE-FSIVGQVFTKNGWGFAFPRDSP- 783 (940)
Q Consensus 706 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~k~sp- 783 (940)
..++.+ ..+..++..+++..+.+++|.+ |++|+++.+...+.+++++..+ +.+....+...+++++++|+++
T Consensus 161 ~~~l~~--~~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ 234 (266)
T PRK11260 161 EQWLRQ--NVQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPD 234 (266)
T ss_pred HHHHHH--hCCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHH
Confidence 888854 3444567788999999999999 9999999999888888877553 5555566667789999999988
Q ss_pred chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 784 LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 784 l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
+...+|++|.++.++|.++++.+||+.
T Consensus 235 l~~~ln~~l~~~~~~g~~~~i~~k~~~ 261 (266)
T PRK11260 235 LLKAVNQAIAEMQKDGTLKALSEKWFG 261 (266)
T ss_pred HHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999999988
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.85 E-value=3.6e-20 Score=196.43 Aligned_cols=222 Identities=18% Similarity=0.279 Sum_probs=179.7
Q ss_pred CCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
..++|+|++.. +|+||.+.+++|.+.|+++||++++++++|.++++... +|+.++.++..|++|+++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~~g~~~G~~vdl~~~ia~~lg~~~~~~~~---------~~~~~~~~l~~g~~Di~~~~ 92 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDAKGDFVGFDIDLGNEMCKRMQVKCTWVAS---------DFDALIPSLKAKKIDAIISS 92 (260)
T ss_pred cCCeEEEEecC--CcCCceeECCCCCEEeeeHHHHHHHHHHhCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 35789999863 68899986667899999999999999999998666544 39999999999999999998
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
+..|++|.+.++||.||..+..++++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (260)
T PRK15010 93 LSITDKRQQEIAFSDKLYAADSRLIAAKGS-------------------------------------------------- 122 (260)
T ss_pred CcCCHHHHhhcccccceEeccEEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999988765
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchH
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFA 705 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~ 705 (940)
+...+++||. |++||+..|+..
T Consensus 123 --------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs~~ 144 (260)
T PRK15010 123 --------------------------------------------------------PIQPTLDSLK--GKHVGVLQGSTQ 144 (260)
T ss_pred --------------------------------------------------------CCCCChhHcC--CCEEEEecCchH
Confidence 2233688896 889999999987
Q ss_pred HHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHH-HHhcC-C-cEEEeCCcc-----ccCcceee
Q 002301 706 RNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAEL-FLSTR-C-EFSIVGQVF-----TKNGWGFA 777 (940)
Q Consensus 706 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~-~~~~~-~-~l~~~~~~~-----~~~~~~~~ 777 (940)
..++.........+++.+.+.++.+++|.+ |++|+++.+...+.+ +.++. . ++...+..+ ...+++++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a 220 (260)
T PRK15010 145 EAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVG 220 (260)
T ss_pred HHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEE
Confidence 777754332222456678888999999999 999999999877754 34432 2 355544322 22346789
Q ss_pred cCCCCc-chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 778 FPRDSP-LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 778 ~~k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
++++.+ |+..+|++|.++.++|.+++|.+||+.
T Consensus 221 ~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 221 LRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred EeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 998877 999999999999999999999999997
No 90
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.84 E-value=7.3e-20 Score=192.47 Aligned_cols=217 Identities=22% Similarity=0.383 Sum_probs=180.9
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
..+|+|++.. +|+||.+.+.+|++.|+++|+++++++++|++++|... +|..++..+.+|++|++++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~ 88 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDANNQIVGFDVDLAQALCKEIDATCTFSNQ---------AFDSLIPSLKFRRVEAVMAGM 88 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCCCCCEEeeeHHHHHHHHHHhCCcEEEEeC---------CHHHHhHHHhCCCcCEEEEcC
Confidence 4689999863 78899886667899999999999999999999666543 499999999999999998888
Q ss_pred eeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCce
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVV 626 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (940)
+.+++|.+.++||.||+..+.+++.+.
T Consensus 89 ~~~~~r~~~~~fs~p~~~~~~~~v~~~----------------------------------------------------- 115 (243)
T PRK15007 89 DITPEREKQVLFTTPYYDNSALFVGQQ----------------------------------------------------- 115 (243)
T ss_pred ccCHHHhcccceecCccccceEEEEeC-----------------------------------------------------
Confidence 999999999999999999887776542
Q ss_pred eehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHH
Q 002301 627 TIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFAR 706 (940)
Q Consensus 627 ~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~ 706 (940)
..+++++||. +++||+..|+...
T Consensus 116 -------------------------------------------------------~~~~~~~dL~--g~~Igv~~g~~~~ 138 (243)
T PRK15007 116 -------------------------------------------------------GKYTSVDQLK--GKKVGVQNGTTHQ 138 (243)
T ss_pred -------------------------------------------------------CCCCCHHHhC--CCeEEEecCcHHH
Confidence 2356789997 8899999999888
Q ss_pred HHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCc-----cccCcceeecCCC
Q 002301 707 NYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQV-----FTKNGWGFAFPRD 781 (940)
Q Consensus 707 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k~ 781 (940)
.++.+. .+..+++.+++.++.+++|.+ |++|+++.+...+.+++++..++..++.. +...+.+++++++
T Consensus 139 ~~l~~~--~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 212 (243)
T PRK15007 139 KFIMDK--HPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQG 212 (243)
T ss_pred HHHHHh--CCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeCC
Confidence 888542 334566778899999999999 99999999998888888776665554432 2234578999987
Q ss_pred Cc-chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 782 SP-LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 782 sp-l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.+ ++..||++|.++.++|.++++.+||+.
T Consensus 213 ~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 213 NTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 76 999999999999999999999999985
No 91
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.84 E-value=7.6e-20 Score=193.36 Aligned_cols=218 Identities=23% Similarity=0.369 Sum_probs=184.0
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+|+|++. .+|+||.+.+++++++||++|+++++++.+|++++|+.. +|.+++.++.+|++|+++++++
T Consensus 24 ~~l~v~~~--~~~~P~~~~~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~~~~~~~l~~G~~D~~~~~~~ 92 (250)
T TIGR01096 24 GSVRIGTE--TGYPPFESKDANGKLVGFDVDLAKALCKRMKAKCKFVEQ---------NFDGLIPSLKAKKVDAIMATMS 92 (250)
T ss_pred CeEEEEEC--CCCCCceEECCCCCEEeehHHHHHHHHHHhCCeEEEEeC---------CHHHHHHHHhCCCcCEEEecCc
Confidence 68999985 378899886677899999999999999999988655443 4999999999999999988888
Q ss_pred eecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCcee
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVT 627 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (940)
.+++|.+.+.||.|+...+..+++++..
T Consensus 93 ~~~~r~~~~~~s~p~~~~~~~~~~~~~~---------------------------------------------------- 120 (250)
T TIGR01096 93 ITPKRQKQIDFSDPYYATGQGFVVKKGS---------------------------------------------------- 120 (250)
T ss_pred cCHHHhhccccccchhcCCeEEEEECCC----------------------------------------------------
Confidence 9999999999999999999999998765
Q ss_pred ehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHH
Q 002301 628 IFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARN 707 (940)
Q Consensus 628 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~ 707 (940)
+.+.+++||. ++++|+..|+....
T Consensus 121 ------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~~ 144 (250)
T TIGR01096 121 ------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHEQ 144 (250)
T ss_pred ------------------------------------------------------CcCCChHHcC--CCEEEEecCchHHH
Confidence 3356788997 88999999998888
Q ss_pred HHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC---cEEEeCCcccc-----CcceeecC
Q 002301 708 YLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC---EFSIVGQVFTK-----NGWGFAFP 779 (940)
Q Consensus 708 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~~~-----~~~~~~~~ 779 (940)
++.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++.. ++.+++..+.. ..++++++
T Consensus 145 ~l~~~~~~-~~~~~~~~s~~~~~~~L~~----g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 219 (250)
T TIGR01096 145 YLKDYFKP-GVDIVEYDSYDNANMDLKA----GRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLR 219 (250)
T ss_pred HHHHhccC-CcEEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEe
Confidence 88553321 3456778899999999999 999999999999988887643 36666554332 24789999
Q ss_pred CCCc-chHHHHHHHHhcccccchHHHHHhhc
Q 002301 780 RDSP-LAVDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 780 k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
|+++ +...+|++|.+|.++|.+++|.+||+
T Consensus 220 ~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 220 KGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 9887 99999999999999999999999996
No 92
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.84 E-value=1.5e-19 Score=190.70 Aligned_cols=218 Identities=17% Similarity=0.293 Sum_probs=179.6
Q ss_pred CCceEEEEecCcccccceEEe-CCCcceeeeeHHHHHHHHHhC-CCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEe
Q 002301 466 NGRHLRIGVPNRVSFREFVSV-KGSEMTSGFCIDVFTAAINLL-PYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAV 543 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~-~~~~~~~G~~idll~~l~~~l-~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~ 543 (940)
...+|+||+.. +++||.+. +++|++.||++||++++++++ |..+++++.++ +|.....+|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~-------~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVAV-------NAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEEc-------ChhhHHHHHHCCCccEEE
Confidence 34689999985 78899884 357899999999999999994 86656666652 377778999999999999
Q ss_pred eceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcC
Q 002301 544 GDIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKR 623 (940)
Q Consensus 544 ~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (940)
+++++|++|.+.++||.||+.++.++++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998754
Q ss_pred CceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCc
Q 002301 624 QVVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNS 703 (940)
Q Consensus 624 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs 703 (940)
++++++||. |++||+..|+
T Consensus 139 -----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs 157 (259)
T PRK11917 139 -----------------------------------------------------------NYKSLADMK--GANIGVAQAA 157 (259)
T ss_pred -----------------------------------------------------------CCCCHHHhC--CCeEEEecCC
Confidence 478899998 8999999999
Q ss_pred hHHHHHHhhhC--CCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCccccCcceeecCCC
Q 002301 704 FARNYLVDELN--IDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQVFTKNGWGFAFPRD 781 (940)
Q Consensus 704 ~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~ 781 (940)
.....+.+... ....+++.+++..+.+++|.. |++|+++.+...+.++..+ +..++++.+...+++++++|+
T Consensus 158 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~k~ 231 (259)
T PRK11917 158 TTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVTKKD 231 (259)
T ss_pred cHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEEeCC
Confidence 87766643221 112355678899999999999 9999999998877666554 345666777778899999999
Q ss_pred Cc-chHHHHHHHHhcccccchHHHHHhhc
Q 002301 782 SP-LAVDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 782 sp-l~~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
++ +...+|+.|.++.. .+++|.+||-
T Consensus 232 ~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 232 DPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred CHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 88 99999999999864 7999999993
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.83 E-value=2.4e-19 Score=190.02 Aligned_cols=222 Identities=17% Similarity=0.267 Sum_probs=178.7
Q ss_pred CCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
...+|+|++.. .|+||.+.+.+|++.|+++|+++++++++|.+++++..+ |++++.++.+|++|+++++
T Consensus 24 ~~~~l~v~~~~--~~~P~~~~~~~g~~~G~~vdi~~~ia~~lg~~i~~~~~p---------w~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 24 IPQNIRIGTDP--TYAPFESKNSQGELVGFDIDLAKELCKRINTQCTFVENP---------LDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred cCCeEEEEeCC--CCCCcceeCCCCCEEeeeHHHHHHHHHHcCCceEEEeCC---------HHHHHHHHHCCCCCEEEec
Confidence 34789999863 588998866678999999999999999999987776554 9999999999999999999
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
++.|++|.+.++||.||...+.++++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS-------------------------------------------------- 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999988765
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchH
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFA 705 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~ 705 (940)
+...+++||. +.+||+..|+..
T Consensus 123 --------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~~ 144 (259)
T PRK15437 123 --------------------------------------------------------DIQPTVESLK--GKRVGVLQGTTQ 144 (259)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCcHH
Confidence 2234688986 889999999988
Q ss_pred HHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHH-HHhcC--CcEEEeCC-----ccccCcceee
Q 002301 706 RNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAEL-FLSTR--CEFSIVGQ-----VFTKNGWGFA 777 (940)
Q Consensus 706 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~-~~~~~--~~l~~~~~-----~~~~~~~~~~ 777 (940)
..++.........+++.+.+.++.+++|.+ |++|+++.+.....+ ++++. .++...+. .+...+++++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia 220 (259)
T PRK15437 145 ETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMG 220 (259)
T ss_pred HHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEE
Confidence 777754322222456788899999999999 999999998876653 33332 23443322 2223346788
Q ss_pred cCCCCc-chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 778 FPRDSP-LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 778 ~~k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
++++.+ +++.+|++|.++..+|.+++|.+||+.
T Consensus 221 ~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~ 254 (259)
T PRK15437 221 LRKEDNELREALNKAFAEMRADGTYEKLAKKYFD 254 (259)
T ss_pred EeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcC
Confidence 887766 999999999999999999999999998
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=99.82 E-value=2.1e-19 Score=192.00 Aligned_cols=221 Identities=18% Similarity=0.201 Sum_probs=180.8
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCc-cCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYA-VPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~-~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
-.+|+|++. +|+||.+.+.+|++.|+++||++++++++|++ +++... +|++++..+.+|++|+++++
T Consensus 32 ~~~l~v~~~---~~pP~~~~~~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~---------~w~~~~~~l~~G~~Di~~~~ 99 (275)
T TIGR02995 32 QGFARIAIA---NEPPFTYVGADGKVSGAAPDVARAIFKRLGIADVNASIT---------EYGALIPGLQAGRFDAIAAG 99 (275)
T ss_pred CCcEEEEcc---CCCCceeECCCCceecchHHHHHHHHHHhCCCceeeccC---------CHHHHHHHHHCCCcCEEeec
Confidence 467999986 57888886667889999999999999999986 455544 39999999999999999888
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
+++|++|.+.++||.||..+..++++++...
T Consensus 100 ~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------- 130 (275)
T TIGR02995 100 LFIKPERCKQVAFTQPILCDAEALLVKKGNP------------------------------------------------- 130 (275)
T ss_pred ccCCHHHHhccccccceeecceeEEEECCCC-------------------------------------------------
Confidence 9999999999999999999999999887651
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhh-CCCCeEEEeCch
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRS-SNYPIGYQVNSF 704 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~-~~~~i~~~~gs~ 704 (940)
..+++++||.. .+.+||+..|+.
T Consensus 131 --------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g~~ 154 (275)
T TIGR02995 131 --------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGGGT 154 (275)
T ss_pred --------------------------------------------------------CCCCCHHHhccCCCceEEEeCCcH
Confidence 34778888864 367899999999
Q ss_pred HHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC--cEEEeCCc---cccCcceeecC
Q 002301 705 ARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC--EFSIVGQV---FTKNGWGFAFP 779 (940)
Q Consensus 705 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~---~~~~~~~~~~~ 779 (940)
..+++.+ .+.+..+++.+++.++.+++|.+ |++|+++.+...+.+++++.. ++..+... .....++++++
T Consensus 155 ~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 229 (275)
T TIGR02995 155 EEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFR 229 (275)
T ss_pred HHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEEC
Confidence 8888853 34444567788999999999999 999999999999988887632 44443321 11122378888
Q ss_pred CCCc-chHHHHHHHHhcccccchHHHHHhhc
Q 002301 780 RDSP-LAVDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 780 k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
++.+ |.+.||++|.++.++|.+++|.+||-
T Consensus 230 ~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~ 260 (275)
T TIGR02995 230 PEDKELRDAFNVELAKLKESGEFAKIIAPYG 260 (275)
T ss_pred CCCHHHHHHHHHHHHHHHhChHHHHHHHHhC
Confidence 8776 99999999999999999999999993
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.78 E-value=2.6e-18 Score=196.93 Aligned_cols=221 Identities=17% Similarity=0.219 Sum_probs=178.0
Q ss_pred CCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
...+||||+... |+.+...++...||++||++++++++|++++++.. .+|++++.+|.+|++|+++++
T Consensus 41 ~~g~LrVg~~~~----P~~~~~~~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~~~ 108 (482)
T PRK10859 41 ERGELRVGTINS----PLTYYIGNDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAAAG 108 (482)
T ss_pred hCCEEEEEEecC----CCeeEecCCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEecc
Confidence 456899999742 33332223345999999999999999998666532 459999999999999999888
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
+++|++|.+.++||.||.....++++++..
T Consensus 109 lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~-------------------------------------------------- 138 (482)
T PRK10859 109 LTYTPERLKQFRFGPPYYSVSQQLVYRKGQ-------------------------------------------------- 138 (482)
T ss_pred CcCChhhhccCcccCCceeeeEEEEEeCCC--------------------------------------------------
Confidence 999999999999999999999999988765
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchH
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFA 705 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~ 705 (940)
..+++++||. |++|++..|+..
T Consensus 139 --------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS~~ 160 (482)
T PRK10859 139 --------------------------------------------------------PRPRSLGDLK--GGTLTVAAGSSH 160 (482)
T ss_pred --------------------------------------------------------CCCCCHHHhC--CCeEEEECCCcH
Confidence 5688899998 899999999988
Q ss_pred HHHHHhhh-CCCccC--cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCccccCcceeecCC-C
Q 002301 706 RNYLVDEL-NIDESR--LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQVFTKNGWGFAFPR-D 781 (940)
Q Consensus 706 ~~~l~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k-~ 781 (940)
...+.+.. ..+..+ ...+.+.++.+++|.+ |++|+++.+...+.+......++.+........+++++++| +
T Consensus 161 ~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k~~ 236 (482)
T PRK10859 161 VETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPPSG 236 (482)
T ss_pred HHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeCCC
Confidence 87774321 112222 2446789999999999 99999999988777655555566665444455678999999 4
Q ss_pred Cc-chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 782 SP-LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 782 sp-l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.+ |...+|++|.++.++|.+++|.+||+.
T Consensus 237 ~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 237 DDSLYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred CHHHHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 55 999999999999999999999999998
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.75 E-value=1.6e-17 Score=214.68 Aligned_cols=215 Identities=15% Similarity=0.219 Sum_probs=177.6
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+++|++. ++|+||.+.+.+|++.||.+|+++++++++|++ ++++++ .+|..+...+.+|++|++.+ +.
T Consensus 302 ~~l~v~~~--~~~pP~~~~d~~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~-~~ 370 (1197)
T PRK09959 302 PDLKVLEN--PYSPPYSMTDENGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG-AI 370 (1197)
T ss_pred CceEEEcC--CCCCCeeEECCCCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec-cc
Confidence 46888876 478999997778999999999999999999988 555543 34888999999999998766 66
Q ss_pred eecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCcee
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVT 627 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (940)
.|++|.+.++||.||..+.+++++++..
T Consensus 371 ~t~~r~~~~~fs~py~~~~~~~v~~~~~---------------------------------------------------- 398 (1197)
T PRK09959 371 YSEDRENNVLFAEAFITTPYVFVMQKAP---------------------------------------------------- 398 (1197)
T ss_pred CCccccccceeccccccCCEEEEEecCC----------------------------------------------------
Confidence 8999999999999999999999987543
Q ss_pred ehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHH
Q 002301 628 IFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARN 707 (940)
Q Consensus 628 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~ 707 (940)
..+.+ +. .|++||+..|+....
T Consensus 399 ------------------------------------------------------~~~~~---~~-~g~~vav~~g~~~~~ 420 (1197)
T PRK09959 399 ------------------------------------------------------DSEQT---LK-KGMKVAIPYYYELHS 420 (1197)
T ss_pred ------------------------------------------------------CCccc---cc-cCCEEEEeCCcchHH
Confidence 12222 22 488899999998888
Q ss_pred HHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC--cE-EEeCCccccCcceeecCCCCc-
Q 002301 708 YLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC--EF-SIVGQVFTKNGWGFAFPRDSP- 783 (940)
Q Consensus 708 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~l-~~~~~~~~~~~~~~~~~k~sp- 783 (940)
++.+. .+..+++.+++.++++++|.+ |++||++.+...+.|+++++. ++ ......+....++|+++|+.|
T Consensus 421 ~~~~~--~p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~ 494 (1197)
T PRK09959 421 QLKEM--YPEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPE 494 (1197)
T ss_pred HHHHH--CCCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHH
Confidence 87553 345678899999999999999 999999999999999988742 23 333444555678999999998
Q ss_pred chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 784 LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 784 l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
|...+|++|..+.++ .+++|.+||+.
T Consensus 495 L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 495 LKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred HHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 999999999999999 88999999987
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=99.73 E-value=5.1e-17 Score=170.33 Aligned_cols=208 Identities=17% Similarity=0.204 Sum_probs=157.2
Q ss_pred eEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHH---HHHHcCcccEEeec
Q 002301 469 HLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELV---RLITAGVYDAAVGD 545 (940)
Q Consensus 469 ~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~---~~l~~g~~Di~~~~ 545 (940)
+|+||+.. .|+||.+.++ .||++||++++++++|+++++.... |++++ ..|.+|++|++++
T Consensus 1 ~l~vg~~~--~~pPf~~~~~----~Gfdvdl~~~ia~~lg~~~~~~~~~---------~~~~~~~~~~L~~g~~Dii~~- 64 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKDG----SGFENKIAAALAAAMGRKVVFVWLA---------KPAIYLVRDGLDKKLCDVVLG- 64 (246)
T ss_pred CeEEEeCC--CCCCCccCCC----CcchHHHHHHHHHHhCCCeEEEEec---------cchhhHHHHHHhcCCccEEEe-
Confidence 47888874 8999998432 7999999999999999986665443 77766 6999999999985
Q ss_pred eeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCc
Q 002301 546 IAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQV 625 (940)
Q Consensus 546 ~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (940)
++++++| +.||.||+.++.++++++.+.
T Consensus 65 ~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------- 92 (246)
T TIGR03870 65 LDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------- 92 (246)
T ss_pred CCCChHH---HhcccCcEEeeeEEEEeCCCC-------------------------------------------------
Confidence 8888777 679999999999999988751
Q ss_pred eeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhH--hhhCCC-CeEEEeC
Q 002301 626 VTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDS--LRSSNY-PIGYQVN 702 (940)
Q Consensus 626 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~d--L~~~~~-~i~~~~g 702 (940)
..+++++| |. |+ +||+..|
T Consensus 93 --------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~g 114 (246)
T TIGR03870 93 --------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIFG 114 (246)
T ss_pred --------------------------------------------------------CCCCCccchhhc--cCceEEEecC
Confidence 35777765 55 87 9999999
Q ss_pred chHHHHHHhhhCCC-----ccCcccCC---------CHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcC-CcEE--Ee
Q 002301 703 SFARNYLVDELNID-----ESRLVPLN---------SPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTR-CEFS--IV 765 (940)
Q Consensus 703 s~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~-~~l~--~~ 765 (940)
+..+.++++..... ...++.+. +.++.+++|.. |++||++.+...+.+++.+. .++. .+
T Consensus 115 s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~~~~~~~~~~ 190 (246)
T TIGR03870 115 SPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKASPEPLRMTVI 190 (246)
T ss_pred ChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhCCCCceEEec
Confidence 99998885421110 01222221 35789999999 99999999877777776653 2333 33
Q ss_pred CCcc-------c--cCcceeecCCCCc-chHHHHHHHHhcccccchHHHHHhh
Q 002301 766 GQVF-------T--KNGWGFAFPRDSP-LAVDISTAILKLSENGDLQRIHDKW 808 (940)
Q Consensus 766 ~~~~-------~--~~~~~~~~~k~sp-l~~~~~~~il~l~e~G~~~~i~~kw 808 (940)
++.. . ..+++++++|+.+ |++.+|++|.+|. |.+++|..+|
T Consensus 191 ~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 191 PDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred cccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 3321 1 1135899999998 9999999999999 4899999988
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=99.73 E-value=5.2e-17 Score=173.03 Aligned_cols=229 Identities=13% Similarity=0.166 Sum_probs=167.1
Q ss_pred CCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhC-CCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEee
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLL-PYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVG 544 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l-~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 544 (940)
..++|+++.. +|+||.+.++++...|+..++++++++++ ++++++...+ |++++..+ .|+.|+++.
T Consensus 16 ~~~~l~~~~~---~~pPf~~~~~~~~~~G~~~~i~~~i~~~~~~~~~~~~~~p---------w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 16 AKEAITWIVN---DFPPFFIFSGPSKGRGVFDVILQEIRRALPQYEHRFVRVS---------FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred ccceeEEEec---ccCCeeEeCCCCCCCChHHHHHHHHHHHcCCCceeEEECC---------HHHHHHHH-hcCCCeEEe
Confidence 3468998876 78899886666788999999999999998 8887766655 99999999 788888777
Q ss_pred ceeeecCcceeeeecccccc-ccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcC
Q 002301 545 DIAIITNRTKMADFTQPYIE-SGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKR 623 (940)
Q Consensus 545 ~~~~t~~R~~~v~ft~p~~~-~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (940)
++++|++|.+.++||.||.. ...++++++..... +
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~--------------------------------------~------ 118 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG--------------------------------------V------ 118 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh--------------------------------------c------
Confidence 79999999999999999975 57888888754100 0
Q ss_pred CceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccC-CCCChhHhhh-CCCCeEEEe
Q 002301 624 QVVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSS-PIKGIDSLRS-SNYPIGYQV 701 (940)
Q Consensus 624 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~-~i~si~dL~~-~~~~i~~~~ 701 (940)
..+.. ++ ++.+|.+ .++++|+..
T Consensus 119 ------------------------------------------------------~~~~d~~~-~~~~l~~l~g~~vgv~~ 143 (268)
T TIGR02285 119 ------------------------------------------------------RDEQDGDV-DLKKLLASKKKRLGVIA 143 (268)
T ss_pred ------------------------------------------------------cccCCCCc-cHHHHhcCCCeEEEEec
Confidence 00001 11 2333321 267899998
Q ss_pred CchHHHHHHh---hhCC-CccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcC----CcEEEeCCcc--cc
Q 002301 702 NSFARNYLVD---ELNI-DESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTR----CEFSIVGQVF--TK 771 (940)
Q Consensus 702 gs~~~~~l~~---~~~~-~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~----~~l~~~~~~~--~~ 771 (940)
|+.....+.+ .... ...++..+.+.++.+++|.+ |++|+++.+...+.+++++. ..+....... ..
T Consensus 144 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (268)
T TIGR02285 144 SRSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAH 219 (268)
T ss_pred ceeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccc
Confidence 7755333222 1111 11235556778889999999 99999999999999888742 1344443211 22
Q ss_pred CcceeecCCCC---cchHHHHHHHHhcccccchHHHHHhhcc
Q 002301 772 NGWGFAFPRDS---PLAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 772 ~~~~~~~~k~s---pl~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.+++++++|+. .+.+.||++|.+|.++|.+++|.+||+.
T Consensus 220 ~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 220 ISVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 35789999974 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=99.71 E-value=4.3e-19 Score=170.74 Aligned_cols=107 Identities=32% Similarity=0.554 Sum_probs=82.1
Q ss_pred chhhHHHHHHHHHHHHHHHhhhhhccCCCCCC-------CCcCCceeehhhhhhHhhccc-cccccccchhhhHHHHHhh
Q 002301 588 TPMMWGVTAIFFLAVGAVVWILEHRLNDEFRG-------PPKRQVVTIFWFSFSTMFFAH-KEKTVSALGRLVLIIWLFV 659 (940)
Q Consensus 588 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~l~~~w~~~ 659 (940)
++++|++++++++++++++|++++..+.+++. ....++.+++|++++++++|+ ...|++.+.|++.++|+++
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 58999999999999999999999987776665 223458889999999999775 4589999999999999999
Q ss_pred hhhhhhhccceeeeeeeeccccCCCCChhHhhhCC
Q 002301 660 VLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSN 694 (940)
Q Consensus 660 ~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~ 694 (940)
+++++++|||+|+|+||.++.+++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999766
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.69 E-value=7.1e-16 Score=165.60 Aligned_cols=224 Identities=25% Similarity=0.337 Sum_probs=181.3
Q ss_pred CCceEEEEecCcccccceEEeCCC-cceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEee
Q 002301 466 NGRHLRIGVPNRVSFREFVSVKGS-EMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVG 544 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~~~~~-~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 544 (940)
....++|++... ..+||.+.+.. +++.||++|+++++++.++.....++++ .+|++++..+..|++|+.+.
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 346788888753 44588885555 6999999999999999998764334443 35999999999999999999
Q ss_pred ceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCC
Q 002301 545 DIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQ 624 (940)
Q Consensus 545 ~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (940)
++++|++|.+.++||.||+..+..+++++...
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999988761
Q ss_pred ceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCch
Q 002301 625 VVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSF 704 (940)
Q Consensus 625 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~ 704 (940)
..+.+++||. ++++|+..|+.
T Consensus 136 ---------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~ 156 (275)
T COG0834 136 ---------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTT 156 (275)
T ss_pred ---------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcc
Confidence 2378899999 89999999998
Q ss_pred --HHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHH--HhcCCc-EEEeCCcccc-Ccceeec
Q 002301 705 --ARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELF--LSTRCE-FSIVGQVFTK-NGWGFAF 778 (940)
Q Consensus 705 --~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~--~~~~~~-l~~~~~~~~~-~~~~~~~ 778 (940)
....... ......++.+++..+.+.+|.+ |++|+++.+...+.++ ..+..+ .......... .++++++
T Consensus 157 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (275)
T COG0834 157 DEAEEKAKK--PGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIAL 230 (275)
T ss_pred hhHHHHHhh--ccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEe
Confidence 4444322 2334567889999999999999 9999999999998883 444333 2233333333 6899999
Q ss_pred CCC--CcchHHHHHHHHhcccccchHHHHHhhcc
Q 002301 779 PRD--SPLAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 779 ~k~--spl~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
+|+ ..+.+.+|++|.++.++|.++++.+||+.
T Consensus 231 ~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 231 RKGDDPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred ccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 999 46999999999999999999999999998
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=99.69 E-value=1.1e-15 Score=157.18 Aligned_cols=214 Identities=27% Similarity=0.466 Sum_probs=178.4
Q ss_pred EEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeee
Q 002301 470 LRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAII 549 (940)
Q Consensus 470 l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t 549 (940)
|+|++.. .++||.+.++++.+.|++.|+++.+.+++|.++++... .|.+++.++.+|++|+++.....+
T Consensus 1 l~i~~~~--~~~p~~~~~~~g~~~G~~~~~~~~~~~~~g~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~~~~ 69 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDANGELTGFDVDLAKAIAKELGVKVKFVEV---------DWDGLITALKSGKVDLIAAGMTIT 69 (218)
T ss_pred CEEecCC--CCCCeeEECCCCCEEeeeHHHHHHHHHHhCCeEEEEeC---------CHHHHHHHHhcCCcCEEeecCcCC
Confidence 5777775 78899887788999999999999999999977555443 299999999999999999877788
Q ss_pred cCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeeh
Q 002301 550 TNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIF 629 (940)
Q Consensus 550 ~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (940)
.+|.+.+.|+.|+.....++++++..
T Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------------------ 95 (218)
T cd00134 70 PERAKQVDFSDPYYKSGQVILVKKGS------------------------------------------------------ 95 (218)
T ss_pred HHHHhhccCcccceeccEEEEEECCC------------------------------------------------------
Confidence 89999999999999999999998765
Q ss_pred hhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHHHH
Q 002301 630 WFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARNYL 709 (940)
Q Consensus 630 ~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~~l 709 (940)
++.+++||. |+++++..|+....++
T Consensus 96 -----------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~~ 120 (218)
T cd00134 96 -----------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKYL 120 (218)
T ss_pred -----------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHHH
Confidence 445899997 8899999888777777
Q ss_pred HhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcC-CcEEEeCCc--cccCcceeecCCCCc-ch
Q 002301 710 VDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTR-CEFSIVGQV--FTKNGWGFAFPRDSP-LA 785 (940)
Q Consensus 710 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~~~k~sp-l~ 785 (940)
.+... ...+..+.+.++.+++|.+ |++|+++.+.....+..++. +++.++... .....++++..++++ +.
T Consensus 121 ~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~ 194 (218)
T cd00134 121 KKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKELL 194 (218)
T ss_pred HHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHHH
Confidence 54332 3456778889999999999 89999999999888877765 677776653 344456777777774 99
Q ss_pred HHHHHHHHhcccccchHHHHHhhc
Q 002301 786 VDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 786 ~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
..++++|.+++++|.++.+.+||+
T Consensus 195 ~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 195 DAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHHHhCccHHHHHHhhC
Confidence 999999999999999999999996
No 102
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.67 E-value=1.5e-15 Score=156.02 Aligned_cols=215 Identities=27% Similarity=0.460 Sum_probs=181.0
Q ss_pred eEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceee
Q 002301 469 HLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAI 548 (940)
Q Consensus 469 ~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~ 548 (940)
+|+||+. +.++||...+.++.+.|+.+|+++.+.+++|+++++... +|..++..+.+|++|+++++...
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~g~~~G~~~~~~~~~~~~~g~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~~~ 69 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADEDGELTGFDVDLAKAIAKELGLKVEFVEV---------SFDNLLTALKSGKIDVVAAGMTI 69 (219)
T ss_pred CEEEEec--CCCCCcEEECCCCCcccchHHHHHHHHHHhCCeEEEEec---------cHHHHHHHHHCCcccEEeccccC
Confidence 4788886 478898887778889999999999999999977555443 49999999999999999987777
Q ss_pred ecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceee
Q 002301 549 ITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTI 628 (940)
Q Consensus 549 t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (940)
+.+|.+.+.|+.|+...+.++++++..
T Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 96 (219)
T smart00062 70 TPERAKQVDFSDPYYKSGQVILVRKDS----------------------------------------------------- 96 (219)
T ss_pred CHHHHhheeeccceeeceeEEEEecCC-----------------------------------------------------
Confidence 888888899999999999999987654
Q ss_pred hhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHHH
Q 002301 629 FWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARNY 708 (940)
Q Consensus 629 ~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~~ 708 (940)
++.+++||. |+++++..|+....+
T Consensus 97 ------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~~ 120 (219)
T smart00062 97 ------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEEL 120 (219)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEecCccHHHH
Confidence 578899996 888999998887777
Q ss_pred HHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcC--CcEEEeCCcccc-CcceeecCCCCc-c
Q 002301 709 LVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTR--CEFSIVGQVFTK-NGWGFAFPRDSP-L 784 (940)
Q Consensus 709 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~~~~k~sp-l 784 (940)
+... ....++..+.+..+.+++|.+ |++|+++...+...+..++. +++.++...... ..++++++|+++ +
T Consensus 121 ~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (219)
T smart00062 121 LKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPEL 194 (219)
T ss_pred HHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHH
Confidence 7543 223456778888999999999 89999999999888877764 567777665555 778999999987 9
Q ss_pred hHHHHHHHHhcccccchHHHHHhhc
Q 002301 785 AVDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 785 ~~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
.+.++++|.++.++|.++++.+||+
T Consensus 195 ~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 195 LDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHHHhCchHHHHHhccC
Confidence 9999999999999999999999996
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.65 E-value=1.3e-15 Score=197.23 Aligned_cols=220 Identities=12% Similarity=0.140 Sum_probs=182.8
Q ss_pred CCceEEEEecCcccccceEE-eCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEee
Q 002301 466 NGRHLRIGVPNRVSFREFVS-VKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVG 544 (940)
Q Consensus 466 ~g~~l~v~v~~~~~~~~~~~-~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 544 (940)
+.++|+||+.. +|+|+.+ .+.+|++.||.+|+++.+++++|.+ ++++++ .+|++++.++.+|++|++.+
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 44689999975 4444444 4578999999999999999999988 555542 36999999999999999999
Q ss_pred ceeeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCC
Q 002301 545 DIAIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQ 624 (940)
Q Consensus 545 ~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (940)
.++.+++|.+.++||.||+....++++++..
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------------- 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999988754
Q ss_pred ceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCch
Q 002301 625 VVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSF 704 (940)
Q Consensus 625 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~ 704 (940)
.+++++|+. +++++++.|+.
T Consensus 155 ----------------------------------------------------------~~~~~~~l~--~~~i~~~~g~~ 174 (1197)
T PRK09959 155 ----------------------------------------------------------SMRPLTSSK--PVNIARVANYP 174 (1197)
T ss_pred ----------------------------------------------------------CCCCccccc--CeEEEEeCCCC
Confidence 456677776 78899999998
Q ss_pred HHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC--cEEEeCCc-cccCcceeecCCC
Q 002301 705 ARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC--EFSIVGQV-FTKNGWGFAFPRD 781 (940)
Q Consensus 705 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~-~~~~~~~~~~~k~ 781 (940)
...++++ .++..+++.|++..+++++|.+ |++||++.+...+.|+++++. ++.+++.. .......++++|+
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 8888865 4556789999999999999999 999999999999999988743 45554322 2233466888999
Q ss_pred Cc-chHHHHHHHHhcccccchHHHHHhhccc
Q 002301 782 SP-LAVDISTAILKLSENGDLQRIHDKWLLR 811 (940)
Q Consensus 782 sp-l~~~~~~~il~l~e~G~~~~i~~kw~~~ 811 (940)
.| |...+|++|..+.++|.. +|.+||+..
T Consensus 249 ~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 249 SVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred cHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 99 889999999999999887 999999973
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=99.64 E-value=2.9e-14 Score=151.74 Aligned_cols=216 Identities=23% Similarity=0.339 Sum_probs=178.0
Q ss_pred EEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
+||+++|.+ ...+.....+++.|++++ |..+++.+.|+++++....+.+.++..+++.+|||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 556667778888888887 5678888999999998888888899988999999999987776
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-CcchhhHHHHHHHHh
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD-DHGRNGIAALGDTLA 189 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (940)
.+...+...++|+|++....+... .+++++++.+++..++.++++++.+++|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 678889999999999877665544 57899999999999999999999999999999999877 678888999999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC-CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCccc
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT-ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWLS 260 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 260 (940)
+.|+++......+.. ...++....+.++.. ++++|++.+. ..+..+++++.+.|+.+.++.|++.+.+.
T Consensus 151 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 998777654444321 225677777777766 7888888877 88899999999999875567777766544
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=99.63 E-value=6.5e-15 Score=153.64 Aligned_cols=210 Identities=17% Similarity=0.223 Sum_probs=159.2
Q ss_pred EEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeee
Q 002301 470 LRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAII 549 (940)
Q Consensus 470 l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t 549 (940)
|||++.. .|+||.+. ...||++||++++++++|.++++...++ .+..++..+.+|++|++++ +
T Consensus 2 l~v~~~~--~~~P~~~~----~~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~----~ 64 (232)
T TIGR03871 2 LRVCADP--NNLPFSNE----KGEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG----V 64 (232)
T ss_pred eEEEeCC--CCCCccCC----CCCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe----c
Confidence 7888763 78888762 2479999999999999999977776552 2444577899999999876 5
Q ss_pred cCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeeh
Q 002301 550 TNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIF 629 (940)
Q Consensus 550 ~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 629 (940)
++|.+.++||.||...+.++++++...
T Consensus 65 ~~r~~~~~fs~py~~~~~~lv~~~~~~----------------------------------------------------- 91 (232)
T TIGR03871 65 PAGYEMVLTTRPYYRSTYVFVTRKDSL----------------------------------------------------- 91 (232)
T ss_pred cCccccccccCCcEeeeEEEEEeCCCc-----------------------------------------------------
Confidence 778899999999999999999987741
Q ss_pred hhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHHHHH
Q 002301 630 WFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFARNYL 709 (940)
Q Consensus 630 ~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~~~l 709 (940)
..+++++|+...+++||+..|+....++
T Consensus 92 ----------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~~l 119 (232)
T TIGR03871 92 ----------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAHWL 119 (232)
T ss_pred ----------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHHHH
Confidence 4677888832238899999999988888
Q ss_pred HhhhCCCccCcc---------cCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcC-CcEEEeCCcc------ccCc
Q 002301 710 VDELNIDESRLV---------PLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTR-CEFSIVGQVF------TKNG 773 (940)
Q Consensus 710 ~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~~------~~~~ 773 (940)
.+. +.. .++. ...+..+.+.+|.. |++|+++.+...+.+++++. .++.+..... ...+
T Consensus 120 ~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (232)
T TIGR03871 120 ARH-GLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYR 193 (232)
T ss_pred Hhc-Ccc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccce
Confidence 542 211 1221 13477899999999 99999999988888877753 2444433211 2335
Q ss_pred ceeecCCCCc-chHHHHHHHHhcccccchHHHHHhhc
Q 002301 774 WGFAFPRDSP-LAVDISTAILKLSENGDLQRIHDKWL 809 (940)
Q Consensus 774 ~~~~~~k~sp-l~~~~~~~il~l~e~G~~~~i~~kw~ 809 (940)
++++++|+.+ ++..||++|.++. |.+++|.+||.
T Consensus 194 ~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 194 IAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred EEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 6888898877 9999999999975 47999999995
No 106
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.39 E-value=1.9e-12 Score=122.07 Aligned_cols=123 Identities=33% Similarity=0.532 Sum_probs=107.1
Q ss_pred CCCChhHhhhC-CCCeEEEeCchHHHHHHhhhCCC---------ccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhH
Q 002301 683 PIKGIDSLRSS-NYPIGYQVNSFARNYLVDELNID---------ESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYA 752 (940)
Q Consensus 683 ~i~si~dL~~~-~~~i~~~~gs~~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 752 (940)
||++++||..+ +.++|++.|++.+.++++..... ..+++.+++..+++.+|.. |+ ||++.+.+.+
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 47899999843 26899999999999996532210 0256778999999999999 89 9999999999
Q ss_pred HHHHhcCCcEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhhcc
Q 002301 753 ELFLSTRCEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 753 ~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
.+++++.|++.+++..+...+++++++||++|++.+|.+|.++.++|.++++.+||+.
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 9998888999999988888899999999999999999999999999999999999986
No 107
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.30 E-value=2.4e-11 Score=124.33 Aligned_cols=220 Identities=17% Similarity=0.193 Sum_probs=177.7
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
...|||++.++ |..+...++...|+++++.+++++.||.+++ ..+. .+-+.++.+|.+|++|+++.++
T Consensus 22 rGvLrV~tins----p~sy~~~~~~p~G~eYelak~Fa~yLgV~Lk--i~~~------~n~dqLf~aL~ng~~DL~Aagl 89 (473)
T COG4623 22 RGVLRVSTINS----PLSYFEDKGGPTGLEYELAKAFADYLGVKLK--IIPA------DNIDQLFDALDNGNADLAAAGL 89 (473)
T ss_pred cCeEEEEeecC----ccceeccCCCccchhHHHHHHHHHHhCCeEE--EEec------CCHHHHHHHHhCCCcceecccc
Confidence 45799999875 4444345667789999999999999997744 4442 4589999999999999999999
Q ss_pred eeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCce
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVV 626 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (940)
...++|.+.+.....|+...+.++.++.+
T Consensus 90 ~~~~~~l~~~~~gP~y~svs~qlVyRkG~--------------------------------------------------- 118 (473)
T COG4623 90 LYNSERLKNFQPGPTYYSVSQQLVYRKGQ--------------------------------------------------- 118 (473)
T ss_pred cCChhHhcccCCCCceecccHHHHhhcCC---------------------------------------------------
Confidence 99999999999999999999999988877
Q ss_pred eehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCchHH
Q 002301 627 TIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNSFAR 706 (940)
Q Consensus 627 ~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs~~~ 706 (940)
...+++++|. +..+.+..|+...
T Consensus 119 -------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~~~ 141 (473)
T COG4623 119 -------------------------------------------------------YRPRSLGQLK--GRQITVAKGSAHV 141 (473)
T ss_pred -------------------------------------------------------CCCCCHHHcc--CceeeccCCcHHH
Confidence 5667899998 7778899998765
Q ss_pred HHHHh--hhCCCcc--CcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCccccCcceeecCCCC
Q 002301 707 NYLVD--ELNIDES--RLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQVFTKNGWGFAFPRDS 782 (940)
Q Consensus 707 ~~l~~--~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s 782 (940)
..++. +..++.. +.-.-...+|.++.+.. |..+..+.++..+..+.+-++++.+.-+.-...+.++.+|.+.
T Consensus 142 ~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i~P~laVafd~tde~~v~Wy~~~~d 217 (473)
T COG4623 142 EDLKLLKETKYPELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRVHPELAVAFDLTDEQPVAWYLPRDD 217 (473)
T ss_pred HHHHHHHHhhcchhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHhCccceeeeecccccCceeeccCCc
Confidence 55432 2223311 11122478899999999 8999999999999888777887776666656688999999855
Q ss_pred c--chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 783 P--LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 783 p--l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
. |...++.++..+.|.|.++++++||++
T Consensus 218 d~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 218 DSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred hHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 4 999999999999999999999999997
No 108
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.24 E-value=2e-10 Score=131.97 Aligned_cols=308 Identities=16% Similarity=0.180 Sum_probs=164.9
Q ss_pred ceEEEEEEeecCCc---chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCc
Q 002301 30 SVVNIGALLSFSTN---VGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDA 106 (940)
Q Consensus 30 ~~i~IG~l~~~~~~---~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s 106 (940)
.+-+|++++|+++. .|+..+.|+..|. ++. .+.+.++.++||..+...+ ...+.+.+++..||||..-
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~----~~~~~~l~~~Dt~~~~~~~--~~~~a~~~ga~~ViGPL~k 288 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD----ADSRPELRFYDTNADSADA--LYQQAVADGADFVIGPLLK 288 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH----------TT--S-EEEEETTTS-HHH--HHHHHHHTT--EEE---SH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc----ccCCCceEEecCCCCCHHH--HHHHHHHcCCCEEEcCCCH
Confidence 35689999999954 4667788888888 222 1346678889998774433 3556777899999999998
Q ss_pred hhHHHHHHhhcc--CCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 107 VTSHVVSHVANE--LQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 107 ~~a~~va~~~~~--~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
.....++..-.. -.||++.....+.. .. -+.++...-+.+..++.+|+.+..-|+++..||++++++|....+.|
T Consensus 289 ~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF 365 (536)
T PF04348_consen 289 SNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAF 365 (536)
T ss_dssp HHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHH
T ss_pred HHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHH
Confidence 887777664432 48999987665543 11 24455555556667899999999999999999999999999999999
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecCcc-cccc
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATSWL-STAL 263 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~-~~~~ 263 (940)
.+.+.+.|..+.....+. ...++...++.-...+.|.|++.+.+.+++.+--...-. . ....-.+.|+.. ....
T Consensus 366 ~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~-a~~lPvyatS~~~~g~~ 440 (536)
T PF04348_consen 366 NQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-F-AGDLPVYATSRSYSGSP 440 (536)
T ss_dssp HHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T--TT-EEEE-GGG--HHT
T ss_pred HHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-c-CCCCCEEEeccccCCCC
Confidence 999999998887666665 456888888865567899999999888887665544321 1 122222333322 1111
Q ss_pred CCCCCCCCccccccceeEEEEEe-c--CCChhHHHHHHHHHhhccCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 002301 264 DTNSPFPSDVMDDIQGVLTLRTY-T--PDSVLKRKFISRWRNLTDAKTPNGYIGLNAYGFYAYDTVWLLARAINSFFKQG 340 (940)
Q Consensus 264 ~~~~~~~~~~~~~~~g~l~~~~~-~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~ 340 (940)
+ +.....+.|+...... . +..+..+.+.+.|.+.. .......+++|||..++.+- .+
T Consensus 441 ~------~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~--------~~~~RL~AlG~DA~~L~~~l-~~----- 500 (536)
T PF04348_consen 441 N------PSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS--------NSLQRLYALGIDAYRLAPRL-PQ----- 500 (536)
T ss_dssp -------HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT---------HHHHHHHHHHHHHHHHHHTH-HH-----
T ss_pred C------cchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc--------cHHHHHHHHHHHHHHHHHHH-HH-----
Confidence 1 2334678888777643 2 22333344444443211 11223344566665443321 11
Q ss_pred CCcccccCCCcccccCCccCCcccccCChHHHHHHHHhccccccceeEEEccCCCCCCCceEEEEee
Q 002301 341 GNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSILQANMTGTAGPARFNSHGDLINPAYEIINVI 407 (940)
Q Consensus 341 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~G~~~~~~~~I~~~~ 407 (940)
++.+....+.|.||.+++|++|. +.......++.
T Consensus 501 --------------------------------l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~ 534 (536)
T PF04348_consen 501 --------------------------------LRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFR 534 (536)
T ss_dssp --------------------------------HHHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEE
T ss_pred --------------------------------HhhCCCCcccCCceeEEECCCCe-EEEeecceeec
Confidence 12223346899999999999985 45555544443
No 109
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.91 E-value=1.5e-08 Score=107.20 Aligned_cols=198 Identities=18% Similarity=0.156 Sum_probs=141.1
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+|+||+.. .++|+ .+.+...++.+.+.+++|.++++... ++|+.++..+.+|++|+++.+..
T Consensus 32 ~~l~vg~~~--~~~~~-------~~~~~~~~l~~~l~~~~g~~v~~~~~--------~~~~~~~~~l~~g~~Di~~~~~~ 94 (254)
T TIGR01098 32 KELNFGILP--GENAS-------NLTRRWEPLADYLEKKLGIKVQLFVA--------TDYSAVIEAMRFGRVDIAWFGPS 94 (254)
T ss_pred CceEEEECC--CCCHH-------HHHHHHHHHHHHHHHHhCCcEEEEeC--------CCHHHHHHHHHcCCccEEEECcH
Confidence 469999873 33332 23345678999999999988655443 45999999999999999986554
Q ss_pred eec---Ccceeeeeccccccc------cEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCC
Q 002301 548 IIT---NRTKMADFTQPYIES------GLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFR 618 (940)
Q Consensus 548 ~t~---~R~~~v~ft~p~~~~------~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 618 (940)
... +|.+..+|+.||... ...+++++.
T Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d-------------------------------------------- 130 (254)
T TIGR01098 95 SYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKAD-------------------------------------------- 130 (254)
T ss_pred HHHHHHHhcCCceEEeeccccCCCCceEEEEEEECC--------------------------------------------
Confidence 333 566678888876643 245666543
Q ss_pred CCCcCCceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeE
Q 002301 619 GPPKRQVVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIG 698 (940)
Q Consensus 619 ~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~ 698 (940)
.+|++++||. |++|+
T Consensus 131 ---------------------------------------------------------------~~i~~~~dL~--gk~I~ 145 (254)
T TIGR01098 131 ---------------------------------------------------------------SPIKSLKDLK--GKTFA 145 (254)
T ss_pred ---------------------------------------------------------------CCCCChHHhc--CCEEE
Confidence 4688999997 88899
Q ss_pred EEe-CchH-----HHHHHhhhCCCc----cCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC----cEEE
Q 002301 699 YQV-NSFA-----RNYLVDELNIDE----SRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC----EFSI 764 (940)
Q Consensus 699 ~~~-gs~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~----~l~~ 764 (940)
+.. ++.. ..++.+..+... .++....+..+.+++|.+ |++|+.+.+.+....+..++. ++.+
T Consensus 146 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~~~~~~~~~~ 221 (254)
T TIGR01098 146 FGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRGPSDMKKVRV 221 (254)
T ss_pred eeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhCccchhheEE
Confidence 874 3321 233434333221 344555667889999999 999999999988877766642 5788
Q ss_pred eCCccccCcceeecCCC-Cc-chHHHHHHHHhc
Q 002301 765 VGQVFTKNGWGFAFPRD-SP-LAVDISTAILKL 795 (940)
Q Consensus 765 ~~~~~~~~~~~~~~~k~-sp-l~~~~~~~il~l 795 (940)
+.+.....+++++++|+ .+ +++.+|++|+.+
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 222 IWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 87666666789999999 54 999999999764
No 110
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.86 E-value=1e-08 Score=109.40 Aligned_cols=164 Identities=20% Similarity=0.279 Sum_probs=132.5
Q ss_pred CCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccc--cccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHH
Q 002301 525 PSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQP--YIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAV 602 (940)
Q Consensus 525 ~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p--~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~ 602 (940)
.+|.++...|.+|++|+++.+..++.+|.+.++|+.| |....+++++|..
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~---------------------------- 102 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPED---------------------------- 102 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECC----------------------------
Confidence 3489999999999999999999999999999999988 6777788888765
Q ss_pred HHHHhhhhhccCCCCCCCCcCCceeehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccC
Q 002301 603 GAVVWILEHRLNDEFRGPPKRQVVTIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSS 682 (940)
Q Consensus 603 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 682 (940)
.
T Consensus 103 -------------------------------------------------------------------------------~ 103 (287)
T PRK00489 103 -------------------------------------------------------------------------------S 103 (287)
T ss_pred -------------------------------------------------------------------------------C
Confidence 3
Q ss_pred CCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcE
Q 002301 683 PIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEF 762 (940)
Q Consensus 683 ~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l 762 (940)
+|++++||. |+++++..+.....++.+ .+.. .+++.+.+..|. ++.. |..|++++.......+.++ ++
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 688899998 889999888888888854 3432 456666655554 5555 8999999888777766654 57
Q ss_pred EEeCCccccCcceeecCC--CCc-chHHHHHHHHhcccccchHHHHHhhcc
Q 002301 763 SIVGQVFTKNGWGFAFPR--DSP-LAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 763 ~~~~~~~~~~~~~~~~~k--~sp-l~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
..+ +.+.....+++.+| .+| ....+|..+.+| .|.+..+..|||.
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 766 56666778999999 666 778899999999 5999999999998
No 111
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=98.85 E-value=1.7e-07 Score=99.54 Aligned_cols=205 Identities=12% Similarity=0.082 Sum_probs=146.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||+++|.+ .........+++.++++. |+ ++.+.|+..++....+.+.+++.+++.+||+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999985 455566778888877772 44 4556677778877788888888889999988666554444
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (940)
....+...++|+|.+....+. .++++++.+++...+..+++++...|-++|++|..+.. ++....+.|++.++
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 567788899999998665543 24567788888889999999998889999999986544 66677899999998
Q ss_pred cCc-eeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 190 AKR-CRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 190 ~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.| ..+....... .+..+....+.++.+.+ +++++... ...+..+++++.++|+..++.+-+.
T Consensus 146 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD--WDAEKGYQAAEELLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC--CCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 887 4433222222 34556667777776665 45555443 3466678899999997644444333
No 112
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.76 E-value=1.6e-09 Score=84.35 Aligned_cols=50 Identities=22% Similarity=0.507 Sum_probs=38.8
Q ss_pred CCCcceeeeeHHHHHHHHHhCCCccCeEEee---CCCCCCCCCHhHHHHHHHc
Q 002301 487 KGSEMTSGFCIDVFTAAINLLPYAVPYKLIP---FGDGHNNPSCTELVRLITA 536 (940)
Q Consensus 487 ~~~~~~~G~~idll~~l~~~l~~~~~~~~~~---~~~~~~n~~~~~~~~~l~~ 536 (940)
.++.+++|||+||+++|++.|||++++..++ ||...+||+|+||+++|.+
T Consensus 13 ~g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 13 TGNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp BGGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 3677999999999999999999996666654 2333478999999999874
No 113
>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=98.75 E-value=1.9e-06 Score=91.69 Aligned_cols=198 Identities=11% Similarity=0.060 Sum_probs=135.6
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCc-hhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDA-VTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~a~ 110 (940)
+||++.|.. .........+++.+.++. |+++ .+.|+..++........+++.+++.+||+...+ ....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------GVEL--IVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------CceE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 445556778888887772 4444 456666688877788888888899988864433 3333
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
...+.+...++|+|......+. .+.+..+.+++...+..+++++... |-+++++|+.+. .++....+.|++
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 3445667789999987654432 2345566777788888888887766 889999998654 477778899999
Q ss_pred HHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeE-EEEEecCCcHHHHHHHHHHcCCC
Q 002301 187 TLAAK-RCRISFKAPLSVEATEDEITDLLVKVALTESRI-IVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.+++. |+++....... .+..+....+.++.+..+++ .|+.++...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~ 206 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN--WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK 206 (267)
T ss_pred HHHhCCCcEEEEEecCC--CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC
Confidence 99988 46655432222 33455566777766554443 23334446777899999999875
No 114
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=98.67 E-value=1.3e-06 Score=92.72 Aligned_cols=205 Identities=11% Similarity=0.037 Sum_probs=139.1
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
+||++.|.. ..+......+++.+.++. |+++. +.|...++....+...+++++++.+||....+..+..
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYSVL--LCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 478999885 444555667777766652 45554 4567778888888888999989998887665555544
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (940)
...+...++|+|.+....+. +.+..+.+++...++.+++++...|.+++++++.+.. ++....+.+++.++
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 56688899999987654432 3455666777778888888887789999999986644 67777888999998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.+..+..........+.++....++++.... +++|+.. +...+..+.+++++.|+..++.+.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 88853322212221123455566666666555 5555543 44556678888899888654444443
No 115
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.66 E-value=4.7e-06 Score=89.13 Aligned_cols=204 Identities=14% Similarity=0.051 Sum_probs=137.0
Q ss_pred EEEEEeecCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCc-hhHH
Q 002301 33 NIGALLSFST-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDA-VTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~a~ 110 (940)
|||+++|... .+-.....+++.+.++. +. .|+++++.+.|+..++....+...+++.++|.+||....+ ....
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 5899997642 22223445555555442 11 3678888999999999888888888988999999874443 3223
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEc--CCcchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVD--DDHGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (940)
.....+...++|+|.+....+ . +.+.++.+++...+..+++++... |-+++++|..+ ...+....+.+++
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 344566778999998754321 1 446778888888889999887665 88999999743 3345667788999
Q ss_pred HHhcCc-eeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 187 TLAAKR-CRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
.+++.+ +.+......+ .+.++....+.++.+.++++..+.+..+.+..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD--WDQAVAQKAVADFLASNPDVDGIWTQGGDAVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeecCCC--CCHHHHHHHHHHHHHhCCCcCEEEecCCCcHHHHHHHHHcCCCCc
Confidence 998887 7765322212 344555667777665544433333333338889999999998444
No 116
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.59 E-value=3.5e-06 Score=90.53 Aligned_cols=201 Identities=14% Similarity=0.138 Sum_probs=136.0
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||++.+.+..+-.....+++ +++++.+..+ |.++++.+.|+..++........+++++++.+||+..++. ...+
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 589999865433333344444 5555566654 7899999999999999888888899888999999865432 2222
Q ss_pred HHhhccCCccEEeeecCCCCCCC----CCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC-CcchhhHHHHH
Q 002301 113 SHVANELQVPLLSFSATDPTLSS----LQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD-DHGRNGIAALG 185 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~----~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~ 185 (940)
.....++|+|.++..++.... ...+....+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 256779999988654432111 111222223445556677788887765 999999998654 36777789999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
+.+++.|+++.... . ....++...++++... +++|+...+ ..+..+++++.+.|+
T Consensus 154 ~~~~~~g~~~~~~~-~---~~~~~~~~~~~~~~~~-~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V---SSSNDVQQAAQSLAGK-VDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c---CCHHHHHHHHHHhccc-CCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999998876532 2 2345667777777643 677665543 466678888888775
No 117
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.56 E-value=4.8e-06 Score=90.16 Aligned_cols=313 Identities=13% Similarity=0.139 Sum_probs=186.8
Q ss_pred ceEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCc
Q 002301 30 SVVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDA 106 (940)
Q Consensus 30 ~~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s 106 (940)
.+=+|+.++|++ +..|.....|+..|-. ++.-.++-..++.++||...+..++-+ +...+++..|+||.--
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~----~~~~~~~~~~~~~i~dT~~~~l~~i~a--qaqq~G~~~VVGPLlK 329 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN----APATQTAQVAELKIYDTSAQPLDAILA--QAQQDGADFVVGPLLK 329 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc----CcccCCccccceeeccCCcccHHHHHH--HHHhcCCcEEeccccc
Confidence 467899999998 4456667778877655 112223444788899999887766532 2334599999999998
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCC--ceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHH
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFP--YFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p--~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (940)
.....+..-- ...+|++....++..- ..+ ..|-..|.| .++..|+.+-.-|.+...++.+.+++|+..+++|
T Consensus 330 ~nVe~L~~~~-q~~i~vLALN~~~n~r---~~~~~cyfaLSPED--Ea~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF 403 (604)
T COG3107 330 PNVEALLASN-QQPIPVLALNQPENSR---NPAQLCYFALSPED--EARDAANHLWDQGKRNPLVLVPRNDLGDRVANAF 403 (604)
T ss_pred hhHHHHHhCc-CCCCceeeecCCcccc---CcccceeeecChhH--HHHHHHHHHHHccccCceEEecchHHHHHHHHHH
Confidence 8877765432 3788888765443221 223 345555555 4788889999999999999999999999999999
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHH-----------------------HhcCC-CeEEEEEecCCcHHHHHHH
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVK-----------------------VALTE-SRIIVVHTHYNRGPVVFHV 240 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~-----------------------l~~~~-~~viv~~~~~~~~~~~l~~ 240 (940)
.+++++.|...+....|. +..++..-++. +.+.+ .|.|++...+.++..+--.
T Consensus 404 ~~~Wq~~gg~~v~~~~fg---~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ 480 (604)
T COG3107 404 NQEWQKLGGGTVLQQKFG---STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPM 480 (604)
T ss_pred HHHHHHhcCCchhHhhcC---cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhH
Confidence 999999988555444443 22222222211 12223 7788888888777655333
Q ss_pred HHHcCCCCCCeEEEecCccccccCCCCCCCCccccccceeEEEEE-e--cCCChhHHHHHHHHHhhccCCCCCCCCCCCc
Q 002301 241 AQYLGMLGTGYVWIATSWLSTALDTNSPFPSDVMDDIQGVLTLRT-Y--TPDSVLKRKFISRWRNLTDAKTPNGYIGLNA 317 (940)
Q Consensus 241 a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~g~l~~~~-~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 317 (940)
..-.+.. ..-.-+.++... ....+ ++....++|+..-.. + .+..|..++....|.+.
T Consensus 481 ia~~~~~-~~~p~yaSSr~~--~gT~~---P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~-------------- 540 (604)
T COG3107 481 IAMANGS-DSPPLYASSRSS--QGTNG---PDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND-------------- 540 (604)
T ss_pred HHhhcCC-CCcceeeecccc--ccCCC---ccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc--------------
Confidence 3322211 111122222211 11111 456667888754432 2 24556666666666431
Q ss_pred hhhhhhhHHHHHHHHHHHHhhcCCCcccccCCCcccccCCccCCcccccCChHHHHHHHH---hccccccceeEEEccCC
Q 002301 318 YGFYAYDTVWLLARAINSFFKQGGNLSFSKDSRLSDIQGHLRLDSLRIFNGGNLLRDSIL---QANMTGTAGPARFNSHG 394 (940)
Q Consensus 318 ~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~g~~l~~~l~---~~~f~g~tG~v~Fd~~G 394 (940)
|..+.++|.+++.-. -..=...|+ ..+.+|+||.++.|+++
T Consensus 541 -----~sl~RLyAmGvDAwr-------------------------------Lan~f~elrqV~G~~i~G~TG~Lsad~~c 584 (604)
T COG3107 541 -----YSLARLYAMGVDAWR-------------------------------LANHFSELRQVPGYQIDGLTGTLSADPDC 584 (604)
T ss_pred -----hHHHHHHHhcchHHH-------------------------------HHHHhHHhhcCCCcccccccceeecCCCc
Confidence 335555555555410 000011122 23578999999999988
Q ss_pred CCCCCceEEEEeeccceEEE
Q 002301 395 DLINPAYEIINVIGTGYRRI 414 (940)
Q Consensus 395 ~~~~~~~~I~~~~~~~~~~V 414 (940)
. +.....-.+++.+..++|
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 444444444444444443
No 118
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.55 E-value=2.2e-05 Score=81.06 Aligned_cols=204 Identities=15% Similarity=0.160 Sum_probs=144.4
Q ss_pred CCCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCC-EEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCC
Q 002301 27 GRPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGT-KLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQD 105 (940)
Q Consensus 27 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~-~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 105 (940)
...+.++||+....+...-...+.+++-|+++. |+ .+++.+...++|+..+...+++|..++.++|++-.+
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~t 97 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIAT 97 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCC
Confidence 345577899888887554556778888888875 34 788888999999999999999999998888887554
Q ss_pred chhHHHHHHhhccCCccEEeeecCCCCCCC----CCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC-Ccch
Q 002301 106 AVTSHVVSHVANELQVPLLSFSATDPTLSS----LQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD-DHGR 178 (940)
Q Consensus 106 s~~a~~va~~~~~~~vP~Is~~at~~~ls~----~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~ 178 (940)
+..-..++..- ++|+|-.+.+||.-.. ..-|---=|.-+|..-...-.+++++. +-++++++|.-+ +...
T Consensus 98 p~Aq~~~s~~~---~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 98 PAAQALVSATK---TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred HHHHHHHHhcC---CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 44433343333 3999988887774222 112333345566666555566666664 889999999654 4788
Q ss_pred hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC---CcHHHHHHHHHHcCC
Q 002301 179 NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY---NRGPVVFHVAQYLGM 246 (940)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~---~~~~~~l~~a~~~g~ 246 (940)
..++.++..+++.|++|... ..+ +..|+....+.+. .++|+|++.++. .....++..|.+.+.
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 89999999999999998754 333 4456666666665 679999998775 344556777777664
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=98.42 E-value=5.2e-05 Score=81.18 Aligned_cols=199 Identities=10% Similarity=0.050 Sum_probs=126.8
Q ss_pred EEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEE-EcCCCchhHH
Q 002301 33 NIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAI-IGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~a~ 110 (940)
+||++.|- +..+-.....+++.+.++ .|+++.+...|+..++..-.+....++.++|.+| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999984 333333445666666666 2678877776777777766777778888888875 5665544333
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
.....+...++|+|.+....+ ....+ .+.+++...++.+++++... |.++++++.... .......+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 445667788999998754221 11112 24667777788888887665 899999997533 234455688999
Q ss_pred HHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec-CCcHHHHHHHHHHcCCC
Q 002301 187 TLAAK-RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH-YNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~-~~~~~~~l~~a~~~g~~ 247 (940)
.+++. |+.+...... .....+....++++....+++-.+.+. ...+..+++++++.|..
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASGIEVVASQPA--DWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCCcEEEEecCC--CccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 99998 8876543211 123344445566654444444334443 45566788888988874
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=98.31 E-value=5.7e-05 Score=80.31 Aligned_cols=200 Identities=12% Similarity=0.100 Sum_probs=126.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++....+...+++.+++.+||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA--------AGYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH--------CCCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 378888754 32333445556555544 1556554 455667776677777888889998885333322233
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc---CCcchhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD---DDHGRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~~l 188 (940)
..+.+...++|+|......+ ..++++ ..++...+..+++++...|.++++++..+ .+++....+.+.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 45667888999998754322 223433 46667788888998888899999999743 345677789999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHH-HhcC-CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeE
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVK-VALT-ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYV 252 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~-l~~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 252 (940)
++.|+.+......+ .+..+....+.+ ++.. .+++|+. ++...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 144 RAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHcCCCCCccccCC--CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 99987643322222 222333334444 3333 4566555 445557789999999998655433
No 121
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.25 E-value=0.00032 Score=75.92 Aligned_cols=199 Identities=13% Similarity=0.122 Sum_probs=120.1
Q ss_pred eEEEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcE-EEEcCCCchh
Q 002301 31 VVNIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTV-AIIGPQDAVT 108 (940)
Q Consensus 31 ~i~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~-aiiGp~~s~~ 108 (940)
.-.||+++|. +..+-.....+++.++++. |+++. +.++..++.........++.+++. +|++|..+..
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~~--~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~ 95 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNLV--VLDSQNNPAKELANVQDLTVRGTKILLINPTDSDA 95 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHH
Confidence 4579999985 3333345567777777762 55554 456666777766677777777887 4456655444
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCe-EEEEEEEcC--CcchhhHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWR-EVIAIYVDD--DHGRNGIAAL 184 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~-~v~ii~~d~--~~g~~~~~~l 184 (940)
.......+...++|+|.+..... ..+.+..+.+++..-+..+++++.. .+.+ +++++..+. .......+.|
T Consensus 96 ~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf 170 (295)
T PRK10653 96 VGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGF 170 (295)
T ss_pred HHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHH
Confidence 44445677778999998754221 1122344556666556878887654 4543 566555432 2345667899
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEe-cCCcHHHHHHHHHHcCC
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHT-HYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~-~~~~~~~~l~~a~~~g~ 246 (940)
.+.+++.|+.+.... ....+..+....+.++.+..++.-.+.| +...+..+++++++.|+
T Consensus 171 ~~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~ 231 (295)
T PRK10653 171 KQAVAAHKFNVLASQ--PADFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK 231 (295)
T ss_pred HHHHhhCCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC
Confidence 999999998764321 1112333344455565544444333333 34455568999999987
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=98.21 E-value=0.00024 Score=75.59 Aligned_cols=203 Identities=12% Similarity=0.100 Sum_probs=124.7
Q ss_pred EEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEE-EEcCCCchhHHH
Q 002301 34 IGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVA-IIGPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp~~s~~a~~ 111 (940)
||+++|. +..+......+++.+.++. |+.+. +.++..++....+...+++.+++.+ |++|..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v~--~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYELT--VLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc--------CceEE--ecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 7888875 3444455667777777762 45554 4566677777777777788888887 456655443333
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEc--CCcchhhHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVD--DDHGRNGIAALGDT 187 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~~ 187 (940)
....+...++|+|......+ ..+.+-.+..++...+..+++++... |-++++++..+ ..+.....+.+++.
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 44455678999998754332 11223345556666678888887766 78999999863 34566778899999
Q ss_pred HhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 188 LAAK-RCRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
+++. |+++....... .+..+....+.++.... +++| ++.+...+..+++++.+.|+ .+...++.
T Consensus 147 l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 147 VDKYPGLKVVASQPAD--FDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHhCCCcEEEecccCC--CCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 9884 77754321111 22233334444544333 4443 33444555578899999987 33344443
No 123
>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=98.16 E-value=0.00017 Score=76.70 Aligned_cols=200 Identities=14% Similarity=0.105 Sum_probs=127.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCchhH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~a 109 (940)
.||++.|.. ..+-.....+++.++++. |+.+.+ .|+..++.........+++++|.+|| ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLLV--ASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 388999853 333344556666666662 555544 67777888777777888888777655 43322
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc---CCcchhhHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD---DDHGRNGIAALGD 186 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~ 186 (940)
..+...+...++|+|......+ +...++ +..++...+..+++.+...|.+++++|... ..++......|.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 2334456778999998754322 122333 446777788888898877799999999743 2346677889999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeE
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYV 252 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 252 (940)
.+++.++.+.....+....+.++....+.++.+ ..+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 999988654322222211223333445555543 34676665 445567788899999998655433
No 124
>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=98.16 E-value=2.8e-05 Score=83.82 Aligned_cols=116 Identities=21% Similarity=0.274 Sum_probs=75.6
Q ss_pred CCCCChhHhhhCCCCeEEE-eCchHHH-----HHHhhhCCCcc---CcccCC-CHHHHHHHhhcCCCCCceEEEEechhh
Q 002301 682 SPIKGIDSLRSSNYPIGYQ-VNSFARN-----YLVDELNIDES---RLVPLN-SPEEYAKALKDGPHKGGVAAVVDDRAY 751 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~-~gs~~~~-----~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~g~~~a~~~~~~~ 751 (940)
.+|++++||. |+++++. .++.... .+.+..+.... +.+.+. +..+.+.+|.. |++|+++.+...
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 4689999996 8889986 3443221 22222232211 223444 67889999999 899999998887
Q ss_pred HHHHHhcC-----CcEEEeCCccccCcceeecCCCC-c-chHHHHHHHHhcccccchHH
Q 002301 752 AELFLSTR-----CEFSIVGQVFTKNGWGFAFPRDS-P-LAVDISTAILKLSENGDLQR 803 (940)
Q Consensus 752 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~~~~~il~l~e~G~~~~ 803 (940)
+..+.++. .++.+....-.....+++++++- + +.+.++++|.++.+++..+.
T Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~ 257 (288)
T TIGR03431 199 LDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACF 257 (288)
T ss_pred HHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHH
Confidence 77666532 13444432111223578889984 3 99999999999999966544
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=98.12 E-value=0.00036 Score=74.54 Aligned_cols=200 Identities=15% Similarity=0.097 Sum_probs=121.3
Q ss_pred EEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHH
Q 002301 34 IGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSH 110 (940)
Q Consensus 34 IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~ 110 (940)
||+++|.. ..+......+++.+.++. |+.+ .+.++..++....+....++.+++.+||- |..+....
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVEV--IVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYI 71 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhc--------CCEE--EEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccH
Confidence 78888863 445556677888777772 4554 44677778877777777788889998754 44443333
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEe-cCChHHHHHHHHHHHHHc--CCeEEEEEEEcCCc--chhhHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRT-TQSDQYQMAAIAEIVDHY--GWREVIAIYVDDDH--GRNGIAALG 185 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~-~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~ 185 (940)
.....+...++|+|.+....+ +...++.+.. .+++...+...++.+... |-++|+++..+.++ +....+.++
T Consensus 72 ~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~ 148 (275)
T cd06317 72 PGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFE 148 (275)
T ss_pred HHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHH
Confidence 444556788999997654321 2233444333 345555666677765444 77899999764433 445568899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHH-hc--CCCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKV-AL--TESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l-~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
+.+++.|..+.............+....+.++ .. .+++.|+. ++...+..+++++++.|+.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 149 DELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 99988864332222221111222322333443 22 24566664 4445577899999999975
No 126
>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=98.09 E-value=0.00064 Score=72.76 Aligned_cols=199 Identities=10% Similarity=0.092 Sum_probs=120.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEE-EcCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAI-IGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~a~ 110 (940)
+||++.|.. ..+-.....+++.+.++. |+++. +.++..++....+...+++.+++.+| ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL--------GYDAV--ELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc--------CCeEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 478888753 222223344555554441 45553 45777788777777778888888877 5666554444
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc------CCeEEEEEEEc--CCcchhhHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY------GWREVIAIYVD--DDHGRNGIA 182 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~------~w~~v~ii~~d--~~~g~~~~~ 182 (940)
...+.+...++|+|.+....+ + ..++..+.+++..-+..+++++... |-++++++... ...+....+
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 555677788999998643221 1 1223345556665566677665443 66899999743 345667788
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEE-EEecCCcHHHHHHHHHHcCCC
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIV-VHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv-~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.|++.+++.|+.+.... ...+.+..+....++++....++... ++.....+..+++++++.|+.
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 99999999987654221 11112333334455555444444333 333445566799999999975
No 127
>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=98.06 E-value=0.00094 Score=71.22 Aligned_cols=200 Identities=13% Similarity=0.102 Sum_probs=127.4
Q ss_pred EEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhH
Q 002301 33 NIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a 109 (940)
|||++.|.. ..+-.....+++.+.++. |+.+.+...+. .++.........++.+++.+||. |......
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 588888864 334445667777777772 56665544333 37777777777788888988876 3333322
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCeEEEEEEEc--CCcchhhHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWREVIAIYVD--DDHGRNGIAALGD 186 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (940)
......+...++|+|.+....+... ..+.+..+..++...+..+++++.. .|-++++++..+ ...+....+.+++
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 3334556678999998754322211 1244566778888899999999888 899999999753 3345677889999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.+++.++.+... ....+..+....++++.+. ++++|+. .+...+..+++++++.|+.
T Consensus 150 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 150 GLGGAGITEEVI---ETGADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHhcCceeeEe---ecCCCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC
Confidence 998887654321 1112233344445554323 3455443 3345677888899999975
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=98.02 E-value=0.00099 Score=71.05 Aligned_cols=209 Identities=15% Similarity=0.117 Sum_probs=126.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||+++|-. ..+-.....+++.+.++. .|+.+. +.++..++..-.+....+++.+|.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL-------GGVELQ--FEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc-------CCcEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589998753 323334445555555551 244544 457777887777777788888899875 565544444
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
.+...+...++|+|......+.. .+.+..+..++...+..+++.+... +-+++++|.... .......+.|++
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 45556788899999875432211 1234456777777788888876554 457999997543 334556788999
Q ss_pred HHhcCc-eeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 187 TLAAKR-CRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
.+++.| +.+... .....+.......+.++... ++++| ++.+...+..+++++++.|....+...++.+
T Consensus 148 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 998887 444321 11112222233444444322 35654 3444456678999999999863344444433
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=98.01 E-value=0.00078 Score=71.89 Aligned_cols=199 Identities=13% Similarity=0.010 Sum_probs=121.7
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcC-CCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGP-QDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~s~~a~ 110 (940)
+||++.|.. ..+-.....+++.+.++. |+++.+ .++..++....+....++.+++.+||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDLRV--YDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 488888853 333345566776666663 555544 5677788777777777888899988773 3333333
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH--cCCeEEEEEEEc-CCcchhhHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH--YGWREVIAIYVD-DDHGRNGIAALGDT 187 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~--~~w~~v~ii~~d-~~~g~~~~~~l~~~ 187 (940)
.+...+...++|+|.+....+. +.+..+.+++...++.+++++.. .|.++++++... ........+.+.+.
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 4445567889999987543221 22334666777778888887655 588999999753 22334456678888
Q ss_pred HhcCc-eeEEEeecCCCCCChhHHHHHHHHHhcCCCeE---EEEEecCCcHHHHHHHHHHcCCC
Q 002301 188 LAAKR-CRISFKAPLSVEATEDEITDLLVKVALTESRI---IVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 188 l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---iv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
+++.+ +.+..........+.++....++++....+++ .|++.+...+..++.++++.|..
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ 208 (273)
T cd06305 145 LKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRT 208 (273)
T ss_pred HHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCC
Confidence 88777 55443221111122233444555554334433 23333445677788888999875
No 130
>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=97.98 E-value=0.0019 Score=68.93 Aligned_cols=209 Identities=10% Similarity=-0.006 Sum_probs=121.5
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCch-hHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAV-TSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~-~a~ 110 (940)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++....+....++..++.+||--.... ...
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998753 22222334455544444 26777666544456777666667777888888887533322 223
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCCc--chhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDDH--GRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 186 (940)
.....+...++|+|......+ + ..+ +-.+..++...+..+++++... |.++++++....++ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 333455678999998743211 1 011 2224455556677788877665 89999999754333 3446788999
Q ss_pred HHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEE-EecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 187 TLAAK-RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVV-HTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
++++. |+.+... .....+..+-...+.++....+++-.+ +.+...+..+++++++.|+. .+...++.+
T Consensus 148 a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEec--ccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99888 8765431 111112223334555544333333333 34456677899999999985 444445443
No 131
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.94 E-value=0.0048 Score=68.25 Aligned_cols=200 Identities=10% Similarity=-0.007 Sum_probs=117.2
Q ss_pred CceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCc
Q 002301 29 PSVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDA 106 (940)
Q Consensus 29 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s 106 (940)
...-+||++.|.. ..+-.....+++-+.++. |+++.+...+...+...-.+....++++++.+|| .|...
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 3578999999874 222234456666666652 5665554332233444444556667788888776 45443
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc-----CCeEEEEEEEcC--Ccchh
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY-----GWREVIAIYVDD--DHGRN 179 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~-----~w~~v~ii~~d~--~~g~~ 179 (940)
....... .+...++|+|.+..... ++. ....+..++...+...++++... |-++++++..+. .....
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 12335667777778888876554 478999997543 23345
Q ss_pred hHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 180 GIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
..+.|++.+++.|+++.... .. ....+.-...++++.+ .++++|+ +....+..+++++++.|+
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~ 254 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YG-DNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL 254 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cC-CCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC
Confidence 57889999988888765421 11 1222233334444432 2467775 344567778888888887
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=97.94 E-value=0.00084 Score=71.50 Aligned_cols=207 Identities=15% Similarity=0.121 Sum_probs=124.4
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHH-hcCcEEEEcCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLM-EGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li-~~~v~aiiGp~~s~~a~~ 111 (940)
||+++|.. ..+......+++.++++ .|+.+.+...|... ......+.+++ ..++.+||..........
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCccH
Confidence 78898864 44556677888888775 26777766555332 22344455544 568998887544322334
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCc--chhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDH--GRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l~ 189 (940)
..+.+...++|+|.+....+. ..+++ +..+....+..+++.+...|.++++++..+..+ .....+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 72 LLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 446677789999987654332 22232 335666667888888877899999999865543 3344678899998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCC-eEEEecC
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTG-YVWIATS 257 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~-~~wi~~~ 257 (940)
+.|+.+.............+-...+.++.+ .++++|+ +++...+..+++++++.|...++ ...++.+
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 146 EAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 888765210011111122222234444432 3466666 34456677899999999976443 3334433
No 133
>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=97.93 E-value=0.001 Score=70.37 Aligned_cols=202 Identities=12% Similarity=0.108 Sum_probs=136.1
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
||++.|.. ..+......+++.|.++. |..+.+. .|...++..-.+...+++.+++.+|| .|..+.....
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 68888876 335566789999999986 4666665 78889998888899999999999776 6777666666
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc-CC-eEEEEEEEcCCc--chhhHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY-GW-REVIAIYVDDDH--GRNGIAALGDT 187 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~-~w-~~v~ii~~d~~~--g~~~~~~l~~~ 187 (940)
..+-+...+||+|.+... .....+....+.++....+..+++++... +- .+++++....++ .....+.+.+.
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 667788889999987554 11122455667778888899999986543 32 788877644433 33567888888
Q ss_pred Hhc-CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 188 LAA-KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
+++ .++++..... ....+.+.....+.++...++-..|+.++...+..+.+++.+.|+.+.
T Consensus 148 l~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYE-YTDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEE-ECTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeee-ccCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 888 4666665322 212345555555555444444222344555566678889999898443
No 134
>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=97.93 E-value=0.0018 Score=69.15 Aligned_cols=208 Identities=10% Similarity=0.035 Sum_probs=124.6
Q ss_pred EEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||++.|. +..+-.....+++.+.++ .|+++.+ .++..+...-.+....++.+++.+|| .|.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK--------RGFDLKF--ADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh--------cCCEEEE--eCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 38888884 333323344555555544 2556555 45555666666677778888888775 454443323
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCC--cchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDD--HGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (940)
.....+...++|+|.+....+.. ...+++.++.+++...+..+++.+... |-++++++..+.+ ......+.|++
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 34455678899999876532211 112456778888888888888887666 8899999975432 23455788899
Q ss_pred HHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcC---CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 187 TLAAK-RCRISFKAPLSVEATEDEITDLLVKVALT---ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+++. ++++... .....+..+....++++... ++++|+ +.+...+..+++++.+.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~aI~-~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGDFTRAKGKEVMEALLKAHGDDIDAVY-AHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeec--cCCcccHHHHHHHHHHHHHhCCCCccEEE-ECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 99876 4554321 11112223333445554433 345443 3334455578899999998755544443
No 135
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.83 E-value=0.0069 Score=66.42 Aligned_cols=204 Identities=13% Similarity=0.120 Sum_probs=130.3
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEE-EcCCCchh
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAI-IGPQDAVT 108 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~ 108 (940)
..+||++.+.. ..+-.....+++.+.++. |....+...|...++..-+....+++.+++.+| |.|.++..
T Consensus 33 ~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~ 104 (322)
T COG1879 33 GKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDA 104 (322)
T ss_pred CceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 48899988875 333344455555555553 335667777888898888889999999999876 57888888
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH-HHcC-CeEEEEEEEc--CCcchhhHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV-DHYG-WREVIAIYVD--DDHGRNGIAAL 184 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l-~~~~-w~~v~ii~~d--~~~g~~~~~~l 184 (940)
......-+...+||+|.+....+.- .+....+..+....+...++++ ++++ .-+++++... ..........+
T Consensus 105 ~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 105 LTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred hHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 8888899999999999976543322 1222333345555566666665 3343 2446666643 33455678899
Q ss_pred HHHHhcCce--eEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHHHHHcCCCC
Q 002301 185 GDTLAAKRC--RISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHVAQYLGMLG 248 (940)
Q Consensus 185 ~~~l~~~g~--~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~ 248 (940)
++.+.+.+. .+... .....+.+.-......+-...+++-.+++... .+.-..+++++.|...
T Consensus 181 ~~~l~~~~~~~~v~~~--~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 181 RDALKEHPPDIEVVDV--QTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHhCCCcEEEeec--cCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 999998874 44332 22223334444555555556778777766544 4445556666777654
No 136
>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=97.76 E-value=0.002 Score=68.48 Aligned_cols=201 Identities=11% Similarity=0.029 Sum_probs=120.1
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++.+.++. |+++. +.++..++..-......++++++.+||...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTVF--LANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378888753 333345567777776653 45554 3455556665556667777788998877544333333
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (940)
....+...++|+|.+....+ +...+ .+.++....+..+++.+...|-++|+++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 44567788999998754322 11222 24566667778888888777999999887533 345567889999998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCC
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTG 250 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 250 (940)
+.|..+.....+....+.+.....++++-.. ++++|+. .+...+..+++++++.|+..++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~p~ 206 (268)
T cd06289 145 EAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTPGR 206 (268)
T ss_pred HcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCc
Confidence 8874322111111111222233444444333 3555443 3344466789999999986543
No 137
>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=97.74 E-value=0.0031 Score=66.93 Aligned_cols=198 Identities=10% Similarity=-0.017 Sum_probs=118.0
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.. ..+-.....+++-|.++ .|+++. +.|+..++.........++.++|.+||......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~--~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE--------AGYGVL--LGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888764 22333455666666665 255553 557777776655566667777899887633222222 2
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc--CCcchhhHHHHHHHHhc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD--DDHGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~ 190 (940)
.... ..++|+|......+ . +.+..+..++...+..+++++...|.++++++..+ +..+....+.|.+.+++
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 34999997643211 1 22334566667778888888878899999999764 34566778899999998
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCC
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTG 250 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 250 (940)
.|+.+..........+.++....++++... .+++|+.. +...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~ 204 (267)
T cd06284 144 AGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPE 204 (267)
T ss_pred cCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCcc
Confidence 885432111111111223333444444322 45665554 444567888999999876443
No 138
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.74 E-value=0.0024 Score=67.79 Aligned_cols=207 Identities=13% Similarity=0.060 Sum_probs=123.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++-+.++. |+.+.+.. +..++..-.+....++++++.+||-..+.. ...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHH
Confidence 378888763 223234455665555542 56665553 444555555556667777888777321111 123
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC---CcchhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD---DHGRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l 188 (940)
+...+...++|+|.+....+ ....+ .+.+++...+..+++++...|-++++++..+. ..+....+.|++.+
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 44456667999998755322 11223 24566777778888888778999999997543 35677788999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCC-CeEEEEEecCCcHHHHHHHHHHcCCCCCC-eEEEecC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTE-SRIIVVHTHYNRGPVVFHVAQYLGMLGTG-YVWIATS 257 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~-~~wi~~~ 257 (940)
++.|+.+..........+.......++++.+.. +++|+. ++...+..+++++++.|+..++ ..+++.+
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 988865422111111112223334455554443 666665 4445577899999999987554 3334433
No 139
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.73 E-value=0.011 Score=65.00 Aligned_cols=207 Identities=11% Similarity=0.038 Sum_probs=111.7
Q ss_pred CceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCc
Q 002301 29 PSVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDA 106 (940)
Q Consensus 29 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 106 (940)
.++..||++.|-. ..+-.....+++-+.++. + +..+ .+.++..+..........++.++|.+||= |..+
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g----~~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~ 92 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---P----DVQL--LMNDSQNDQSKQNDQIDVLLAKGVKALAINLVDP 92 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhc---C----CeEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEeccCH
Confidence 4578899998743 323334445555555552 1 2333 34556556655555566677778887763 3333
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHc------------CCeEEEEEEEc
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHY------------GWREVIAIYVD 173 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~------------~w~~v~ii~~d 173 (940)
.........+...++|+|.+....+ ... ...+-...+..++..-+..+++++..+ |-.++++|...
T Consensus 93 ~~~~~~l~~l~~~giPvV~vd~~~~-~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 93 AAAPTVIEKARGQDVPVVFFNKEPS-RKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHHHCCCcEEEEcCCcc-ccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 3233333456678999999865321 111 111222335566666666666654332 33344555433
Q ss_pred C--CcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC----CCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 174 D--DHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT----ESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 174 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
. .......+.+++.+++.|+.+..........+.++-...++++.+. ++++|+ +++...+..+++++++.|+
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 2344567889999998887644321111111222333444454332 345444 4445667789999999987
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=97.68 E-value=0.0081 Score=65.20 Aligned_cols=208 Identities=9% Similarity=0.054 Sum_probs=115.8
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||++.|.. ..+-.....+++-+.++. |..+.+.+.+...++..-.+....++.+++.+|| .|..+....
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 589998853 222234456666666664 1234455556777777666667778888888765 455444334
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCe-----------EEEEEEEcCC--
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWR-----------EVIAIYVDDD-- 175 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~-----------~v~ii~~d~~-- 175 (940)
.+...+...++|+|.+....+...-...+-+..+.+++...+..+++++... +-+ .++++..+..
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 4445567789999987543221100111223446667766677777776543 221 2344554322
Q ss_pred cchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh-cC--CCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 176 HGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA-LT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 176 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
......+.+++.+++.|..+..........+.+.....++++. .. ++++|+. .+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcC
Confidence 2344577889999888865432212221122233333445543 22 2455443 344555678888888887654
No 141
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.65 E-value=0.032 Score=60.82 Aligned_cols=203 Identities=12% Similarity=0.002 Sum_probs=118.6
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhH-
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTS- 109 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a- 109 (940)
+||++.|.. ..+-.....+++-+.++. |+++.+...+...+...-.+....++.+++.+||- |..+...
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 799999864 333334455665555542 56777654455556655566666777888887763 3333322
Q ss_pred HHHHHhhccCCccEEeeecCCCC--CCCCCCCceEEecCChHHHHHHHHHHHHH-cCC--eEEEEEEEcC--CcchhhHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPT--LSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGW--REVIAIYVDD--DHGRNGIA 182 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~--ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w--~~v~ii~~d~--~~g~~~~~ 182 (940)
..+. .+...++|+|.+....+. +....-+...-+..++...+..+++++.. .|- ++++++..+. .......+
T Consensus 98 ~~l~-~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~ 176 (311)
T PRK09701 98 MPVA-RAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRN 176 (311)
T ss_pred HHHH-HHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHH
Confidence 3333 345689999988643321 11101112234667777788888887644 454 7998886543 33456678
Q ss_pred HHHHHHhcCc-eeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 183 ALGDTLAAKR-CRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 183 ~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.|++.+++.| +++.... .......+-...++++.+. ++++ |++.+...+..++.++++.|..
T Consensus 177 Gf~~al~~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 177 GATEAFKKASQIKLVASQ--PADWDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHHhCCCcEEEEec--CCCCCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC
Confidence 8999998887 7654321 1112222333444554332 3554 3455556777889999998874
No 142
>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=97.62 E-value=0.0049 Score=65.46 Aligned_cols=202 Identities=15% Similarity=0.076 Sum_probs=118.2
Q ss_pred EEEEeecC-----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCch
Q 002301 34 IGALLSFS-----TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDAV 107 (940)
Q Consensus 34 IG~l~~~~-----~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (940)
||+++|.. ..+-.....+++.++++ .|+.+.+...+.. ....+.+.+++.+ ++.+||...+..
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 78888862 23333445566555554 2567766654433 2233456666654 788887643322
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (940)
....+ ..+...++|+|.+....+ +..+++ +.+++...+..+++++...|-++++++..... .+....+.|+
T Consensus 71 ~~~~~-~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDPRV-ALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CChHH-HHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 22223 445678999998754322 223344 34666777788888887789999999975432 3456678899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.+++.|..+.....+....+.......++++.+. .+++|+.. +...+..+++++++.|+..++.+-+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~i 213 (268)
T cd06271 144 RALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSV 213 (268)
T ss_pred HHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeE
Confidence 99998886532111111112223333445554322 35665554 3456667899999999876654433
No 143
>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=97.62 E-value=0.011 Score=63.36 Aligned_cols=211 Identities=9% Similarity=0.018 Sum_probs=115.7
Q ss_pred EEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC--CCHHHHHHHHHHHHhcCcEEEEcCCCch-
Q 002301 33 NIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCN--HSGFLALAEALHLMEGQTVAIIGPQDAV- 107 (940)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~--~~~~~a~~~a~~li~~~v~aiiGp~~s~- 107 (940)
|||+++|.. ..+-.....+++.++++ .|+.+.+...++. .+...-......++.++|.+||=...+.
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 22212233344444333 2567766654433 2444445555667778888876432222
Q ss_pred hHHHHHHhhccCCccEEeeec-CCCCCCCCCCCceEEecCChHHHHHHHHHHHHH--cCCeEEEEEEEcC-CcchhhHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSA-TDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH--YGWREVIAIYVDD-DHGRNGIAA 183 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~a-t~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~ 183 (940)
....+.. +...++|.|.... ..+.......+....+.+++..-+..+++.+.. .|.+++++|.... .......+.
T Consensus 73 ~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~g 151 (280)
T cd06303 73 HRKLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDT 151 (280)
T ss_pred hHHHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHH
Confidence 2233333 4445777776533 222100000122344566777777888888766 7999999997532 334456788
Q ss_pred HHHHHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 184 LGDTLAAK-RCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 184 l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
|++.+++. |+.+... +....+..+....+.++.+. ++++|+ +++...+..+++++++.|+. .+...++.
T Consensus 152 f~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEec
Confidence 99999887 7664322 22112223333444454333 345544 44556677899999999984 34444443
No 144
>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=97.61 E-value=0.011 Score=63.04 Aligned_cols=206 Identities=8% Similarity=-0.009 Sum_probs=120.5
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||+++|.. ..+-.....+++.+.++. |..+.+.+.++..++..-......++++++.+|| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 488999864 333334566777666664 2334455556666766555555667777877664 444333223
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC-CcchhhHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD-DHGRNGIAALGDT 187 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~ 187 (940)
.....+...++|+|.+....+ + ....+..++...++.+++++... |.+++++|..+. .......+.+++.
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 333445667999999855332 1 11245677777788888887776 999999997543 2344557888999
Q ss_pred HhcC-ceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 188 LAAK-RCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
+++. +++..... .....+.+.-...++++-+ .++++|+. .+...+..+++++++.|+ .+..+++.+
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 9887 56432211 1111122222234444432 24566444 344566778899999887 344445443
No 145
>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=97.58 E-value=0.015 Score=61.97 Aligned_cols=207 Identities=11% Similarity=0.090 Sum_probs=119.6
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||++.|-- ..+-.....+++.+.++ . .|+++. +.++..++..-.+....++.+++.+|| .|.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~----~g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---Y----PDVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---c----CCcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 488888742 32223334455444443 1 255664 345556666666666667777877664 333332222
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCCc--chhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDDH--GRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 186 (940)
.....+...++|+|.+....+ +. .++..+..++...+...++++... |-++++++..+... .....+.+++
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 333445678999998754221 11 223346677777788888887665 89999999754332 3455788999
Q ss_pred HHhcC-ceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 187 TLAAK-RCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
.+++. |+++.... ......++....+.++-+ .++++| ++.+...+..+++++++.|+. .+...++.|
T Consensus 147 ~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPKIKIVAQQ--DGDWLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCCCEEEEec--CCCccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99988 87765321 111122222233444322 235654 334556677899999999986 444444443
No 146
>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=97.58 E-value=0.0073 Score=66.43 Aligned_cols=202 Identities=9% Similarity=0.031 Sum_probs=120.6
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCc
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDA 106 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s 106 (940)
..-.||+++|.. ..+-.....+++.+.++ .|+++.+. ++..++..-......+..+++.+|| ++..+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~ 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 356799999853 33323344555555444 25666554 3334444444445556677888776 33222
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--C-cchhhHHH
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--D-HGRNGIAA 183 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~-~g~~~~~~ 183 (940)
..+...+...++|+|......+ ...++ .+..++..-+..+++++...|.++++++..+. . .+....+.
T Consensus 128 ---~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 ---EKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred ---hHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 2334456667999998754322 12223 34566666677788888788999999997432 2 34677889
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCe
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGY 251 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 251 (940)
|.+.+++.|+.+..........+..+-...++++.+..+++|+. .+...+..+++++++.|+..|+-
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~d 265 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPED 265 (329)
T ss_pred HHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCc
Confidence 99999999876432111111112233344555655556777665 44456778999999999875543
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=97.57 E-value=0.013 Score=63.07 Aligned_cols=214 Identities=11% Similarity=0.052 Sum_probs=120.5
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~ 110 (940)
+||+++|.. ..+-.....+++.+.++. |+++. +.++. ++..-......++..++.+||= |..+....
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 488888853 333345566777777662 56654 44555 5555555666677778887764 33333344
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHH----HcCC--eEEEEEE-E--cCCcchhhH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVD----HYGW--REVIAIY-V--DDDHGRNGI 181 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~----~~~w--~~v~ii~-~--d~~~g~~~~ 181 (940)
.....+...++|+|.+....+.......+.+-.+..+....+..+++++. ..|+ +++++|. . +........
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 55566778999999875432211100112233355566666666666543 3577 7888875 2 223456778
Q ss_pred HHHHHHHhcCceeEEEeecCCCC-CChhHHHHHHHHHhcC--CCeE-EEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 182 AALGDTLAAKRCRISFKAPLSVE-ATEDEITDLLVKVALT--ESRI-IVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~--~~~v-iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
+.+++.+++.|+........+.. .+.+.-...++++... +++. .|++.+...+..++.++.+.|....+...++.+
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 89999999888653211111111 1122222344444333 3453 455555566888899999999874344444433
No 148
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.57 E-value=0.021 Score=60.82 Aligned_cols=202 Identities=9% Similarity=0.025 Sum_probs=116.2
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
||++.|-. ..+-.....+++.+.++..... .| +.+.+.+...++..-......++.+++.+|| .|........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PD--VEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CC--eEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 77787642 3333455667777776654332 23 4455566666665544455557777888665 3444333223
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC-CcchhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD-DHGRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~l 188 (940)
....+...+||+|.+....+ +.. .....+.+++...+..+++++... |-++|+++..+. .......+.|.+.+
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 33445678999998754221 111 111235666667777788877665 789999997533 23344578899999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
++.++++... .....+..+....+.++... ++++|+.. +...+..++.++++.|..
T Consensus 153 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCC
Confidence 9888766532 22112222333444443322 35554433 334566788888888864
No 149
>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=97.56 E-value=0.0061 Score=64.76 Aligned_cols=205 Identities=12% Similarity=0.036 Sum_probs=121.4
Q ss_pred EEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 33 NIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
.||+++|.. ..+-.....+++.+.++. |+.+.+ .++..+...-......+...++.+||-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH--------GYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 389999874 334445566777666652 556544 3444455444455556777788887764332211
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTL 188 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l 188 (940)
+.......++|+|......+. ..+ ..+.+++...+..+++++...|-++++++..+.. ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 112234568999987543321 122 3355777777888888887779999999975433 3455678899999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
++.|+.+..........+..+....++++.+. ++++|+. ++...+..+++++++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 98886432111111111222333445554433 3566644 4456677899999999987655555543
No 150
>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=97.53 E-value=0.0096 Score=63.16 Aligned_cols=201 Identities=12% Similarity=0.063 Sum_probs=118.1
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.. ...-.....+++.+.++. |+++.+ .++..++..-.+....++.+++.+||--...... ..
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~~ 70 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHTE-RT 70 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCCH-HH
Confidence 78888864 222234445666565552 556554 3344455444556666777788887642222222 23
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHhc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 190 (940)
...+...++|+|.+....+ . +....+..+....+..+++.+...|-+++++|..+. .......+.|++.+++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~ 144 (268)
T cd01575 71 RQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA 144 (268)
T ss_pred HHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHH
Confidence 3445667999998744221 1 112234566677788888888888999999998654 3445667889999998
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeE
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYV 252 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 252 (940)
.|.............+.......+.++.+. ++++|+. ++...+..+++++.+.|...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di 207 (268)
T cd01575 145 AGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDI 207 (268)
T ss_pred cCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcce
Confidence 886322211111112223334455554333 4566554 444556688999999997655444
No 151
>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=97.52 E-value=0.01 Score=63.03 Aligned_cols=205 Identities=9% Similarity=-0.024 Sum_probs=118.8
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.. ..+-.....+++.+.++. |+++.+ .++..++..-.+....+..+++.+||=.........+
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLIL--CNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPLL 71 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHHH
Confidence 78888864 334445566776666652 556543 4555566655566667777778766532222222222
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHhc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 190 (940)
..+....++|+|......+ +..+++ +..++...+..+++.+...|-++++++.... .......+.|.+.+++
T Consensus 72 ~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~ 145 (269)
T cd06275 72 AMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAE 145 (269)
T ss_pred HHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHH
Confidence 3333456999998754322 122232 4456666677788888778999999997432 3345567889999988
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.|+.+..........+.......++++.+. .++.|+. ++...+..+++++++.|...|+-+-+.
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 146 AGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred cCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 887653211111111223333455555433 3454433 344566678899999987655444443
No 152
>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=97.51 E-value=0.023 Score=60.23 Aligned_cols=194 Identities=13% Similarity=0.067 Sum_probs=114.9
Q ss_pred EEEEeecCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHHH
Q 002301 34 IGALLSFST-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~~ 111 (940)
||++.|... .+-.....+++.+.++ .|+.+. +.++..++....+....++++++.+||- |..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~--i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK--------QKVNLI--VSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh--------cCCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 788887642 1222334455544443 245554 4566667776677777788888888765 443332233
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC-CcchhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD-DHGRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~l 188 (940)
....+...++|+|.+....+ ..+.+..+.+++..-+..+++++... |-+++++++..+ .......+.|++++
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 33456678999998753211 11223346666667777788887664 788999997432 23445678899999
Q ss_pred hcC-ceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 189 AAK-RCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 189 ~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
++. |+.+... ......++....+.++... ++++|+ +++...+..+++++.+.|.
T Consensus 147 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAV---QPGITRAEALTAAQNILQANPDLDGIF-AFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEe---cCCCChHHHHHHHHHHHHhCCCCCEEE-EcCCcHHHHHHHHHHHCCC
Confidence 988 8876422 1111223333344444322 355433 3444566778889999887
No 153
>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=97.48 E-value=0.0098 Score=62.77 Aligned_cols=200 Identities=16% Similarity=0.086 Sum_probs=123.7
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.- ...-.....+++.+.++. |+++.+ .++..++..-.....++..+++.++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888753 333345566777666652 566654 345556766666777788888988886433322 234
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc-C--CcchhhHHHHHHHHh
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD-D--DHGRNGIAALGDTLA 189 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~~~l~ 189 (940)
...+...++|+|.+....+ .+..+..+....+..+++++...|-++++++... + ..+....+.|++.++
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 4556667999998754221 1223556777778888898888889999998643 2 233566788999998
Q ss_pred cCce-eEEEeecCCCCCChhHHHHHHHHHhcCC-CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 190 AKRC-RISFKAPLSVEATEDEITDLLVKVALTE-SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 190 ~~g~-~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
+.|. .+.. .....+.......+.++.+.. +++|+... ...+..+++.+++.|+..|+-+.+.+
T Consensus 143 ~~~~~~~~~---~~~~~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPNI---VETDFSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHHe---eeccCchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 8886 2111 110112223334444544333 56555444 45677889999999987666665553
No 154
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.48 E-value=0.038 Score=60.65 Aligned_cols=202 Identities=8% Similarity=0.001 Sum_probs=119.4
Q ss_pred CceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCc
Q 002301 29 PSVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDA 106 (940)
Q Consensus 29 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 106 (940)
++..+||++.|-. ..+-.....+++-+.++. |+.+.+ .++..++..-.+....+++++|.+||= |...
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~i--~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~ 92 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVFV--QSANGNEETQMSQIENMINRGVDVLVIIPYNG 92 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 3589999999853 444445556666666552 456554 456667766566666777778887753 3322
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC---CcchhhHHH
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD---DHGRNGIAA 183 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~ 183 (940)
.........+...++|+|.+....+ .. +....+.+++...++.+++++...|-++++++.... .......+.
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 2222334556778999998744221 11 122356778888889999998777888877655322 233556778
Q ss_pred HHHHHhcC---c-eeEEEeecCCCCCChhHHHHHHHHHh-c--CCCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 184 LGDTLAAK---R-CRISFKAPLSVEATEDEITDLLVKVA-L--TESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 184 l~~~l~~~---g-~~v~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
+++.+++. | +.+....... .....+-...++++- . ..+++ |++.+...+..++++++++|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 88888753 4 4432211111 112223334444432 2 23565 3444556677899999999875
No 155
>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=97.48 E-value=0.014 Score=61.77 Aligned_cols=203 Identities=11% Similarity=0.056 Sum_probs=119.8
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.. ..+-.....+++.+.++. |+.+. +.++..++..-......++..++.+||=.........+
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~l 71 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKELY 71 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHHH
Confidence 78888764 333345566777666652 45554 34455566555556666777788877632222222233
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--c-chhhHHHHHHHHh
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--H-GRNGIAALGDTLA 189 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~-g~~~~~~l~~~l~ 189 (940)
..+...++|+|.+....+ ....+ .+..++...+..+++.+...|-++++++..... . .......+.+.++
T Consensus 72 -~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~ 144 (267)
T cd06283 72 -QRLAKNGKPVVLVDRKIP---ELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEALA 144 (267)
T ss_pred -HHHhcCCCCEEEEcCCCC---CCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 445678999998754322 11222 344566677888888888889999999975432 1 2356788899998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.|+............+..+....++++.... +++|+.. +...+..+++++++.|+..++-+-+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 145 EHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 88743221111111122344455666654443 5555444 3455667899999999865544433
No 156
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.47 E-value=0.053 Score=59.53 Aligned_cols=200 Identities=10% Similarity=0.015 Sum_probs=109.8
Q ss_pred EEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhH
Q 002301 32 VNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTS 109 (940)
Q Consensus 32 i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a 109 (940)
.+||++.... ..+-.....+++.+.++. |+++.+. ..+..+...-.+....++.++|.+|+= |..+...
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 3788887544 333334556666666653 5666542 234445555556777888888887764 5554444
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc---CCeEEEEEEEcCC--cchhhHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY---GWREVIAIYVDDD--HGRNGIAAL 184 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~---~w~~v~ii~~d~~--~g~~~~~~l 184 (940)
..+..-+...+||+|++.+..+. +. ..++=-..++...+..+++++.+. +-.+++++..... ......+.+
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~ 170 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEA 170 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHH
Confidence 55556678889999997653221 11 111111123345666666665442 4578888874322 223344667
Q ss_pred HHHHhcC--ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcH-HHHHHHHHHcCC
Q 002301 185 GDTLAAK--RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRG-PVVFHVAQYLGM 246 (940)
Q Consensus 185 ~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~-~~~l~~a~~~g~ 246 (940)
.+.+.+. +++++... .. ..+...-....+++-...+++-.+++....+ ....+++++.|+
T Consensus 171 ~~~l~~~~p~~~vv~~~-~~-~~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 171 KAKIAKEHPGWEIVTTQ-FG-YNDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHhhCCCCEEEeec-CC-CCcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCC
Confidence 7766443 56665332 11 1222333334555444445544444444444 357888888875
No 157
>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=97.47 E-value=0.01 Score=63.28 Aligned_cols=201 Identities=11% Similarity=0.032 Sum_probs=113.6
Q ss_pred EEEEEEeecC--------CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHH-hcCcEEEEc
Q 002301 32 VNIGALLSFS--------TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLM-EGQTVAIIG 102 (940)
Q Consensus 32 i~IG~l~~~~--------~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li-~~~v~aiiG 102 (940)
=.||++.|.. ..+-.....+++.++++ .|+++.+...+.. . ...+.+.+ .+++.+||-
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~v~~~~~~----~-~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE--------RGYDLLLSFVSSP----D-RDWLARYLASGRADGVIL 70 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHH--------cCCEEEEEeCCch----h-HHHHHHHHHhCCCCEEEE
Confidence 4689999852 22222334445444443 2577766544332 1 23344444 457887752
Q ss_pred -CCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchh
Q 002301 103 -PQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRN 179 (940)
Q Consensus 103 -p~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~ 179 (940)
|.... ... ...+...++|+|.+....+. . .+..+.+++...+..+++++...|.++++++..+.. .+..
T Consensus 71 ~~~~~~-~~~-~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~ 142 (275)
T cd06295 71 IGQHDQ-DPL-PERLAETGLPFVVWGRPLPG---Q---PYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEE 142 (275)
T ss_pred eCCCCC-hHH-HHHHHhCCCCEEEECCccCC---C---CCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHH
Confidence 22222 222 34566789999987543221 2 233456777778888888888889999999975432 3445
Q ss_pred hHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 180 GIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
..+.|.+.+++.|+.+..........+..+....+.++... ++++|+... ...+..+++++++.|...++-+.+
T Consensus 143 r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l~~~g~~ip~~i~i 218 (275)
T cd06295 143 RLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRALREAGRRVPEDVAV 218 (275)
T ss_pred HHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHHHHhCCCCccceEE
Confidence 67889999988875432211111112223333444444333 356555543 345667888899999865444433
No 158
>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=97.43 E-value=0.033 Score=60.10 Aligned_cols=212 Identities=14% Similarity=0.059 Sum_probs=116.2
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
|||++.|--. ......+..++++.-+. .|+++.+. .++..++..-.+....++.+++.+|| .|........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~----~g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAK----LGIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHH----cCCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 5888887431 12223333333333222 25666533 35566776666666677788888664 4433322233
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCC--cchhhHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDD--HGRNGIAALGDT 187 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~ 187 (940)
+...+...++|+|.+....+.... .-+++.-+..++..-+..+++++... |-++++++..+.+ ......+.|.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 345566789999987654332211 11233335566666678888887665 7899999975443 344557888888
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
+++.+..+........ .+.......++++... ++++|+. .+...+..++++++++|+ .+...++.+
T Consensus 152 l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 152 IKKNYPDITIVAEKGI-DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHhCCCcEEEeecCC-cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 8766532221111110 1112223344444322 3455443 445668889999999986 333444433
No 159
>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=97.41 E-value=0.032 Score=59.28 Aligned_cols=196 Identities=11% Similarity=-0.024 Sum_probs=116.3
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~ 110 (940)
+||+++|.. ..+-.....+++.++++. |+++.+...+...+...-.+....+++.++.+||= |.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH
Confidence 589999853 333334556777777653 45655532222224444445666777778887763 33322222
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCC-----eEEEEEEEcCC--cchhhHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGW-----REVIAIYVDDD--HGRNGIAA 183 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w-----~~v~ii~~d~~--~g~~~~~~ 183 (940)
.+ ..+...++|+|.+....+ +. .....+..++...++.+++++...+- ++++++....+ ......+.
T Consensus 73 ~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 73 EI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred HH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 23 445678999998743211 11 11224566777777888888766665 89999975433 35566788
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
+++.+++.++++... .....+.+.-...++++.+ .++++|+. ....+..+++.+++.|+
T Consensus 147 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 147 FRDALAGSAIEISAI--KYGDTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHhhcCcEEeee--ccCCccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 999999999876542 1111222333344455432 34677653 36667788889998886
No 160
>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=97.39 E-value=0.027 Score=61.21 Aligned_cols=210 Identities=17% Similarity=0.125 Sum_probs=123.0
Q ss_pred EEEEeecC-C-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc--CcEEEE-cCCCchh
Q 002301 34 IGALLSFS-T-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG--QTVAII-GPQDAVT 108 (940)
Q Consensus 34 IG~l~~~~-~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~--~v~aii-Gp~~s~~ 108 (940)
||+++|.. . .+-.....+++.+.++. |+.+.+. ++..+...-......++++ +|.+|| .|... .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKS-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-c
Confidence 78888764 2 22234455666665542 5666554 4555666666677788888 898876 33332 2
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCC-----C--CCC-CceEEecCChHHHHHHHHHHHHHcCCeE--------EEEEEE
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLS-----S--LQF-PYFVRTTQSDQYQMAAIAEIVDHYGWRE--------VIAIYV 172 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls-----~--~~~-p~~~r~~psd~~~~~ai~~~l~~~~w~~--------v~ii~~ 172 (940)
...+...+...++|+|.+....+... . ..+ +++-...+++..-++.+++.+...|-++ ++++..
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~ 150 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISG 150 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeC
Confidence 33334566778999998865432211 0 111 2344566777788888888887776664 776764
Q ss_pred cC--CcchhhHHHHHHHHhcCc-eeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 173 DD--DHGRNGIAALGDTLAAKR-CRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 173 d~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
+. .......+.|++.+++.| ..+.. .+.......+-...+.++... ++++|+ +.+...+..+++++++.|+.
T Consensus 151 ~~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ 227 (305)
T cd06324 151 DPTTPAAILREAGLRRALAEHPDVRLRQ--VVYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRK 227 (305)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCceEee--eecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCC
Confidence 32 234456788999999887 43322 122122333334445554332 456544 34455667899999999987
Q ss_pred CCC-eEEEecC
Q 002301 248 GTG-YVWIATS 257 (940)
Q Consensus 248 ~~~-~~wi~~~ 257 (940)
.++ ...++.+
T Consensus 228 vp~di~vig~D 238 (305)
T cd06324 228 PGRDVLFGGVN 238 (305)
T ss_pred cCCCEEEEecC
Confidence 543 3444433
No 161
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.37 E-value=0.016 Score=64.13 Aligned_cols=208 Identities=10% Similarity=0.021 Sum_probs=119.0
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
.-.||+++|.. ..+-.....+++.+.++. |+++.+ .++..++..-.+....++.+++.+||--......
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 128 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLIL--CNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPE 128 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCH
Confidence 45799999864 233334455665555542 455443 3445566555555666777788877631111122
Q ss_pred HHHHHhhcc-CCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc--CCcchhhHHHHHH
Q 002301 110 HVVSHVANE-LQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD--DDHGRNGIAALGD 186 (940)
Q Consensus 110 ~~va~~~~~-~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (940)
..+ ..+.. .++|+|.+....+ +..++. ...++....+..+++.+-..|-+++++|..+ ........+.|.+
T Consensus 129 ~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 PLL-AMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHH-HHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 233 34445 6999998754322 111122 2344545556777788777799999999643 3345566788999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+++.|+.+.............+....+.++... ++++|+. ++...+..++.++.+.|...|+-+.+.
T Consensus 203 ~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999987654211111111223334455554333 4566554 444556788999999997655544443
No 162
>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=97.37 E-value=0.038 Score=59.44 Aligned_cols=199 Identities=9% Similarity=0.074 Sum_probs=115.1
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||+++|.. ..+-.....+++-+.++. |+.+.+ .++..++..-.+....++.+++.+|| .|..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~--------g~~~~~--~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL--------GAEVIV--QNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 388999853 333334455666665552 455444 55666776666667778888888776 343333333
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc------CCeEEEEEEEcCC--cchhhHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY------GWREVIAIYVDDD--HGRNGIA 182 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~------~w~~v~ii~~d~~--~g~~~~~ 182 (940)
.....+...++|+|.+....+. ...+++ +..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~~~--v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVDYY--VSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcceE--EEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4444566789999987654321 112222 3455556667777765554 8899999975433 3334577
Q ss_pred HHHHHHhcCc----eeEEEeecCCCCCChhHHHHHHHHHhcC---CCeEEEEEecCCcHHHHHHHHHHcCCCC
Q 002301 183 ALGDTLAAKR----CRISFKAPLSVEATEDEITDLLVKVALT---ESRIIVVHTHYNRGPVVFHVAQYLGMLG 248 (940)
Q Consensus 183 ~l~~~l~~~g----~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~ 248 (940)
.|++.+++.+ +.+.... .....+..+-...+.++.+. ++++|+.. +...+..++.++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~~-~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDWDPETAQKRMENALTANYNKVDGVLAA-NDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCCCHHHHHHHHHHHHHhCCCCccEEEeC-CcHHHHHHHHHHHHcCCCC
Confidence 8899998887 5443221 11112222223344444332 34554443 3456667889999988754
No 163
>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=97.35 E-value=0.025 Score=60.07 Aligned_cols=205 Identities=12% Similarity=0.023 Sum_probs=119.5
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||++.|.. ..+-.....+++-+.++ .|+++.+.. +..++..-.+....+...++.+||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~gy~v~~~~--~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADA--------RGLSLVLCA--TRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHH--------CCCEEEEEe--CCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 378888753 33333455566655554 256775543 3345554445555666668888875332222223
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (940)
+..+. ..++|+|.+....+. ...+ .+.+++...+..+++.+...|-+++++|..+.. ......+.|++.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33433 347999987643321 1122 355788888888999888889999999975433 23456788999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.|..+..........+.++....+.++.+ ..+++|+.. +...+..+++++.+.|...|+-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 888643211111111222333344454432 346655544 44566688999999998666544443
No 164
>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=97.35 E-value=0.019 Score=60.80 Aligned_cols=191 Identities=15% Similarity=0.073 Sum_probs=111.6
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||++.|.. ..+-.....+++.+.++ .|+++.+...+. +. ...+....++.++|.+||--.+.... ..
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 78888864 33333444555444443 267776665443 22 22344556677788877743222222 23
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHhc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~ 190 (940)
...+...++|+|.+....+ + +.+..+.+++...+..+++++...|-++++++..+.. ......+.|.+.+++
T Consensus 70 ~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 70 AEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 4556678999998754322 1 1233466778888888889888889999999985433 455667889999988
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcC
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLG 245 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g 245 (940)
.|..+... ... ..+..+....+.++.+. ++++|+.. +...+..+++.+++.+
T Consensus 144 ~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 144 AGVPVVVE-EAG-DYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred cCCChhhh-ccC-CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 88764321 111 11223333444444333 35555443 3344566777777653
No 165
>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=97.34 E-value=0.038 Score=58.45 Aligned_cols=200 Identities=13% Similarity=0.060 Sum_probs=116.6
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~~ 111 (940)
||+++|-. ...-.....+++.+.++. |+.+.+...+. .++..-.+....++++++.+||- +...... .
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~ 71 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-A 71 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-H
Confidence 78898854 223334455565555552 56766653322 23344444455566778888863 3322222 3
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCc--chhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDH--GRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l~ 189 (940)
+.. ....++|+|.+....+ . .+-.+..++..-+..+++.+...|-++|+++..+... .....+.|.+.++
T Consensus 72 ~~~-~~~~~ipvv~~~~~~~----~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 72 ALA-AAPADVPVVFVDGSPS----P---RVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred HHH-HHhcCCCEEEEeccCC----C---CCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 333 3467899999865321 1 1233556777778888888888899999999754332 3345678888988
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC-CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT-ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.|+.+... +....+.++....+.++.+. ++++|+. ++...+..+++++++.|...++-+-+
T Consensus 144 ~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~~i~i 206 (264)
T cd01574 144 AAGIAPPPV--LEGDWSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPDDVSV 206 (264)
T ss_pred HCCCCccee--eecCCCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCccceEE
Confidence 888765432 11112223333444454433 3555443 44556778899999999755543333
No 166
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.34 E-value=0.016 Score=61.59 Aligned_cols=200 Identities=12% Similarity=-0.002 Sum_probs=118.6
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++.++++. |+.+. +.++..++.........+..++|.+||--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSLL--IANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 378999853 333345566777666662 55644 4456666666556666677778887774222222234
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (940)
+...+...++|+|......+ ...+ .+..++..-+..+++.+...|-++++++.... ..+....+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~----~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG----GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC----CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998765432 1223 23455555556677777677999999997532 234456788999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGY 251 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 251 (940)
++|+.+.....+.... .......+.++.. ..+++|+ +.+...+..+++++.+.|+..|+-
T Consensus 144 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~d 205 (269)
T cd06281 144 AAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRD 205 (269)
T ss_pred HcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 8887542111111111 2222334444432 3467765 334456667899999999865543
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=97.33 E-value=0.029 Score=59.51 Aligned_cols=201 Identities=13% Similarity=0.049 Sum_probs=118.9
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++.+.++. |+++.+.. +..++..-......++.+++.+||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIITA--GHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEEe--CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 378898863 333345556666666662 56666543 3345544445555677778887774322222222
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (940)
+ ..+...++|+|.+....+ +..+++ +..++...+..+++++...|-+++++|..+.. ......+.|.+.++
T Consensus 71 ~-~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 L-IELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred H-HHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3 445677999998754322 112232 45777777888889888889999999975432 23455778899998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGY 251 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 251 (940)
+.|+.+..........+..+....++++.+. ++++|+. ++...+..+++++++.|+..|+-
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~d 206 (268)
T cd06270 144 EAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFC-ANDEMAAGAISALREHGISVPQD 206 (268)
T ss_pred HcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCc
Confidence 8886542111111112333444455555433 3565543 33455667899999999865543
No 168
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.33 E-value=0.028 Score=62.14 Aligned_cols=202 Identities=9% Similarity=0.019 Sum_probs=118.2
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAV 107 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (940)
..-.||+++|.. ..+-.....+++.+.++ . |+.+-+ .++..++..-......++.+++.+||= |.. .
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~-~ 131 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAA-G 131 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-C
Confidence 346799999853 33333445566655554 2 455543 344445554445555677778887763 322 2
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (940)
........+...++|+|...... ....+++ +..++...+..+++++...|.+++++|..+.. ......+.|.
T Consensus 132 ~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~ 205 (342)
T PRK10014 132 SSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYC 205 (342)
T ss_pred CcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHH
Confidence 22344456677899999874321 1122232 45666777788888888889999999975433 2345678899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
+.+++.|+.+.....+............+.++.+. .+++|+ +.+...+..+++++.+.|+..+
T Consensus 206 ~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 206 ATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 99999887543211111111222233344444333 355544 4455667788899999997654
No 169
>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=97.32 E-value=0.018 Score=61.04 Aligned_cols=205 Identities=11% Similarity=0.051 Sum_probs=117.9
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.. ..+-.....+++.+.++. |+.+.+. ++..++..-......++..++.+||=-........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTIIG--NSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 388998853 333345566777776653 4555544 44445554445556677778887764222222333
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (940)
+ ..+...++|+|......+ +..++++ ..++..-+..+++.+...|-++|++|.... .......+.|.+.++
T Consensus 71 ~-~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 L-EDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred H-HHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 3 455667999998755322 2233433 334444455666777777999999996533 234455688999998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.|+.+.............+....+.++.+.++++|+. ++...+..+++++++.|+..++-+.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 144 SLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 88854321111111112223334455544444776544 445567788999999998655444333
No 170
>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=97.30 E-value=0.023 Score=60.14 Aligned_cols=197 Identities=14% Similarity=0.085 Sum_probs=117.5
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||+++|.. ..+-.....++..+.++. |+++. +.++..++..-......+...++.+|| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 378999863 333334455666655552 56654 344555665545555566777888665 44332 223
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTL 188 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l 188 (940)
.+ ..+...++|+|.+....+ .+++ +..++..-+..+++++...|-++++++..+.. ......+.|.+.+
T Consensus 70 ~~-~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 FL-DELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred HH-HHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 33 445668999998754321 2232 44566667777888888889999999975432 4556688899999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCC
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTG 250 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 250 (940)
++.|+.+.....+....+.......++++... .++.|+ +.+...+..+++++++.|+..++
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 141 AEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTAIF-AVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 98887643211111112223333445554333 355544 34455667899999999986443
No 171
>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=97.30 E-value=0.017 Score=61.74 Aligned_cols=204 Identities=11% Similarity=0.018 Sum_probs=129.5
Q ss_pred EEEEEeecCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFST-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||+++|.-. .+-.....+++-+.++ .|+.+-+ .++..++..- +....|.+++|.+||=.........
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 5999999863 3223445666666555 3677655 4455555555 5566677778888774322222355
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeE-EEEEEEcCCc--chhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWRE-VIAIYVDDDH--GRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~-v~ii~~d~~~--g~~~~~~l~~~l 188 (940)
+..+.+. ++|+|......... ...|++ ..++..-+..+++.+...|-++ ++++..+.+. .....+.+.+++
T Consensus 72 l~~~~~~-~iPvV~~~~~~~~~--~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 72 LRRLIKS-GIPVVLIDRYIDNP--EGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHHT-TSEEEEESS-SCTT--CTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHc-CCCEEEEEeccCCc--ccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 6666666 99999764432111 133433 3456666677888899999999 9999976554 455677899999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCe--EEEEEecCCcHHHHHHHHHHcC-CCCCCeEEE
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALTESR--IIVVHTHYNRGPVVFHVAQYLG-MLGTGYVWI 254 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~--viv~~~~~~~~~~~l~~a~~~g-~~~~~~~wi 254 (940)
++.|+++..........+.++-...++++-+.+|+ .| ++++...+..+++++.+.| ...++-+-+
T Consensus 146 ~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai-~~~nd~~A~ga~~~l~~~gr~~ip~di~~ 213 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAI-FCANDMMAIGAIRALRERGRLKIPEDIVS 213 (279)
T ss_dssp HHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEE-EESSHHHHHHHHHHHHHTT-TCTTTEEEE
T ss_pred HHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEE-EEeCHHHHHHHHHHHHHcCCcccChhhee
Confidence 99998555443333223444445666666666566 44 4444567778899999999 776665533
No 172
>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=97.29 E-value=0.06 Score=57.32 Aligned_cols=184 Identities=9% Similarity=0.003 Sum_probs=112.2
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHHHHHHhhccCCccEEe
Q 002301 47 VAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSHVVSHVANELQVPLLS 125 (940)
Q Consensus 47 ~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~~va~~~~~~~vP~Is 125 (940)
....+++.+.++ .|+++.+ .++..++..-.+....++.+++.+||= |..+.........+...++|+|.
T Consensus 16 ~~~~gi~~~~~~--------~G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~ 85 (272)
T cd06313 16 QGKQAADEAGKL--------LGVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVID 85 (272)
T ss_pred HHHHHHHHHHHH--------cCCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEE
Confidence 334555555544 2556555 456667777777778888888887653 44333333333445667999998
Q ss_pred eecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCC--cchhhHHHHHHHHhcCc-eeEEEeec
Q 002301 126 FSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDD--HGRNGIAALGDTLAAKR-CRISFKAP 200 (940)
Q Consensus 126 ~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~ 200 (940)
+....+ ....+.+..+.+++...+..+++++... |.++++++..+.. ......+.|.+.+++.+ .++...
T Consensus 86 ~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-- 160 (272)
T cd06313 86 MGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE-- 160 (272)
T ss_pred eCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--
Confidence 755332 1111223446677777888888887666 8899999975433 23456888999998875 555431
Q ss_pred CCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 201 LSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 201 ~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
.....+.......++++... ++++| ++.+...+..+++++++.|+
T Consensus 161 ~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 161 QPANWDVSKAARIWETWLTKYPQLDGA-FCHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred cCCCCCHHHHHHHHHHHHHhCCCCCEE-EECCCcHHHHHHHHHHHcCC
Confidence 12112323334455554333 34543 34445667788899999987
No 173
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.28 E-value=0.043 Score=60.29 Aligned_cols=205 Identities=12% Similarity=0.037 Sum_probs=119.0
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAV 107 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (940)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+.. +..++..-.+....+..+++.+||= |....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~~--~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIAC--SDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEEe--CCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 356799999853 22223344555555544 256765543 3334544444555566778888764 32222
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 185 (940)
....+ ..+...++|+|......+ ...+++ +..++...+..+++.+-..|-++++++.... ..+....+.|.
T Consensus 130 ~~~~~-~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPFY-QRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHHH-HHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 22233 334567999998754221 222333 3466667777788888888999999997543 23556678999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.+++.|+.+.... ....+.++-...++++.+. .+++|+.. +...+..+++++.+.|+..|+-+=|
T Consensus 203 ~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~disv 270 (328)
T PRK11303 203 QALKDDPREVHYLY--ANSFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDLAI 270 (328)
T ss_pred HHHHHcCCCceEEE--eCCCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEE
Confidence 99999987543221 1111222333344554333 46665554 3455677889999999866544433
No 174
>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=97.26 E-value=0.039 Score=58.41 Aligned_cols=204 Identities=13% Similarity=0.078 Sum_probs=116.1
Q ss_pred EEEEeecCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 34 IGALLSFST-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 34 IG~l~~~~~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
||+++|... .+-.....+++-+.++ .|+.+.+. ++..++..-.+....++.+++.+||=.........+
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARE--------RGYQLLIA--CSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 788888632 1112223344433332 25665543 444566555556666778888877633222222223
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHhc
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~ 190 (940)
. .+...++|+|.+....+ +..+++ +..++..-+..+++.+...|-++++++..+.. ......+.+++.+++
T Consensus 72 ~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 72 Y-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred H-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 3 45668899998744322 122233 44556666677888877789999999975432 345567889999998
Q ss_pred CceeEEEeecCCCCCChhHHHHHHHHHhcC---CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 191 KRCRISFKAPLSVEATEDEITDLLVKVALT---ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.|+.+..........+...-...++++-.. .+++|+.. +...+..+++++++.|+..++-+-+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 145 AGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred cCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 875432111111111223333444454322 35665544 44567788999999998765545443
No 175
>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=97.25 E-value=0.027 Score=59.82 Aligned_cols=200 Identities=14% Similarity=0.082 Sum_probs=112.3
Q ss_pred EEEEeec------CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc-CcEEEEcCCCc
Q 002301 34 IGALLSF------STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG-QTVAIIGPQDA 106 (940)
Q Consensus 34 IG~l~~~------~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 106 (940)
||+++|. +..+-.....+++.+.++. |+++.+. +... +..-.....+++.. ++.+||-....
T Consensus 2 igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~~ 70 (270)
T cd06294 2 IGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYSR 70 (270)
T ss_pred EEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecCc
Confidence 7888884 2233334455666666552 5676553 3332 33334555566544 57776542221
Q ss_pred hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCc--chhhHHHH
Q 002301 107 VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDH--GRNGIAAL 184 (940)
Q Consensus 107 ~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l 184 (940)
... .....+...++|+|.+....+ + .+.+..+..++...++.+++.+...|-++++++..+..+ .....+.|
T Consensus 71 ~~~-~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 71 EDD-PIIDYLKEEKFPFVVIGKPED---D--KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred CCc-HHHHHHHhcCCCEEEECCCCC---C--CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 122 333445678999998754321 1 012223445666667778888777799999999754332 34457889
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCe
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGY 251 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 251 (940)
.+.+++.|+.+..........+..+....+.++... ++++|+. .+...+..+++++++.|+..|+-
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~d 212 (270)
T cd06294 145 KQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPED 212 (270)
T ss_pred HHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcc
Confidence 999998875321111111112223334445554333 3555554 34457778899999999865543
No 176
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.25 E-value=0.05 Score=59.66 Aligned_cols=201 Identities=11% Similarity=0.032 Sum_probs=130.1
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT 108 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (940)
..-.||+++|.- ..+-.....|++.+.++ .|+.+-+.. +..++..-......+..++|.+||=-. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l~~--~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLLAN--TDDDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEEC--CCCCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 466799999943 22222344555555554 256655544 333666655555667777899887433 233
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc--CCcchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD--DDHGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (940)
.......+...++|+|......+ + +.+-.+..++..-+..+++++...|-+++++|... ...+....+.+.+
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 34445667777999998765444 2 22334557888888889999999999999999975 4556788999999
Q ss_pred HHhcCceeE--EEeecCCCCCChhHHHHHHHHHhcCC---CeEEEEEecCCcHHHHHHHHHHcCCCCCC
Q 002301 187 TLAAKRCRI--SFKAPLSVEATEDEITDLLVKVALTE---SRIIVVHTHYNRGPVVFHVAQYLGMLGTG 250 (940)
Q Consensus 187 ~l~~~g~~v--~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 250 (940)
++++.|+.. .....-. .+..+-...+.++.... ++.| ++++...+..+++++.+.|...|+
T Consensus 200 al~~~~~~~~~~~i~~~~--~~~~~g~~~~~~ll~~~~~~ptAi-f~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPINPEWIVEGD--FSEESGYEAAERLLARGEPRPTAI-FCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCCcceEEecC--CChHHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCC
Confidence 999999875 2221111 23334444445544322 5554 455567888899999999987664
No 177
>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=97.24 E-value=0.03 Score=59.47 Aligned_cols=205 Identities=11% Similarity=0.033 Sum_probs=119.8
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
||++.|.. ..+-.....+++.+.++ .|+++.+. ++..+...-.+....++++++.+|| .|.... ..
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~- 69 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVVLS--ESGRRTSPERQWVERLSARRTDGVILVTPELT-SA- 69 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEEEe--cCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-hH-
Confidence 78888763 44444556666666665 25666443 4444444434455667777888775 333322 22
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (940)
....+...++|+|.+...... ...+| ...+++...+..+++.+...|.++++++..+. .......+.|.+.++
T Consensus 70 ~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (270)
T cd06296 70 QRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALA 144 (270)
T ss_pred HHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHH
Confidence 245567789999987654211 11233 25567777788888888778999999997532 234566788999998
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCC-eEEEec
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTG-YVWIAT 256 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~-~~wi~~ 256 (940)
+.|+.+............++....+.++... ++++|+. .+...+..+++++.+.|...++ ...++.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~~i~v~~~ 213 (270)
T cd06296 145 EAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFA-GNDLMALGVYEAARERGLRIPEDLSVVGF 213 (270)
T ss_pred HcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEEE
Confidence 8876543211111112223333444444332 3455443 3445567889999999986444 334443
No 178
>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=97.23 E-value=0.087 Score=56.34 Aligned_cols=200 Identities=14% Similarity=0.075 Sum_probs=115.0
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||++.|.. ..+-.....+++.+.++. |+.+. +.++..++..-.+....++.+++.+|| .+..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v~--~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYELI--STDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 588888864 222233455666666542 45553 455656666656666677777887765 343333222
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCe--EEEEEEEc--CCcchhhHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWR--EVIAIYVD--DDHGRNGIAALG 185 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~--~v~ii~~d--~~~g~~~~~~l~ 185 (940)
.....+...++|+|.+....+. ..+.+..+..++...+..+++.+-. .|-+ +++++..+ ...+....+.|+
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 3334556789999987543211 0123345667777778888887654 6754 89888753 334567788899
Q ss_pred HHHhcCcee------EEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 186 DTLAAKRCR------ISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 186 ~~l~~~g~~------v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
+.+++.|+. +.............+....+.++... ++++|+. .+...+..+++++++.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC
Confidence 999888642 11111011111222323344443322 3454443 3345667889999999874
No 179
>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=97.22 E-value=0.041 Score=58.53 Aligned_cols=206 Identities=16% Similarity=0.083 Sum_probs=120.1
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCchh--
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDAVT-- 108 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~-- 108 (940)
||+++|-. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....++.+++.++| ++.....
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ--------YGYTVLL--CNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78898853 33333445566555555 2566644 44555665555666778888888766 3221211
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
.......+...++|+|.+....+. ...++ .+..++...+..+++.+...|-++++++.... .......+.|.+
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 112223456779999987653321 01223 35567777788888888888999999987543 234556788999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+++.|+............+.......+.++....+++|+.. +...+..+++++.+.|+..++-+-+.
T Consensus 147 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 147 ALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIVAA-SDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 998888542111111111122223344444443347765543 44556678899999998655544443
No 180
>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=97.19 E-value=0.12 Score=55.02 Aligned_cols=209 Identities=11% Similarity=0.053 Sum_probs=112.3
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
+||++.|.. ..+-.....+++.+.++..-. ...+..... ...++..-.+....+.. ++.+|| .|.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~~-~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHFV-ESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEEc-cCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 588888764 223334455666666653211 123333222 23445444444555556 788765 444433322
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc-CC--eEEEEEEEcCC--cchhhHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY-GW--REVIAIYVDDD--HGRNGIAALG 185 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~-~w--~~v~ii~~d~~--~g~~~~~~l~ 185 (940)
.....+.+.++|+|.+....+. ... +..+..++...+..+++++... |. ++++++..+.. ......+.|+
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3335556689999987543221 111 2234556566666667766554 54 69999876432 3345578899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEec
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIAT 256 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 256 (940)
+++++.+..+..........+..+....++++.+ .++++|+...+ .+..+++++++.|+. .+...++.
T Consensus 149 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d--~~~g~~~al~~~g~~-~di~Ivg~ 218 (275)
T cd06307 149 SVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGG--GNRGVIRALREAGRA-GKVVFVGH 218 (275)
T ss_pred HHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCC--ChHHHHHHHHHcCCC-CCcEEEEe
Confidence 9998877544332222211222333345555432 24666666553 346889999999974 34443443
No 181
>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=97.17 E-value=0.14 Score=54.35 Aligned_cols=196 Identities=15% Similarity=0.137 Sum_probs=109.3
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchh-HH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVT-SH 110 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~-a~ 110 (940)
+||++......+-.....+++.+.++ .|+.+.+.. ++..+...-.+....++.++|.++| .|..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE--------LGVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH--------cCCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47877755433333344555555554 256655542 2334555555556667777888776 4444332 23
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
.+..+ .. ++|+|......+. ... +.-+..++..-+..+++++... +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 9999987542211 111 2224556666677788877553 334566665432 234566788999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.+++.|+++.... .. ..+..+....++++-+. .++.|+. .+...+..++.++++.|..
T Consensus 145 ~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~ 204 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-EEDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL 204 (271)
T ss_pred HHhcCCcEEEEEe-cC-ccCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC
Confidence 9999998765421 11 12233334455555333 3455543 3345556678888888875
No 182
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.13 E-value=0.0029 Score=66.22 Aligned_cols=121 Identities=21% Similarity=0.274 Sum_probs=74.4
Q ss_pred CCCCChhHhhhCCCCeEEEeCch-----HHHHHH-hhhCCCc---cCcccCCCHHHHHHHhhcCCCCCceEEEEechhhH
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSF-----ARNYLV-DELNIDE---SRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYA 752 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~-----~~~~l~-~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 752 (940)
.+|++++||. |+++++...+. ...... ++.+... .+.+...+.++.+.+|.+ |.+|+.+......
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 5799999998 99999875432 222222 2333332 123345688889999999 8999988888777
Q ss_pred HHHHhcC----CcEEEeCCccccCcceeecCCCCc--chHHHHHHHHhcccccchHHHHHhh
Q 002301 753 ELFLSTR----CEFSIVGQVFTKNGWGFAFPRDSP--LAVDISTAILKLSENGDLQRIHDKW 808 (940)
Q Consensus 753 ~~~~~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~il~l~e~G~~~~i~~kw 808 (940)
+-+.... .+++++...-...++.++..++-| .++.+-.+++.+..+-.-.++.+.+
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 7666543 257776554333345677777766 8999999999999754444444443
No 183
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.13 E-value=0.056 Score=59.33 Aligned_cols=207 Identities=9% Similarity=0.012 Sum_probs=116.7
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAV 107 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (940)
..-.||+++|.. ..+-.....+++.+.++ .|+++.+ .++..++..-......+.+++|.+||= |....
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 346799999863 22323445566655554 2566654 344455555445555667777887662 32221
Q ss_pred hHHHHHHhhcc-CCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc--CCcchhhHHHH
Q 002301 108 TSHVVSHVANE-LQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD--DDHGRNGIAAL 184 (940)
Q Consensus 108 ~a~~va~~~~~-~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l 184 (940)
. ........ .++|+|.+..... ...++ .+..++..-+..+++.+...|-+++++|..+ ........+.|
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 4899998753211 11111 2344444557778888888899999999643 23445678899
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+++++.|+.+.....+.......+-...+.++.+. .++.|+. ++...+..+++++++.|+..|+-+-+.
T Consensus 197 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999987542211111111222223344444333 3555444 445566789999999998766544443
No 184
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.11 E-value=0.0026 Score=69.50 Aligned_cols=71 Identities=23% Similarity=0.301 Sum_probs=48.4
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHHh---hhCCCccCc-ccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHh
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLVD---ELNIDESRL-VPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLS 757 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~ 757 (940)
++|++++||. |++|++..|+....++.. +.+.....+ ..+.+..+...++.+ |++|+++...++......
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 4688999998 888999888766655433 222221111 123466788899999 899999887777665555
Q ss_pred c
Q 002301 758 T 758 (940)
Q Consensus 758 ~ 758 (940)
+
T Consensus 193 ~ 193 (314)
T PRK11553 193 Q 193 (314)
T ss_pred c
Confidence 4
No 185
>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=97.11 E-value=0.064 Score=56.88 Aligned_cols=195 Identities=12% Similarity=0.001 Sum_probs=106.2
Q ss_pred EEEEEeecC----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh
Q 002301 33 NIGALLSFS----TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~~----~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (940)
|||++.|.. ..+-.....+++.+.++ .|+.+.+.. +. ++..-.+....+.+++|.+||--.. ..
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~~--~~-~~~~~~~~i~~l~~~~vdgiI~~~~-~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYVE--SK-SDADYEPNLEQLADAGYDLIVGVGF-LL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEEe--cC-CHHHHHHHHHHHHhCCCCEEEEcCc-ch
Confidence 589999852 22223444555555555 256666543 22 3333334455577778988885222 22
Q ss_pred HHHHHHhhccC-CccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cCCeEEEEEEEcCCcch-hhHHHHH
Q 002301 109 SHVVSHVANEL-QVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YGWREVIAIYVDDDHGR-NGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~-~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~-~~~~~l~ 185 (940)
..........+ ++|+|......+.. +.+-....++..-+..++.++.. .|-+++++|..+..... ...+.|+
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 89999875422110 11223344444444444555554 38999999975432222 2236888
Q ss_pred HHHhcCc---eeEEEeecCCCCCC-hhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcC
Q 002301 186 DTLAAKR---CRISFKAPLSVEAT-EDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLG 245 (940)
Q Consensus 186 ~~l~~~g---~~v~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g 245 (940)
+.+++.| ..+..........+ ..+-...++++.+.++++|+. .+...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~-~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFA-AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEE-CCCCCchHHHHHHHhcC
Confidence 8888888 54332211111111 223334455554445776544 45567778999999988
No 186
>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=97.10 E-value=0.051 Score=57.81 Aligned_cols=205 Identities=13% Similarity=0.151 Sum_probs=119.9
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchh---
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVT--- 108 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~--- 108 (940)
||+++|.. ..+-.....+++.+.++ .|+++. +.++..++..-.+....++..+|.+|| -|..+..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSE--------KGYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHH--------cCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888753 32222344555444443 255664 455666777667777788888888886 3433211
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-CcchhhHHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD-DHGRNGIAALGDT 187 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 187 (940)
.......+...++|+|.+....+. .. +..+..++..-+..+++.+...|.++++++...+ ..+....+.+.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112223456779999987543221 11 2345667777788888888888999999887432 2345567888999
Q ss_pred HhcCceeEEEe--ecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 188 LAAKRCRISFK--APLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 188 l~~~g~~v~~~--~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+++.|..+... ..+............++++.+. ++++|+ +.+...+..+++++++.|+..++-+-|.
T Consensus 146 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~-~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIV-CYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 98888643211 0111111112333445554332 456543 3444566678999999998665544443
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=97.09 E-value=0.063 Score=58.92 Aligned_cols=203 Identities=10% Similarity=0.053 Sum_probs=117.3
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchh
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVT 108 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~ 108 (940)
.-.||+++|.. ..+-.....+++-+.++ .|+.+.+.. +..++..-......+..+++.+|| -|.....
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~~--~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~ 129 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIAC--SDDNPDQEKVVIENLLARQVDALIVASCMPPE 129 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEEe--CCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCC
Confidence 56899999853 33323344555555443 267765543 334555444455556677888765 3433212
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (940)
...+ ..+...++|+|......+ +..+++ +..++..-+..+++.+...|.++++++..... ......+.|++
T Consensus 130 ~~~~-~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~ 202 (327)
T TIGR02417 130 DAYY-QKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFRQ 202 (327)
T ss_pred hHHH-HHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHHH
Confidence 2233 345567999998754322 122232 44566666667778888889999999975432 34566788999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC---CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALT---ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
.+++.|+.+.... ......++-...+.++... .+++|+.. +...+..+++++++.| ..|+-+-+
T Consensus 203 al~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsv 269 (327)
T TIGR02417 203 ALKQATLEVEWVY--GGNYSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHL 269 (327)
T ss_pred HHHHcCCChHhEE--eCCCChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceE
Confidence 9999887532111 1111222233444554332 35665544 4456778999999999 66644333
No 188
>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=97.09 E-value=0.028 Score=60.56 Aligned_cols=184 Identities=11% Similarity=0.139 Sum_probs=110.8
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||++...+...-.....|++-++++. |+.. ..+++.+.+.++|+......+.++.+++++.|+--. +..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~g-t~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIG-TPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEES-HHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeC-cHHHHHH
Confidence 588888887544456677887777764 3323 568888999999999988888888777777776533 3344555
Q ss_pred HHhhccCCccEEeeecCCCCCCC----CCCC--ceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCCc-chhhHHH
Q 002301 113 SHVANELQVPLLSFSATDPTLSS----LQFP--YFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDDH-GRNGIAA 183 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~----~~~p--~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~~-g~~~~~~ 183 (940)
....... +|+|-.+.++|...+ ...| ++.-+. +........++++.+ +-++++++|.+++- +....+.
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 5444433 999987777775433 2233 454444 334455566666664 46999999976653 4567888
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
+++.+++.|+++... .++ +..++...+..+.. +.+++++..+
T Consensus 152 ~~~~a~~~g~~l~~~-~v~---~~~~~~~~~~~l~~-~~da~~~~~~ 193 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP---SSEDLEQALEALAE-KVDALYLLPD 193 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES---SGGGHHHHHHHHCT-T-SEEEE-S-
T ss_pred HHHHHHHcCCEEEEE-ecC---cHhHHHHHHHHhhc-cCCEEEEECC
Confidence 889999999987643 233 56778888888764 5788777654
No 189
>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=97.07 E-value=0.16 Score=54.97 Aligned_cols=199 Identities=11% Similarity=-0.015 Sum_probs=113.3
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~ 110 (940)
+||++.+.. ..+-.....+++.+.++ .|+++.+. .++..++....+....++.+++.+||= +..+....
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~--------~g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE--------LGVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH--------hCCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 478888743 32323445666666665 25665543 234456666666666777778887764 33333223
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc-CC-eEEEEEEEcCC--cchhhHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY-GW-REVIAIYVDDD--HGRNGIAALGD 186 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~-~w-~~v~ii~~d~~--~g~~~~~~l~~ 186 (940)
.....+...++|+|.+....+. .. ..+.....++...+..+++++... +- ++++++..+.. ......+.|++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~-~~---~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP-DN---RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC-Cc---ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 3334456789999987543211 00 113334567777778888887665 43 69999875433 33455788999
Q ss_pred HHhcCc---eeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 187 TLAAKR---CRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~g---~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.++++| +++.. ......+..+-...++++-.. +++.|+. .+...+..++++++++|+.
T Consensus 148 ~l~~~g~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 148 YQKEKYYPMLELVD--RQYGDDDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHhhcCCCCeEEeC--cccCCCCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC
Confidence 999887 33211 112112222323344443322 3444433 3456778899999999975
No 190
>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=97.06 E-value=0.057 Score=57.27 Aligned_cols=198 Identities=15% Similarity=0.075 Sum_probs=111.0
Q ss_pred EEEEEeec----CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh
Q 002301 33 NIGALLSF----STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT 108 (940)
Q Consensus 33 ~IG~l~~~----~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (940)
.||+++|. +..+-.....+++-+.++ .|+++.+...|. +...-......+.+.++.+||--.....
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~ 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKK--------YGYNLILKFVSD--EDEEEFELPSFLEDGKVDGIILLGGIST 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHH--------cCCEEEEEeCCC--ChHHHHHHHHHHHHCCCCEEEEeCCCCh
Confidence 37889886 222333444555555544 267777766553 2222222233455668888875222222
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGD 186 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (940)
.+...+...++|+|.+....+ +...++ +..++...+..+++++...|.++++++..+.. ......+.|.+
T Consensus 71 --~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 --EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred --HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 224456677999998754322 122233 44555666666777877789999999976543 23456778999
Q ss_pred HHhcCceeEEEeecCCC-CCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCCCCCC
Q 002301 187 TLAAKRCRISFKAPLSV-EATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGMLGTG 250 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~-~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 250 (940)
.+++.|+.+.....+.. ......+...++.+. ..+++|+. ++...+..+++++++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~~-~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 143 ALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFFC-SNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 99988876432111110 112223333333322 23665444 3445566788888888976443
No 191
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.06 E-value=0.062 Score=59.47 Aligned_cols=207 Identities=11% Similarity=0.078 Sum_probs=115.1
Q ss_pred ceEEEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh
Q 002301 30 SVVNIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT 108 (940)
Q Consensus 30 ~~i~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (940)
..-.||+++|. +..+-.....+++.+.++ .|+.+- +.++..++..-......++.++|.+||=-.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH--------TGNFLL--IGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH--------cCCEEE--EEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 35679999874 232323344555555544 145543 3445455554445555677778887763211111
Q ss_pred HHHHHHhhccCCcc-EEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHH
Q 002301 109 SHVVSHVANELQVP-LLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP-~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (940)
...+..+.+ ++| +|......+ +...++ +.+++..-+..+++.+...|.+++++|..+.. ......+.|+
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 223333333 677 776543221 112222 45566666777778888889999999975432 3456678999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.+++.|+.+.............+-...++++... .+++|+ +.+...+..++++++++|+..|+-+-|.
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 200 DALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 99999987542211111111222222344444333 356554 4455667789999999998766544443
No 192
>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=97.05 E-value=0.045 Score=57.82 Aligned_cols=198 Identities=12% Similarity=0.069 Sum_probs=112.3
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
.||++.|.. ..+-.....+++.+.++ .|+.+.+...+ +.. .....+..+++.+||-.........
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 378888864 22333344555555543 25666665443 222 2233455667887763222222222
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHHHHHh
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALGDTLA 189 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (940)
+ ..+...++|+|.+....+ ..++ .+..++...+..+++.+...|-++++++..... ........|++.++
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 3 445678999998754322 1223 255677777888888888889999999975433 33455778999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCCCCCeEE
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVW 253 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~w 253 (940)
+.|+.+..........+.......+.++.... +++ |++++...+..+++++++.|+..++-+-
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~ 203 (261)
T cd06272 139 ENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIE 203 (261)
T ss_pred HcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceE
Confidence 88864321111111112233334455554333 455 3344445677889999999986554333
No 193
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.05 E-value=0.071 Score=56.30 Aligned_cols=198 Identities=10% Similarity=-0.014 Sum_probs=106.1
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
|||+++|... ........+..++++.-+. .|+.+.+ .++. ++.........+...+|.+||=.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~----~gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKE----LGVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHh----cCceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998511 1122333444444443322 2566555 3343 44444455555666788877542222 22334
Q ss_pred HHhhccC-CccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHc-CCeEEEEEEEcC-CcchhhHHHHHHHHh
Q 002301 113 SHVANEL-QVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHY-GWREVIAIYVDD-DHGRNGIAALGDTLA 189 (940)
Q Consensus 113 a~~~~~~-~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (940)
....... ++|+|......+. +...+ ....++..-+..++.++... |-+++++|..+. .......+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555443 7898876543211 01112 23334444444455556555 899999997532 233445778999999
Q ss_pred cCceeEEEeecCCCCC-ChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcC
Q 002301 190 AKRCRISFKAPLSVEA-TEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLG 245 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~-~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g 245 (940)
+.|..+.......... +.++-...++++.+..+++| ++.+...+..++.+++++|
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 8886433211111111 12233345555544557765 5566667778999999888
No 194
>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=97.05 E-value=0.063 Score=56.81 Aligned_cols=199 Identities=11% Similarity=0.025 Sum_probs=111.8
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||+++|.. ..+-.....+++.+.++ .|+++.+ .++..++..-......+.++++.+|| -|.. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~-~~~~ 69 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG--------SGYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGD-LPEE 69 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCC-CChH
Confidence 378888753 22222334444444433 2566654 33445555444455567777888776 3332 1122
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc--CCcchhhHHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD--DDHGRNGIAALGDTL 188 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l 188 (940)
.+..+ . .++|+|.+....+ +...+ .+..++..-+..+++.+...|-++++++..+ ........+.|.+.+
T Consensus 70 ~~~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 141 (265)
T cd06290 70 EILAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKAL 141 (265)
T ss_pred HHHHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHH
Confidence 22223 3 4899998765322 11223 2446677777888888777799999999754 233445678889999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCe
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGY 251 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 251 (940)
++.|+.+.....+....+.......++++.+. .+++|+ +++...+..+++.+++.|+..|+.
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 142 EEAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred HHcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 88876543111111111222223445554432 356554 445566778899999999865543
No 195
>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=97.05 E-value=0.048 Score=57.55 Aligned_cols=199 Identities=13% Similarity=0.017 Sum_probs=118.2
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchhHH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~a~ 110 (940)
.||++.|.. ..+-.....+++.+.++. |+.+.+. ++..++..-.+....+..++|.+||= |.... ..
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~ 69 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVLL--QTNYDKEKELEYLELLKTKQVDGLILCSREND-WE 69 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEEE--eCCCChHHHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378888863 334445567777776652 5666554 44556655555566677778887763 33222 23
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGDTL 188 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 188 (940)
.+..+.+ .+ |+|......+ ...+ .+.++....+..+++.+...|-+++++|..+. .......+.|.+.+
T Consensus 70 ~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l 140 (260)
T cd06286 70 VIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDAL 140 (260)
T ss_pred HHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHH
Confidence 3444433 34 8887643211 1223 35567777788888888888999999997542 34456678999999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeE
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYV 252 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 252 (940)
++.|+.+.....+....+..+-...+.++.+. .+++|+ +++...+..++++++++|+..++-+
T Consensus 141 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~di 205 (260)
T cd06286 141 EEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPEDL 205 (260)
T ss_pred HHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCcce
Confidence 99886543211111111223334455555433 456544 4444567789999999998654433
No 196
>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=97.02 E-value=0.081 Score=55.91 Aligned_cols=200 Identities=12% Similarity=0.100 Sum_probs=117.5
Q ss_pred EEEEEeecCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSFST-NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||+++|... .+-.....+++.++++ .|+++.+. ++..++..-......+..+++.+|| .|......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~--~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVILC--NTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 3788988752 2333455677666665 26676544 4444555444445556666777665 33322222
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-CcchhhHHHHHHHHh
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD-DHGRNGIAALGDTLA 189 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (940)
... ....++|+|.+....+ +..+++ +..++..-+..+++.+...|-++++++..+. .......+.|++.++
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 3456899998754432 223344 2356666777788888888999999987542 234456788999999
Q ss_pred cCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 190 AKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.|+..... ... .+..+....+.++... .+++| ++.+...+..+++.+++.|+..++-+.+.
T Consensus 142 ~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 142 RHGLAPDAR-FVA--PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HcCCCCChh-hcc--cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888754321 112 1223323344444322 45554 44555667789999999998765544443
No 197
>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=97.01 E-value=0.075 Score=56.22 Aligned_cols=196 Identities=15% Similarity=0.103 Sum_probs=112.2
Q ss_pred EEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHH
Q 002301 33 NIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSH 110 (940)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~ 110 (940)
.||++.|. +..+-.....+++.+.++ .|+++.+ .++..++..-.+....+..+++.+|| .|....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 37888874 333333445555555544 2566544 44445555544555566666787776 333322
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC---CcchhhHHHHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD---DHGRNGIAALGDT 187 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~ 187 (940)
. ..+...++|+|.+....+ ..+++ +.+++...+..+++++...|.++++++.... .......+.|.+.
T Consensus 68 -~-~~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 -I-EEYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -H-HHHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1 234567999998765432 12232 4555666678888888778999999997433 3345667889999
Q ss_pred HhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeE
Q 002301 188 LAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYV 252 (940)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 252 (940)
+++.|+.+.... .....+..+....+.++... .+++|+.. +...+..+++++.+.|...++-+
T Consensus 139 l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~vp~di 203 (265)
T cd06291 139 LKENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIRVPEDL 203 (265)
T ss_pred HHHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCCCCcce
Confidence 998887542211 11111112223344444333 34554443 34467788899999997654433
No 198
>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=96.97 E-value=0.15 Score=54.98 Aligned_cols=195 Identities=12% Similarity=0.012 Sum_probs=109.1
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchh-H
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVT-S 109 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~-a 109 (940)
+||+++|.. ..+-.....+++.+.++ .|+.+.+...+...+...-.+....+++++|.+|| .|..... .
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 589998853 22222333455544443 25676664444334555555666677788888776 3432222 2
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH-cC----CeEEEEEEEcC--CcchhhHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH-YG----WREVIAIYVDD--DHGRNGIA 182 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~-~~----w~~v~ii~~d~--~~g~~~~~ 182 (940)
..+..+ . .++|+|.+..... +. ..+..+..++..-+..+++++.. ++ -++++++.... .......+
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 4899997632211 11 12234556666667777777655 21 34699997543 34556788
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
.+++.+++.|+++... .....+..+-...++++-. .++++| +++...+..+++++++.|.
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 9999999988876532 2211222333344455432 235654 4455557778888888775
No 199
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.91 E-value=0.081 Score=56.20 Aligned_cols=200 Identities=13% Similarity=0.022 Sum_probs=114.8
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHH-HHhcCcEEEEcCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALH-LMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~s~~a~~ 111 (940)
||++.|.. ..+-.....+++.+.++ .|+.+.+...+. +. ...+...+ +...+|.+||=-..... ..
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~~-~~~~~~~~~l~~~~vdgvi~~~~~~~-~~ 69 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--LA-RLKRYLESTTLAYLTDGLLLASYDLT-ER 69 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--cH-HHHHHHHHHHHhcCCCEEEEecCccC-hH
Confidence 78888864 33333445566665555 267777654442 22 22233333 55557776653222212 23
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--C------cchhhHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--D------HGRNGIAA 183 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~------~g~~~~~~ 183 (940)
....+...++|+|.+....+ ..++ +.+++..-+..+++.+... .++++++..+. . ......+.
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~g 140 (269)
T cd06297 70 LAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAG 140 (269)
T ss_pred HHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHH
Confidence 34456678999998754321 1233 3467777777777877666 79999886432 2 45566889
Q ss_pred HHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 184 LGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
|++.+++.|+++.....+....+..+....+.++.+. ++++|+.. +...+..+++++++.|...|+-+.+.
T Consensus 141 f~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 141 FQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999999887643211111112233344555665433 34555444 44567789999999998766555444
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=96.91 E-value=0.084 Score=56.55 Aligned_cols=194 Identities=13% Similarity=0.067 Sum_probs=113.0
Q ss_pred EEEEeecC------CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCch
Q 002301 34 IGALLSFS------TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAV 107 (940)
Q Consensus 34 IG~l~~~~------~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 107 (940)
||++.|.. ..+-.....+++-+.++ .|+.+.+...+. . .+....+...++.+||--....
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 78898862 22223344555555554 256776654332 1 1233456666888887533322
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-------------
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD------------- 174 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~------------- 174 (940)
.. .....+...++|+|.+....+ +.+-.+..++...+..+++++...|-++++++..+.
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 234455778999998754321 112335567777888888988888999999997532
Q ss_pred ------CcchhhHHHHHHHHhcCceeEEEeecCC-CCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcC
Q 002301 175 ------DHGRNGIAALGDTLAAKRCRISFKAPLS-VEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLG 245 (940)
Q Consensus 175 ------~~g~~~~~~l~~~l~~~g~~v~~~~~~~-~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g 245 (940)
.......+.+.+.+++.|++......+. ...+..+....++++... ++++|+ +++...+..+++++++.|
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 2234567889999988885432111111 111223444555555433 345543 444456678899999999
Q ss_pred CCCCC
Q 002301 246 MLGTG 250 (940)
Q Consensus 246 ~~~~~ 250 (940)
+..++
T Consensus 219 ~~ip~ 223 (283)
T cd06279 219 LRVPE 223 (283)
T ss_pred CCCCC
Confidence 86554
No 201
>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=96.89 E-value=0.052 Score=57.53 Aligned_cols=201 Identities=15% Similarity=0.095 Sum_probs=115.3
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||++.|.+..+......+++-+.++. .|+.+.+...| . .+....|...+|.+||-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~-------~g~~~~~~~~~----~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH-------GPWSIYLEPRG----L---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc-------CCeEEEEeccc----c---hhhhhhccccccceEEEECCCH---HH
Confidence 489999965444444455555555553 25565443211 1 3333445556888887532222 22
Q ss_pred HHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC-cchhhHHHHHHHHhcC
Q 002301 113 SHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD-HGRNGIAALGDTLAAK 191 (940)
Q Consensus 113 a~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~ 191 (940)
...+...++|+|.+....+. +.+-.+..++..-+..+++.+...|-++++++..... ......+.|++++++.
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 24456679999987543221 2234566778888888888888889999999874433 2234567899999999
Q ss_pred ceeEEEeec--CCCCCChhHHHHHHHHHh-cC-CCeEEEEEecCCcHHHHHHHHHHcCCCCC-CeEEEecC
Q 002301 192 RCRISFKAP--LSVEATEDEITDLLVKVA-LT-ESRIIVVHTHYNRGPVVFHVAQYLGMLGT-GYVWIATS 257 (940)
Q Consensus 192 g~~v~~~~~--~~~~~~~~~~~~~l~~l~-~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~-~~~wi~~~ 257 (940)
|+.+..... .....+..+-...++++- .. ++++| ++++...+..+++++++.|+..+ +...++.|
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 876521111 110011122233444443 22 35554 44455677788999999998644 34444443
No 202
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.82 E-value=0.16 Score=55.91 Aligned_cols=206 Identities=10% Similarity=0.016 Sum_probs=117.5
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
.-.||+++|.- ..+-.....+++.+.++ .|+++.+ .++..++..-......++.++|.+||=-.....
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~- 131 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT- 131 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-
Confidence 45799998842 32323445555555554 2566654 344445544444445566778888764222112
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-CcchhhHHHHHHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD-DHGRNGIAALGDTL 188 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l 188 (940)
......+...++|+|....... +. ... .+..++..-+..+++.+...|-++++++.... .......+.|++++
T Consensus 132 ~~~~~~l~~~~iPvV~~~~~~~---~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 132 PRTLKMIEVAGIPVVELMDSQS---PC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred HHHHHHHHhCCCCEEEEecCCC---CC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 2223445678999997532211 11 111 25566777777788888888999999996432 22345578899999
Q ss_pred hcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 189 AAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
++.|+... ...+......++-...++++... ++++|+ +++...+..+++++++.|+..|+-+-|.
T Consensus 206 ~~~g~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 206 LDAGLVPY-SVMVEQSSSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHcCCCcc-ceeecCCCChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 99886311 01111111112222344454333 356654 4455677788999999998776555443
No 203
>PRK09526 lacI lac repressor; Reviewed
Probab=96.77 E-value=0.23 Score=54.88 Aligned_cols=203 Identities=13% Similarity=0.066 Sum_probs=115.9
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc--CCCch
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG--PQDAV 107 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG--p~~s~ 107 (940)
.-.||+++|.. ...-.....+++.+.++ .|+.+.+...+.. +...-......+..+++.+||- |..+.
T Consensus 63 ~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~~-~~~~~~~~l~~l~~~~vdGiii~~~~~~~ 133 (342)
T PRK09526 63 SLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVERS-GVEACQAAVNELLAQRVSGVIINVPLEDA 133 (342)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCCC-hHHHHHHHHHHHHhcCCCEEEEecCCCcc
Confidence 45799999853 22222344555555554 2677766543321 2233334455677778887763 44333
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 185 (940)
....+. ....++|+|.+... + +... -.+..++..-+..+++++...|-++++++..+. .......+.|+
T Consensus 134 ~~~~~~--~~~~~iPvV~~d~~-~---~~~~---~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~ 204 (342)
T PRK09526 134 DAEKIV--ADCADVPCLFLDVS-P---QSPV---NSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGWL 204 (342)
T ss_pred hHHHHH--hhcCCCCEEEEecc-C---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHHH
Confidence 222221 12358999987532 1 1112 235566666678888888888999999997543 23455678899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
+.+++.|+.+... +....+..+-...+.++... .+++|+ +++...+..+++++++.|+..|+-+-|
T Consensus 205 ~al~~~gi~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disv 272 (342)
T PRK09526 205 EYLTDYQLQPIAV--REGDWSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISV 272 (342)
T ss_pred HHHHHcCCCcceE--EeCCCchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 9999998764322 11111222222334444322 356554 344456778999999999876654433
No 204
>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=96.77 E-value=0.0064 Score=65.91 Aligned_cols=70 Identities=17% Similarity=0.194 Sum_probs=48.0
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHH---hhhCCCcc--CcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHH
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLV---DELNIDES--RLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFL 756 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~---~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~ 756 (940)
..|++++||. |++||+..++....++. +..+.... +++.+ ...+...++.+ |++||++...++.....
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 5789999998 99999987765443332 22333322 23333 46788999999 89999988888776555
Q ss_pred hc
Q 002301 757 ST 758 (940)
Q Consensus 757 ~~ 758 (940)
++
T Consensus 163 ~~ 164 (300)
T TIGR01729 163 KS 164 (300)
T ss_pred hc
Confidence 44
No 205
>PRK09492 treR trehalose repressor; Provisional
Probab=96.61 E-value=0.24 Score=53.99 Aligned_cols=192 Identities=15% Similarity=0.029 Sum_probs=112.3
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT 108 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (940)
..-.||+++|.- ..+-.....+++-++ ++. |+.+ .+.++..++....+....+..++|.+||--..+..
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 222223334444333 333 5555 34455556665555555666778888875322211
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc-C--CcchhhHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD-D--DHGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~ 185 (940)
. .+.....++|+|...... +.+-.+..++..-+..+++.+...|-++++++... . ..+....+.|.
T Consensus 131 ~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~ 199 (315)
T PRK09492 131 T---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYL 199 (315)
T ss_pred c---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHH
Confidence 1 123344567887654311 11223455666667778888878899999999632 2 23466788999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
+.+++.|+.+... .. ..+..+-...++++...++++|+... ...+..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVCAT-DTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEEcC-cHHHHHHHHHHHHcCC
Confidence 9999999865421 11 11222222344444445677765444 4667789999999986
No 206
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.53 E-value=0.3 Score=53.05 Aligned_cols=207 Identities=9% Similarity=0.020 Sum_probs=118.2
Q ss_pred ceEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCch
Q 002301 30 SVVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAV 107 (940)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (940)
..-.||++.|.. ..+-.....+++-+.++. |+.+.+ .++..+...-......+..++|++||= |....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~ 103 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRLP 103 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 456899999853 444445566777666652 455544 344445544444555666778887763 22211
Q ss_pred hHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC--cchhhHHHHH
Q 002301 108 TSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD--HGRNGIAALG 185 (940)
Q Consensus 108 ~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (940)
...... ......|++......+. ..+++ +..++...+..+++.+...|-+++++|..... ......+.|+
T Consensus 104 -~~~~~~-~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 104 -FDASKE-EQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred -hHHHHH-HHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 111111 22222467765433221 12232 44566677777888887789999999975433 2445688899
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
+.+++.|+++..................+.++... .+++|+. ++...+..++++.++.|+..++-+++.
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 99998887643211111112233334555565433 3676664 455566678899999998655444444
No 207
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.53 E-value=0.35 Score=53.57 Aligned_cols=206 Identities=9% Similarity=-0.005 Sum_probs=113.9
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
.-.||+++|.. ..+-.....+++.+.++. |+.+. +.++..++..-......+..+++.+||--......
T Consensus 59 ~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~~ 128 (346)
T PRK10401 59 SDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYVL--IGNSYHEAEKERHAIEVLIRQRCNALIVHSKALSD 128 (346)
T ss_pred CCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCh
Confidence 45799999853 223334445555555542 45543 33444455544444555666778876632111111
Q ss_pred HHHHHhhccCCcc-EEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC--CcchhhHHHHHH
Q 002301 110 HVVSHVANELQVP-LLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD--DHGRNGIAALGD 186 (940)
Q Consensus 110 ~~va~~~~~~~vP-~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (940)
..+..+.. ++| +|......+. ..+++ +..++..-+..+++++...|-+++++|.... .......+.|++
T Consensus 129 ~~~~~~~~--~~p~vV~i~~~~~~---~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~ 200 (346)
T PRK10401 129 DELAQFMD--QIPGMVLINRVVPG---YAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMS 200 (346)
T ss_pred HHHHHHHh--cCCCEEEEecccCC---CCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHH
Confidence 22334443 355 6765432221 12232 4456655566777888888999999997543 345667889999
Q ss_pred HHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEEe
Q 002301 187 TLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+++.|+.+..............-...+.++.+. .+++|+. .+...+..+++++++.|+..|+-+-+.
T Consensus 201 al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 201 ALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999987543211111111222222344444322 4666554 455667789999999998766544433
No 208
>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=96.33 E-value=0.75 Score=49.77 Aligned_cols=197 Identities=9% Similarity=0.020 Sum_probs=110.2
Q ss_pred EEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 34 IGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
||++.|- ...+-.....+++.+.++. |+.+. +.++..++..-.+....++.++|.+|| .|..+.....
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~--------g~~v~--~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL--------GAKVF--VQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH
Confidence 4566543 2222233444555555442 56654 456666776666677778888888665 3433333334
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCe-EEEEEEEcC--CcchhhHHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWR-EVIAIYVDD--DHGRNGIAALGDTL 188 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~-~v~ii~~d~--~~g~~~~~~l~~~l 188 (940)
....+...++|+|.+....+ + .+....+..++..-+..+++++...+-+ +++++..+. .......+.+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCC---C--CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 44556778999998754321 1 1222345567777788888887666655 788876432 22334456777777
Q ss_pred hcC----ceeEEEeecCCCCCChhHHHHHHHHHhc---CCCeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 189 AAK----RCRISFKAPLSVEATEDEITDLLVKVAL---TESRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 189 ~~~----g~~v~~~~~~~~~~~~~~~~~~l~~l~~---~~~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
++. ++.+.... +.......+....+.++.. .++++|+. .+...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGDQ-WVDGWLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecCc-CCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 763 35543221 1111223334455555432 23565444 3445566889999998873
No 209
>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=96.16 E-value=1.7 Score=46.83 Aligned_cols=198 Identities=8% Similarity=0.017 Sum_probs=101.9
Q ss_pred EEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhHHH
Q 002301 34 IGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTSHV 111 (940)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a~~ 111 (940)
||++.|-. ..+-.....+++.+.++. |....+...++..++..-.+....++++++.+|| -|..+.....
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 56676643 222234455666666553 3222222223455676666677778888887665 3443333333
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChH-HHHHHHHHHH-HHc-CCeEEEEEEEcCC--cchhhHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQ-YQMAAIAEIV-DHY-GWREVIAIYVDDD--HGRNGIAALGD 186 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~-~~~~ai~~~l-~~~-~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (940)
....+...+||+|.+....+. + +....+...|. ..++..++.+ +++ +-++|++|..+.. ......+.+++
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 445567789999987543221 1 12233434333 3344445543 343 2379998875432 22234577777
Q ss_pred HHhcCc---eeEEEeecCCCCCChhHHHHHHHHHhcCC--CeEEEEEecCCcHHHHHHHHHHcCCC
Q 002301 187 TLAAKR---CRISFKAPLSVEATEDEITDLLVKVALTE--SRIIVVHTHYNRGPVVFHVAQYLGML 247 (940)
Q Consensus 187 ~l~~~g---~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viv~~~~~~~~~~~l~~a~~~g~~ 247 (940)
.+++.| .++... .....+.++-...++++...+ +++|+. .....+..+++++++.|..
T Consensus 148 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 148 ELKDPKYPKVKLVAT--VYGDDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHhhccCCCCEEEee--ecCCchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 776653 343321 111122233334444443333 445443 3345666788888888864
No 210
>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=96.14 E-value=0.29 Score=51.97 Aligned_cols=197 Identities=11% Similarity=-0.001 Sum_probs=107.5
Q ss_pred EEEEEeecCCc--chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE-cCCCchhH
Q 002301 33 NIGALLSFSTN--VGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII-GPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~~~~~~--~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~a 109 (940)
+||++.+.+.. .+......+..++++.-++ .|+.+.+...+ .+. ....+++.++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE----LGIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH----cCCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 58999885521 2222233333334333333 25676655432 111 12345677665 222222
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCC-------cchhhHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDD-------HGRNGIA 182 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~-------~g~~~~~ 182 (940)
.....+...++|+|...... .+..++ .+..++...+..+++.+...|-++++++..... ......+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 23344566789999874321 222333 355677777888888888889999999986543 3455678
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh-cC---CCeEEEEEecCCcHHHHHHHHHHcCCCCCCeEEE
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA-LT---ESRIIVVHTHYNRGPVVFHVAQYLGMLGTGYVWI 254 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 254 (940)
.|.+.+.+.|.. .....+....+..+....++++. .. .+++|+ +++...+..+++++++.|+..++-+-|
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~v 211 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTAFF-IASDPMAIGALRALQEAGIKVPEDVSV 211 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 899999888741 10001111112222233344432 22 255444 455666888899999999875544333
No 211
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=95.93 E-value=0.047 Score=57.41 Aligned_cols=74 Identities=23% Similarity=0.190 Sum_probs=49.1
Q ss_pred CCCCChhHhhh-----CCCCeEE-EeCchHHHHHH---hhhCCCc---cCcccCCCHHHHHHHhhcCCCCCceEEEEech
Q 002301 682 SPIKGIDSLRS-----SNYPIGY-QVNSFARNYLV---DELNIDE---SRLVPLNSPEEYAKALKDGPHKGGVAAVVDDR 749 (940)
Q Consensus 682 ~~i~si~dL~~-----~~~~i~~-~~gs~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~ 749 (940)
+.+++++||.+ .|++|++ ..|+.....+. ++.+... -+++.++. .+..++++. |++|+++...
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 57899999933 3778998 45664443332 3344443 35555655 999999999 9999999999
Q ss_pred hhHHHHHhcCC
Q 002301 750 AYAELFLSTRC 760 (940)
Q Consensus 750 ~~~~~~~~~~~ 760 (940)
++.....++.-
T Consensus 179 P~~~~~~~~g~ 189 (252)
T PF13379_consen 179 PFASQAEAKGI 189 (252)
T ss_dssp THHHHHHHTTS
T ss_pred CHHHHHHhccC
Confidence 98877776653
No 212
>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=95.89 E-value=0.033 Score=60.58 Aligned_cols=68 Identities=16% Similarity=0.154 Sum_probs=49.1
Q ss_pred CCChhHhhhCCCCeEEEeCchHHHHHHh---hhCCC--ccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhc
Q 002301 684 IKGIDSLRSSNYPIGYQVNSFARNYLVD---ELNID--ESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLST 758 (940)
Q Consensus 684 i~si~dL~~~~~~i~~~~gs~~~~~l~~---~~~~~--~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~ 758 (940)
|++++||+ |++|++..|+..+.++.. +.+.. +-+++.. .+.+...++.+ |.+||+....++......+
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 89999999 999999999876654433 23333 2344445 45788999999 9999998888876654443
No 213
>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=95.82 E-value=1.2 Score=48.40 Aligned_cols=190 Identities=12% Similarity=0.008 Sum_probs=108.5
Q ss_pred eEEEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEc-CCCchh
Q 002301 31 VVNIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIG-PQDAVT 108 (940)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~ 108 (940)
.-.||+++|.- ..+-.....+++-+.++ .|+.+-+ .++..++..-......+...++.++|- |.....
T Consensus 59 ~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~~ 128 (311)
T TIGR02405 59 DKVVAVIVSRLDSPSENLAVSGMLPVFYT--------AGYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGCD 128 (311)
T ss_pred CCEEEEEeCCcccccHHHHHHHHHHHHHH--------CCCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCC
Confidence 44799999852 22222233344433333 2566544 344445544444444455667887763 222111
Q ss_pred HHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc---CCcchhhHHHHH
Q 002301 109 SHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD---DDHGRNGIAALG 185 (940)
Q Consensus 109 a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~ 185 (940)
.. .....++|+|...... ..++ .+.+++..-+..+++++...|-+++++|..+ ...+....+.|+
T Consensus 129 ~~----~l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~ 196 (311)
T TIGR02405 129 EE----ILESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYL 196 (311)
T ss_pred HH----HHHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHH
Confidence 11 2344678888765321 1122 3556666667778888888899999999732 234566788999
Q ss_pred HHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 186 DTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
+++++.|+.... .....+..+....++++...+++.|| +++...+..+++++.+.|.
T Consensus 197 ~a~~~~gi~~~~---~~~~~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 197 AYCESANLEPIY---QTGQLSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHcCCCcee---eeCCCCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 999999986321 11111222333344444334577654 5556677788999999885
No 214
>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=95.33 E-value=0.59 Score=49.15 Aligned_cols=195 Identities=14% Similarity=0.063 Sum_probs=101.4
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
|||++++-. .....+..++..+++++.+.. |.++.+ .+...++........+++++++.+||+.. .....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~~g-~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFGTS-FGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEECc-hhhhHHH
Confidence 578888732 111233344445555554442 455444 34444666777788889989999999833 3444555
Q ss_pred HHhhccC-CccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcC-CcchhhHHHHHHHHhc
Q 002301 113 SHVANEL-QVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDD-DHGRNGIAALGDTLAA 190 (940)
Q Consensus 113 a~~~~~~-~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~~ 190 (940)
..++.++ ++.++...+..+ .++-..+.|+.... .+++-.+|..+.. =.+|++|...+ +........|.+.++.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~~--~~Nv~~~~~~~~e~-~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~~~ 147 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYKT--APNVGSYFARIYEG-RYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGARS 147 (258)
T ss_pred HHHHHHCCCCEEEECCCCCC--CCCeeeEechhhHH-HHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHHHH
Confidence 6666555 333333222111 01112233333221 2333334444433 35899997543 2333455667666653
Q ss_pred C--ceeEEEeecCCCC-CChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcC
Q 002301 191 K--RCRISFKAPLSVE-ATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLG 245 (940)
Q Consensus 191 ~--g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g 245 (940)
. ++++... +.-. .+...-......+.+.++|+|+-.+ ....++++|++.|
T Consensus 148 ~~p~~~v~~~--~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 148 VNPDATVKVI--WTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HCCCcEEEEE--EecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 3 3333322 2111 1222224445556667999887777 3346888888876
No 215
>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=95.33 E-value=0.62 Score=45.52 Aligned_cols=70 Identities=21% Similarity=0.326 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..++++.+.++.+ ++++++.. .....++..+.+|++|++++.... ....++ ..++....+++++++
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 455677777777664 34455554 346789999999999999874433 223333 346667788888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 216
>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=95.32 E-value=2.6 Score=44.85 Aligned_cols=202 Identities=12% Similarity=0.013 Sum_probs=104.6
Q ss_pred EEEEEeecC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCC-ch-hH
Q 002301 33 NIGALLSFS-TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQD-AV-TS 109 (940)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~-s~-~a 109 (940)
+||++.|.. ..+-.....+++.+.++. |+++-+ .++..++..-.+....++.++|.+||=-.. .. ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNLRI--LDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 488888753 222223445555555442 455443 455556665555566677778887664222 12 12
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCC-ceEEecCChHHHHHHHHHHHHHc--CCeEEEEEEEcCC-cch---hhHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFP-YFVRTTQSDQYQMAAIAEIVDHY--GWREVIAIYVDDD-HGR---NGIA 182 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p-~~~r~~psd~~~~~ai~~~l~~~--~w~~v~ii~~d~~-~g~---~~~~ 182 (940)
..+ ..+...++|+|.+....+. .....+ .+-.+..++...+..+++++... |-++++++..... ... ...+
T Consensus 72 ~~~-~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~ 149 (280)
T cd06315 72 AEL-ELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMK 149 (280)
T ss_pred HHH-HHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHH
Confidence 333 3456689999987543211 000011 13345666777778888887665 8899998864321 121 2344
Q ss_pred HHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc---CCCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 183 ALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL---TESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~---~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
.+.+++++.++ ...................+++.+ ..+++ |++++...+..+++.+++.|+..+
T Consensus 150 ~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTV--LSIEDVPISRTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEE--EEecccCcchhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 44444443343 111111111111111123333322 23565 444555677788999999998654
No 217
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.01 E-value=0.51 Score=50.20 Aligned_cols=110 Identities=20% Similarity=0.228 Sum_probs=74.7
Q ss_pred CCCCChhHhhhCCCCeEEEeCchH------HHHHHhhhCCCc---cCcccCC-CHHHHHHHhhcCCCCCceEEEEechhh
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFA------RNYLVDELNIDE---SRLVPLN-SPEEYAKALKDGPHKGGVAAVVDDRAY 751 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~------~~~l~~~~~~~~---~~~~~~~-~~~~~~~~l~~~~~~g~~~a~~~~~~~ 751 (940)
++|++++||. |+++++..-+.. ..+|.++.+.+. ..-+.+. .-+..+.+|.+ |.+|+.......
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 7999999999 999998753222 123333322221 1122333 37889999999 899988887766
Q ss_pred HHHHHhcC-----CcEEEeCCccccCcceeecCCCCc--chHHHHHHHHhccc
Q 002301 752 AELFLSTR-----CEFSIVGQVFTKNGWGFAFPRDSP--LAVDISTAILKLSE 797 (940)
Q Consensus 752 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~il~l~e 797 (940)
...+.... -+++++...-...+..++++++-| +++.+..+++.+-+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 65555432 257777655444456778888887 99999999999987
No 218
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=94.79 E-value=0.1 Score=57.05 Aligned_cols=60 Identities=25% Similarity=0.216 Sum_probs=40.0
Q ss_pred CCCCChhHhhhCCCCeEEEe-CchHH----HHHHhhhCCCccC--cccCCCHHHHHHHhhcCCCCCceEEEEec
Q 002301 682 SPIKGIDSLRSSNYPIGYQV-NSFAR----NYLVDELNIDESR--LVPLNSPEEYAKALKDGPHKGGVAAVVDD 748 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~-gs~~~----~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~ 748 (940)
.++++++||. ++++++.. ++... .++ +..+..... .+.+.+..+...+|.+ |++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l-~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVL-KAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHH-HHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 4678999998 77777654 33222 223 333433222 3567788899999999 899999987
No 219
>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=94.62 E-value=1.8 Score=42.69 Aligned_cols=73 Identities=22% Similarity=0.239 Sum_probs=47.3
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.+..+ .+++.... ++...+..++.+|++|++++.... ......+. ..+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~~-~~~l~~~~~~~v~~ 81 (201)
T cd08418 12 HTLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPD-EMYLKELI-SEPLFESDFVVVAR 81 (201)
T ss_pred HhhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCC-CCCCccee-EEeecCCceEEEeC
Confidence 3455677888888764 34565554 457899999999999999863211 11122333 35666778888876
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 82 ~~~ 84 (201)
T cd08418 82 KDH 84 (201)
T ss_pred CCC
Confidence 553
No 220
>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=94.58 E-value=1.2 Score=44.50 Aligned_cols=73 Identities=18% Similarity=0.181 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .+++.... ++...+++.|.+|++|++++...........+.+ .+..+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeC
Confidence 456788888988774 34455554 5588999999999999998733211000223333 46777778888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 54
No 221
>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=94.51 E-value=0.16 Score=51.89 Aligned_cols=59 Identities=31% Similarity=0.356 Sum_probs=38.5
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHH---hhhCCCccCcccC-CCHHHHHHHhhcCCCCCceEEEE
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLV---DELNIDESRLVPL-NSPEEYAKALKDGPHKGGVAAVV 746 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~~ 746 (940)
+.|+++.||. |++||+..|+....++. ++.+.+...+... -+..+...+|.+ |++||++
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~ 145 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAI 145 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEE
Confidence 4699999999 99999999765444332 3344433333322 235677779999 8999888
No 222
>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=94.45 E-value=2 Score=42.31 Aligned_cols=70 Identities=23% Similarity=0.292 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .++++... ++..++++.+.+|++|+++... +.....+. ..+.....+++++++
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 445678888888764 34455553 4578899999999999998632 22223343 357778888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 54
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=94.38 E-value=4.2 Score=42.99 Aligned_cols=155 Identities=12% Similarity=0.024 Sum_probs=91.1
Q ss_pred HHhcCcEEEEc-CCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEE
Q 002301 92 LMEGQTVAIIG-PQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAI 170 (940)
Q Consensus 92 li~~~v~aiiG-p~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii 170 (940)
+...+|.++|- +... ....+.. +...++|+|......+. ...+++ +..++..-+..+++.+...|-+++++|
T Consensus 52 l~~~~vdgiIi~~~~~-~~~~~~~-l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i 124 (269)
T cd06287 52 LDALDIDGAILVEPMA-DDPQVAR-LRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALI 124 (269)
T ss_pred hhccCcCeEEEecCCC-CCHHHHH-HHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEE
Confidence 33557887653 2221 1223333 45569999987543210 122333 345666667778888888899999999
Q ss_pred EEcC--CcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 171 YVDD--DHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 171 ~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
.... .......+.|++++++.|+..... ......+.++-...++++... ++++|+ +++...+..+++++++.|+
T Consensus 125 ~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl 202 (269)
T cd06287 125 VGSARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEAGGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGR 202 (269)
T ss_pred eCCcccccHHHHHHHHHHHHHHcCCCccee-EecCCCChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 6432 344556788999999888753221 111112223333444554332 456655 4456778889999999998
Q ss_pred CCCCeEEEe
Q 002301 247 LGTGYVWIA 255 (940)
Q Consensus 247 ~~~~~~wi~ 255 (940)
..|+-+=|.
T Consensus 203 ~vP~dvsvi 211 (269)
T cd06287 203 AVPDQLRVV 211 (269)
T ss_pred CCCCceEEE
Confidence 766544333
No 224
>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=94.28 E-value=1.4 Score=43.76 Aligned_cols=70 Identities=17% Similarity=0.143 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .++++... ++.+++...|.+|++|+++..... ....+. +.|.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEcC
Confidence 455678888888774 34455553 446788999999999999863321 122333 467788888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 225
>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=94.25 E-value=2.6 Score=41.29 Aligned_cols=71 Identities=17% Similarity=0.280 Sum_probs=47.5
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.++.+ .++++... ++..++.+.+.+|++|+++... +.....+. +.++.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~ 79 (197)
T cd08440 12 ATLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSE---PEADPDLE-FEPLLRDPFVLVCP 79 (197)
T ss_pred hhHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeC---CCCCCCee-EEEeecccEEEEec
Confidence 3556788888888764 34455553 4578899999999999998632 22222232 35677788888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (197)
T cd08440 80 KDH 82 (197)
T ss_pred CCC
Confidence 654
No 226
>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=94.20 E-value=2.2 Score=41.76 Aligned_cols=71 Identities=18% Similarity=0.192 Sum_probs=46.6
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.++.+ .++++... ++..++...+.+|++|+++... +.....+. ..+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 79 (193)
T cd08442 12 AVRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSP 79 (193)
T ss_pred hhhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEec
Confidence 3456788888888775 23455554 4578899999999999998532 22222222 35666777888776
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (193)
T cd08442 80 KGH 82 (193)
T ss_pred CCC
Confidence 654
No 227
>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=94.15 E-value=1 Score=45.04 Aligned_cols=195 Identities=20% Similarity=0.224 Sum_probs=119.2
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..||||+... + ...+-.+++..+.++.+- ++++... ++...+++.|.+|++|+++....
T Consensus 6 ~~l~Ig~~~~--~-----------~~~~l~~~l~~~~~~~P~-i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 64 (209)
T PF03466_consen 6 GTLRIGASPS--F-----------ASSLLPPLLAEFRERHPN-IRIEIRE-------GDSDELIEALRSGELDLAITFGP 64 (209)
T ss_dssp EEEEEEEEHH--H-----------HHHTHHHHHHHHHHHSTT-EEEEEEE-------ESHHHHHHHHHTTSSSEEEESSS
T ss_pred eEEEEEEEhH--H-----------HHHHHHHHHHHHHHHCCC-cEEEEEe-------ccchhhhHHHhcccccEEEEEee
Confidence 4688888631 1 134556788888887753 4555554 45789999999999999987444
Q ss_pred eecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCcee
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVT 627 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (940)
. ....+. ..|+....+++++++..+...
T Consensus 65 ~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~------------------------------------------------ 92 (209)
T PF03466_consen 65 P---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ------------------------------------------------ 92 (209)
T ss_dssp S---SSTTEE-EEEEEEEEEEEEEETTSGGGT------------------------------------------------
T ss_pred c---cccccc-cccccceeeeeeeeccccccc------------------------------------------------
Confidence 3 222232 457778889999887641100
Q ss_pred ehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEe-CchHH
Q 002301 628 IFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQV-NSFAR 706 (940)
Q Consensus 628 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~-gs~~~ 706 (940)
..++ +++||. +.++.... +....
T Consensus 93 -----------------------------------------------------~~~i-~~~dL~--~~~~i~~~~~~~~~ 116 (209)
T PF03466_consen 93 -----------------------------------------------------KKPI-TLEDLA--DYPLILLSPGSPYR 116 (209)
T ss_dssp -----------------------------------------------------TSSS-SGGGGT--TSEEEEESTTTSHH
T ss_pred -----------------------------------------------------cccc-hhhhhh--hccccccccccccc
Confidence 1344 789998 66654443 44344
Q ss_pred HHHHh---hhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCC-ccccCcceeecCCCC
Q 002301 707 NYLVD---ELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQ-VFTKNGWGFAFPRDS 782 (940)
Q Consensus 707 ~~l~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~s 782 (940)
..+.+ +.+.........++.+.....+.. |...+++.+....++..........+.+ .+. ..++++.+++.
T Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~~~~~ 191 (209)
T PF03466_consen 117 DQLDRWLREHGFSPNIVIEVDSFESILSLVAS----GDGIAILPDSLAQDELESGELVFLPLPDPPLP-RPIYLVWRKDR 191 (209)
T ss_dssp HHHHHHHHHTTEEEEEEEEESSHHHHHHHHHT----TSEBEEEEHHHHHHHHHCTTEEEEEESSSTEE-EEEEEEEETTG
T ss_pred cccccccccccccccccccccchhhhcccccc----ccceeecCcccccccccCCCEEEEECCCCCCc-eEEEEEEECCC
Confidence 44432 223332344567899999999998 6666666655444444222223233444 333 77888888888
Q ss_pred cchHHHHHHHHhcc
Q 002301 783 PLAVDISTAILKLS 796 (940)
Q Consensus 783 pl~~~~~~~il~l~ 796 (940)
+....+...+..+.
T Consensus 192 ~~~~~~~~~~~~l~ 205 (209)
T PF03466_consen 192 PLSPAIQWFIDLLR 205 (209)
T ss_dssp TTHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHH
Confidence 76666665555444
No 228
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=94.06 E-value=7.9 Score=42.44 Aligned_cols=217 Identities=15% Similarity=0.078 Sum_probs=108.6
Q ss_pred HHHHHhhhhcc--cCCC-CceEEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEec-CCC-CHHHH
Q 002301 14 CELFVYRITAQ--ASGR-PSVVNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQD-CNH-SGFLA 85 (940)
Q Consensus 14 ~~~~~~~~~~~--~~~~-~~~i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D-~~~-~~~~a 85 (940)
+.+++.+|... .+.. ....+++++.+-. ..+.+....|.+.+-++. |.+++....+ ... +....
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~ 86 (345)
T COG1744 15 AALLLAACGASLAGAAAAGKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL--------GLKVETYYWEYVQSDSEADY 86 (345)
T ss_pred HHHHHHHhcCCCccccccccceEEEEEecCCCCccchhHHHHHHHHHHHHHh--------CCceEeeeeeecCCcchhHH
Confidence 33344455542 2233 3345555554432 223344455555444443 4455553332 222 34444
Q ss_pred HHHHHHHHhcCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCC--CCCCceEEecCChHHHHHHHHHHHHHcC
Q 002301 86 LAEALHLMEGQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSS--LQFPYFVRTTQSDQYQMAAIAEIVDHYG 163 (940)
Q Consensus 86 ~~~a~~li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~--~~~p~~~r~~psd~~~~~ai~~~l~~~~ 163 (940)
.+...++.+++...|+|....- ..++..++.++ |-+.|.-.+..... +...+.||..-.....+.+.+.+.+.-.
T Consensus 87 ~~~~~~~a~~g~~lI~~~gf~~-~d~~~~va~~~--Pd~~F~iid~~~~~~~Nv~s~~f~~~egayL~G~~AA~~sk~~~ 163 (345)
T COG1744 87 ERALRALAEDGYDLIFGTGFAF-SDALEKVAAEY--PDVKFVIIDGVVKKEDNVASYVFREYEGAYLAGVAAAKMSKSGK 163 (345)
T ss_pred HHHHHHHHhcCCCEEEEeccch-hhHHHHHHHHC--CCCEEEEecCccCCCCceEEEEeccccHHHHHHHHHHHhhcCCc
Confidence 5555667777878888755543 34555666665 44433333332222 3345777775544433333333344333
Q ss_pred CeEEEEEEEcCCcchhhHHHHHHHHhcC----ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHH
Q 002301 164 WREVIAIYVDDDHGRNGIAALGDTLAAK----RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFH 239 (940)
Q Consensus 164 w~~v~ii~~d~~~g~~~~~~l~~~l~~~----g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~ 239 (940)
|--|+-+ +-+--..++..|..-.+.. .+.+.+...+. +...=......+.+.++|||+-++.+.... ++.
T Consensus 164 vG~vgg~--~~p~v~~f~~gF~~Gak~~np~i~v~v~~~gsf~---D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~ 237 (345)
T COG1744 164 VGFVGGM--DIPEVNRFINGFLAGAKSVNPDIKVKVVYVGSFS---DPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQ 237 (345)
T ss_pred eeEEecc--cchhhHHHHHHHHHHHHhhCCCccEEEEEecCcc---ChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHH
Confidence 4444333 3333445566666655544 34444444443 222233467777889999998887664443 333
Q ss_pred HHHHcCCC
Q 002301 240 VAQYLGML 247 (940)
Q Consensus 240 ~a~~~g~~ 247 (940)
+|++.|..
T Consensus 238 ~A~~~~~~ 245 (345)
T COG1744 238 AAKELGAY 245 (345)
T ss_pred HHHHhCCC
Confidence 77777743
No 229
>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=93.79 E-value=2.6 Score=42.12 Aligned_cols=72 Identities=13% Similarity=0.226 Sum_probs=48.1
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.++.+ .+++++... ++.+++++.|.+|++|++++.... ..+.+++ .|+.+..++++++
T Consensus 12 ~~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~~-~~l~~~~~~lv~~ 80 (203)
T cd08463 12 ALFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLHL-SPLFSDEIVCLMR 80 (203)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcEE-eEeecCceEEEEe
Confidence 3566788899988775 234555531 246789999999999999863211 1122333 5677788888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (203)
T cd08463 81 ADH 83 (203)
T ss_pred CCC
Confidence 664
No 230
>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=93.66 E-value=3.5 Score=40.42 Aligned_cols=71 Identities=17% Similarity=0.194 Sum_probs=46.3
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .+++.... ++...++.++.+|++|+++..... ....+. +.+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 79 (201)
T cd08420 12 EYLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVVP 79 (201)
T ss_pred hhhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEec
Confidence 3455678888888764 33455543 346788999999999998863322 222232 35677778888876
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (201)
T cd08420 80 PDH 82 (201)
T ss_pred CCC
Confidence 554
No 231
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.55 E-value=2.9 Score=45.17 Aligned_cols=86 Identities=19% Similarity=0.226 Sum_probs=54.2
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.++|||+.... ...+-.+++..+.+..+ .+++.+.. +....++..+.+|++|+++..-.
T Consensus 95 g~l~ig~~~~~-------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 153 (305)
T CHL00180 95 GTLIIGASQTT-------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGGE 153 (305)
T ss_pred ceEEEEEcCcc-------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcCc
Confidence 46899887311 12345677788877654 23454443 44889999999999999986322
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
...+....+ ...++....+++++++..
T Consensus 154 ~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 154 VPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred cCcccccce-eEEEeccCcEEEEECCCC
Confidence 111111122 356777888888887754
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=93.46 E-value=3.8 Score=40.16 Aligned_cols=70 Identities=17% Similarity=0.256 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..++++.+.+..+ .+++.... ++..+++..|.+|++|+++..... ....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 466788888888764 34455554 457889999999999999863322 122232 346677788888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 233
>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=93.37 E-value=5.5 Score=39.14 Aligned_cols=72 Identities=19% Similarity=0.247 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .++++... ++..+++.++.+|++|+++.... ...+...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 445677888877765 34455543 45788999999999999986321 111122333 357778888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 54
No 234
>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=93.35 E-value=3.3 Score=40.65 Aligned_cols=71 Identities=14% Similarity=0.108 Sum_probs=48.3
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.++.+ +++++... ++..+++.++.+|++|+++... +.....+. ..|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEEec
Confidence 4566788888888875 33455554 4578899999999999998632 11222232 46777788888876
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 235
>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=4.5 Score=39.80 Aligned_cols=70 Identities=17% Similarity=0.238 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .+++.... .+..++...+.+|++|+++... +.....+ -..++....+++++++
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 455678888888764 34455553 3467889999999999998622 2222222 2457777888888766
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 54
No 236
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=93.25 E-value=2.9 Score=45.41 Aligned_cols=206 Identities=15% Similarity=0.113 Sum_probs=117.3
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
..+++||+... -...+-.+++..+.++.+ .+.+.... ++...++..|.+|++|+++..-
T Consensus 92 ~g~l~Ig~~~~-------------~~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~~ 150 (313)
T PRK12684 92 QGNLTIATTHT-------------QARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIATE 150 (313)
T ss_pred CCeEEEEechH-------------HHHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEeec
Confidence 35799998631 123445678888877664 34455543 4578999999999999998632
Q ss_pred eeecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCce
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVV 626 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (940)
.... ...+. ..|+....+++++++..+..
T Consensus 151 ~~~~--~~~l~-~~~l~~~~~~~v~~~~~pl~------------------------------------------------ 179 (313)
T PRK12684 151 AIAD--YKELV-SLPCYQWNHCVVVPPDHPLL------------------------------------------------ 179 (313)
T ss_pred CCCC--CCCce-EEEeccceEEEEeCCCCccc------------------------------------------------
Confidence 1111 11222 46677778888877654110
Q ss_pred eehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCC-eEEEeCchH
Q 002301 627 TIFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYP-IGYQVNSFA 705 (940)
Q Consensus 627 ~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~-i~~~~gs~~ 705 (940)
....-+++||. +.+ +.+..++..
T Consensus 180 ------------------------------------------------------~~~~i~~~dL~--~~~~i~~~~~~~~ 203 (313)
T PRK12684 180 ------------------------------------------------------ERKPLTLEDLA--QYPLITYDFAFAG 203 (313)
T ss_pred ------------------------------------------------------cCCCcCHHHHh--cCCcEecCCCCcH
Confidence 01223578887 444 444455433
Q ss_pred HHHHH---hhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeC--CccccCcceeecCC
Q 002301 706 RNYLV---DELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVG--QVFTKNGWGFAFPR 780 (940)
Q Consensus 706 ~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k 780 (940)
...+. +..+.........++.+...+++.. |...+++.+. ..+... ..++..+. .......++++.+|
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~Gv~~lp~~-~~~~~~--~~~l~~~~i~~~~~~~~~~l~~~~ 276 (313)
T PRK12684 204 RSKINKAFALRGLKPDIVLEAIDADVIKTYVEL----GLGVGIVADM-AFDPER--DRNLRAIDAGHLFGSSTTRLGLRR 276 (313)
T ss_pred HHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHh----CCceEEeehh-hccccc--cCCeEEEECCCCCcceeEEEEEEC
Confidence 33222 2234333344566788899999998 5445666543 233221 22454442 33334568889999
Q ss_pred CCcchHHHHHHHHhcccccchHHHHHhh
Q 002301 781 DSPLAVDISTAILKLSENGDLQRIHDKW 808 (940)
Q Consensus 781 ~spl~~~~~~~il~l~e~G~~~~i~~kw 808 (940)
+.++...+...+..+.+. +..++.++-
T Consensus 277 ~~~~~~~~~~f~~~l~~~-~~~~~~~~~ 303 (313)
T PRK12684 277 GAYLRGYVYTFIELFAPT-LNRKLVEQA 303 (313)
T ss_pred CCcCCHHHHHHHHHHHHH-hCHHHHHHH
Confidence 987766666666554443 444444443
No 237
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=93.24 E-value=3.4 Score=44.66 Aligned_cols=83 Identities=13% Similarity=0.187 Sum_probs=55.0
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++|++.... ..++-..++..+.+..+ .+++.... ++-+++++++.+|++|+++....
T Consensus 91 g~l~i~~~~~~-------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 149 (305)
T PRK11151 91 GPLHIGLIPTV-------------GPYLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILALV 149 (305)
T ss_pred ceEEEEecchh-------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecC
Confidence 46888886321 12455567777777654 34566654 44789999999999999987432
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. ...+ ...|+....+++++++..
T Consensus 150 ~~---~~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 150 KE---SEAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred CC---CCCe-EEEEeccCcEEEEecCCC
Confidence 22 1222 457888889999987654
No 238
>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=93.10 E-value=2.9 Score=41.27 Aligned_cols=70 Identities=17% Similarity=0.168 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .++++... ++...++.++.+|++|+++... +.....+. +.|+....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSFK-SELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCce-eeeecccceEEEEeC
Confidence 455678888888764 34455553 5578899999999999998632 22222232 457778888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 239
>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=92.90 E-value=3.4 Score=40.64 Aligned_cols=71 Identities=15% Similarity=0.125 Sum_probs=46.2
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .++++... ++...++..+.+|++|+++.... .....+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~ 79 (198)
T cd08461 12 KAILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPE---YAPDGLR-SRPLFEERYVCVTR 79 (198)
T ss_pred HHHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCc---cCCccce-eeeeecCcEEEEEc
Confidence 3556778888888764 23455543 34567899999999999986321 1122232 56777788888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (198)
T cd08461 80 RGH 82 (198)
T ss_pred CCC
Confidence 654
No 240
>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=92.48 E-value=0.5 Score=50.57 Aligned_cols=71 Identities=15% Similarity=0.251 Sum_probs=47.5
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHHh---hhCCCccCc-ccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHh
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLVD---ELNIDESRL-VPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLS 757 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~ 757 (940)
++|++++||. |++|++..++.....+.. ..+.+...+ ..+.+..+..+++.+ |.+|+++...++...+..
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 5788999998 888998877654443322 223332222 222356788899999 899999888777765554
Q ss_pred c
Q 002301 758 T 758 (940)
Q Consensus 758 ~ 758 (940)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 4
No 241
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=92.37 E-value=4.5 Score=43.40 Aligned_cols=83 Identities=14% Similarity=0.144 Sum_probs=55.5
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+++||++.. -...+..+++..+.++.+ .+.++... +....++..+.+|++|+++...
T Consensus 91 ~~i~I~~~~~-------------~~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~- 148 (296)
T PRK11242 91 GSLRLAMTPT-------------FTAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA- 148 (296)
T ss_pred eEEEEEeccc-------------hhhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec-
Confidence 4689988631 123455678888888764 44555553 4578899999999999998632
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
+...+.+ .+.++....+++++++..
T Consensus 149 --~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 --PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred --CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222333 346777888888887754
No 242
>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=92.28 E-value=7 Score=38.06 Aligned_cols=70 Identities=23% Similarity=0.268 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+...++..+.++.+ .++++... +....++.++.+|++|+++... +.....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEecC
Confidence 455677788887763 23454443 4477889999999999998632 22223333 356777888888766
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 243
>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=92.09 E-value=8.5 Score=37.56 Aligned_cols=70 Identities=19% Similarity=0.201 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .++++... +....++.++.+|++|+++...... ...+ -..++....++++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEecC
Confidence 456677888888763 23455543 4578899999999999998632211 1112 2457777888888875
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 53
No 244
>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=92.08 E-value=6.4 Score=38.49 Aligned_cols=71 Identities=15% Similarity=0.156 Sum_probs=48.3
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.+..+ .+++.... +...++..++.+|++|+++..... ....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~ 79 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL---DHPGL-ESEPLASGRAVCVLP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC---CCCcc-eeeeecccceEEEEc
Confidence 3566788888888764 34455554 457889999999999999863221 12222 356777888888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (196)
T cd08415 80 PGH 82 (196)
T ss_pred CCC
Confidence 653
No 245
>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=92.00 E-value=5.2 Score=39.51 Aligned_cols=72 Identities=18% Similarity=0.165 Sum_probs=48.0
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .+++++.. +....+.+.+.+|++|+++..... .....+. +.+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08413 12 RYVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVP 80 (198)
T ss_pred hhhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEec
Confidence 3456678888888775 34455554 457889999999999999862211 1122233 36677788888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (198)
T cd08413 81 PGH 83 (198)
T ss_pred CCC
Confidence 654
No 246
>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=91.77 E-value=9 Score=37.56 Aligned_cols=70 Identities=10% Similarity=0.069 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .+++.... ++..+++.++.+|++|+++..... ....+. +.++....+++++++
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 455677888887764 33455543 446889999999999999863221 122233 467778888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 247
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=91.74 E-value=11 Score=41.18 Aligned_cols=147 Identities=9% Similarity=-0.020 Sum_probs=83.9
Q ss_pred cCcEEEEc-CCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc
Q 002301 95 GQTVAIIG-PQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD 173 (940)
Q Consensus 95 ~~v~aiiG-p~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d 173 (940)
++|.++|- |..+. .....+...++|+|......+ +..++ .+..++..-+..+++++...|.++++++..+
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 56776653 22222 233445667899997643221 12233 2556666667788888888899999999644
Q ss_pred CC--cchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhc--CCCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 174 DD--HGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVAL--TESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 174 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
.. ......+.+.+.+++.|+. .....+......++....++++.. ..+++| ++++...+..++++++++|...|
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~vP 261 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKAL-FVASDSIAIGVLRAIHERGLNIP 261 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCEE-EECCcHHHHHHHHHHHHcCCCCC
Confidence 32 3445567788888877751 110111111122222334444432 235554 44455667789999999998655
Q ss_pred CeE
Q 002301 250 GYV 252 (940)
Q Consensus 250 ~~~ 252 (940)
+-+
T Consensus 262 ~di 264 (327)
T PRK10339 262 QDI 264 (327)
T ss_pred Cce
Confidence 433
No 248
>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=91.65 E-value=5.4 Score=39.21 Aligned_cols=70 Identities=20% Similarity=0.265 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .+++.... ++...+...+.+|++|+++... +.....+. ..|+....++++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVF---PELPPGLR-SQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeec---ccCCCccc-hhhhhcCceEEEecC
Confidence 455677778877763 23344443 4578899999999999998632 22222232 467788888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 249
>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=91.64 E-value=1.8 Score=44.59 Aligned_cols=89 Identities=10% Similarity=0.062 Sum_probs=72.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC-------CChhHHHHHHHHHhcCCCeE
Q 002301 152 MAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE-------ATEDEITDLLVKVALTESRI 224 (940)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~~~~~~v 224 (940)
..|+.+-++++|-++++++. +|-....+.+.+.+++.|++|+....+... .+..++.+.+.++...++|.
T Consensus 108 ~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDA 184 (239)
T TIGR02990 108 SSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADA 184 (239)
T ss_pred HHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCE
Confidence 56788889999999999997 577888999999999999999876555432 34556777777777789999
Q ss_pred EEEEecCCcHHHHHHHHHH
Q 002301 225 IVVHTHYNRGPVVFHVAQY 243 (940)
Q Consensus 225 iv~~~~~~~~~~~l~~a~~ 243 (940)
|++.|..-....++.++.+
T Consensus 185 ifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 185 LFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred EEEeCCCchhHHHHHHHHH
Confidence 9999988888888888865
No 250
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=91.63 E-value=5 Score=43.25 Aligned_cols=85 Identities=12% Similarity=0.177 Sum_probs=56.4
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..|+||++.. -...+-.+++..+.+..+ .+++.... ++..+++.+|.+|++|+++....
T Consensus 95 g~l~I~~~~~-------------~~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~~~ 153 (302)
T PRK09791 95 GQINIGMGAS-------------IARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINTYY 153 (302)
T ss_pred eEEEEEechH-------------HHHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEecC
Confidence 6799998732 123455677888887775 44455543 45789999999999999886221
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. .....+.+ .|+....+++++++..
T Consensus 154 ~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 154 QG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred Cc-ccccceeE-EEeccceEEEEEcCCC
Confidence 11 11223443 6888889999987664
No 251
>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=91.42 E-value=6.6 Score=42.22 Aligned_cols=86 Identities=15% Similarity=0.249 Sum_probs=55.5
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
...++||++.. -...+-.+++..+.++.+ .+++.... ++...++.++.+|++|++++..
T Consensus 92 ~~~l~I~~~~~-------------~~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (300)
T TIGR02424 92 GPTVRIGALPT-------------VAARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGRL 150 (300)
T ss_pred CceEEEecccH-------------HHHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEec
Confidence 45799998731 112445677788887775 44555554 4578899999999999998633
Q ss_pred eeecCcceeeeeccccccccEEEEEeccC
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. ......+. ..|.....+++++++..
T Consensus 151 ~~-~~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 151 GA-PETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred CC-ccccccee-eeeecCCceEEEEcCCC
Confidence 22 11222333 34777788888887553
No 252
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=91.36 E-value=21 Score=37.49 Aligned_cols=207 Identities=11% Similarity=0.103 Sum_probs=112.8
Q ss_pred CCCceEEEEEEeecC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEE-EEcC
Q 002301 27 GRPSVVNIGALLSFS--TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVA-IIGP 103 (940)
Q Consensus 27 ~~~~~i~IG~l~~~~--~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp 103 (940)
...++..||+..|-- ..+- .-..++.-+.|.. |.+..+.. -.++...-+.+...++++++.+ ||+|
T Consensus 21 a~~~d~~IGis~~d~~~eRW~-~D~~~~~~~~e~~--------g~k~~~q~--A~~~~~~Q~~qien~i~qg~~vlvi~a 89 (341)
T COG4213 21 AAAKDGVIGISMPDLRSERWI-KDRDAFVKKAEAL--------GAKVDVQS--ADGDEEKQLAQIENMINQGVKVLVIGA 89 (341)
T ss_pred hhccCCeEEEEcCChhHhhhh-hhhHHHHHHHHhc--------cchhhhhh--hccChhHHHHHHHHHHhcCCCEEEEEe
Confidence 445678899987763 2221 2234555555543 44544433 4455556677788899997764 5799
Q ss_pred CCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEec--CChHHHHHHHHHHHHHcC---CeEEEEEEE--cCC-
Q 002301 104 QDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTT--QSDQYQMAAIAEIVDHYG---WREVIAIYV--DDD- 175 (940)
Q Consensus 104 ~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~--psd~~~~~ai~~~l~~~~---w~~v~ii~~--d~~- 175 (940)
..+.....+.+.+...+||+|+|. ....+..+.|+...- .--..|+.++.+-++... -..+.++.. +|.
T Consensus 90 ~d~~~l~~~i~~A~~~gikViaYD---RlI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnN 166 (341)
T COG4213 90 IDGGVLSNAVEKAKSEGIKVIAYD---RLINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNN 166 (341)
T ss_pred ccchhHHHHHHHHHHcCCeEEEee---cccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcc
Confidence 999999888899999999999883 333333333333221 112245666655554433 334555542 222
Q ss_pred --cchhh-HHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh---cCCCeEEEEEecCCcHHHHHHHHHHcCCCCC
Q 002301 176 --HGRNG-IAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA---LTESRIIVVHTHYNRGPVVFHVAQYLGMLGT 249 (940)
Q Consensus 176 --~g~~~-~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~---~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 249 (940)
+.+.+ .+.|+..+..-.+.++.....+ ....+.-...+..+- ..+.+.|+-.-+ ..+.-.+.++...|+.++
T Consensus 167 A~lf~~G~m~VLkp~idsGkik~~Ge~~~d-~W~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl~g~ 244 (341)
T COG4213 167 AKLFFAGAMKVLKPLIDSGKIKVVGEQWTD-GWLPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGLAGK 244 (341)
T ss_pred hHHHHhcHHHHHHHHhhCCceEEeeecccc-ccCHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhcccCCC
Confidence 22333 4445444444446664444333 222222222232222 234555444433 455667778888888643
No 253
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=91.01 E-value=7.6 Score=42.05 Aligned_cols=84 Identities=21% Similarity=0.194 Sum_probs=52.9
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+|+||+... . ...+-..+++.+.++.+ .+++.... +++++++..|.+|++|+++....
T Consensus 93 g~l~Ig~~~~--~-----------~~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~~ 151 (309)
T PRK12683 93 GHLTVATTHT--Q-----------ARYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATEA 151 (309)
T ss_pred ceEEEEeccc--h-----------HHHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecCC
Confidence 5699998631 1 12344567777777664 23455544 56899999999999999886221
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. ....+.+ .|+....+++++++..
T Consensus 152 ~~--~~~~l~~-~~l~~~~~~~v~~~~h 176 (309)
T PRK12683 152 LD--REPDLVS-FPYYSWHHVVVVPKGH 176 (309)
T ss_pred CC--CCCCceE-EEcccCeEEEEecCCC
Confidence 11 1223443 3677778888887654
No 254
>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=90.98 E-value=5.5 Score=39.37 Aligned_cols=69 Identities=19% Similarity=0.264 Sum_probs=44.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-..++..+.++.+ .+++.... ++. ++++.|.+|++|++++.-.. ....+. ..|+....+++++++
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEEcC
Confidence 344567777777764 24455543 335 89999999999999863211 112233 346777888888766
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 54
No 255
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=90.94 E-value=10 Score=41.25 Aligned_cols=207 Identities=12% Similarity=0.124 Sum_probs=123.0
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..+|||++.. + ...+-.+++..+.+..+ .+.+.... ++...++.++.+|++|+++....
T Consensus 93 g~lrIg~~~~--~-----------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~~ 151 (316)
T PRK12679 93 GVLTIATTHT--Q-----------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASER 151 (316)
T ss_pred ceEEEEechH--h-----------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEeccc
Confidence 5799998731 1 23556678888887764 33455543 45778999999999999986321
Q ss_pred eecCcceeeeeccccccccEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCcee
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVT 627 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 627 (940)
.. . ...+. ..++....+++++++..+...
T Consensus 152 ~~-~-~~~l~-~~~l~~~~~~~v~~~~hpl~~------------------------------------------------ 180 (316)
T PRK12679 152 LS-N-DPQLV-AFPWFRWHHSLLVPHDHPLTQ------------------------------------------------ 180 (316)
T ss_pred CC-C-CCCce-EEEccCCcEEEEecCCCcccc------------------------------------------------
Confidence 11 1 22233 357778888888876542100
Q ss_pred ehhhhhhHhhccccccccccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCe-EEEeCchH-
Q 002301 628 IFWFSFSTMFFAHKEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPI-GYQVNSFA- 705 (940)
Q Consensus 628 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i-~~~~gs~~- 705 (940)
...-+++||. +.++ ....+...
T Consensus 181 ------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~~~ 204 (316)
T PRK12679 181 ------------------------------------------------------ITPLTLESIA--KWPLITYRQGITGR 204 (316)
T ss_pred ------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCcHH
Confidence 1223688887 5553 33344332
Q ss_pred ---HHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeC--CccccCcceeecCC
Q 002301 706 ---RNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVG--QVFTKNGWGFAFPR 780 (940)
Q Consensus 706 ---~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k 780 (940)
..++. ..+.........++.+...+++.. |...+++.... .+. . +...+..+. .......+.++.+|
T Consensus 205 ~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~v~~----g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~~~ 276 (316)
T PRK12679 205 SRIDDAFA-RKGLLADIVLSAQDSDVIKTYVAL----GLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGLKR 276 (316)
T ss_pred HHHHHHHH-HcCCCceEEEEeccHHHHHHHHHc----CCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEEeC
Confidence 23332 233332334556788888899998 55456655433 232 1 233455442 23344568888999
Q ss_pred CCcchHHHHHHHHhcccccchHHHHHhhcc
Q 002301 781 DSPLAVDISTAILKLSENGDLQRIHDKWLL 810 (940)
Q Consensus 781 ~spl~~~~~~~il~l~e~G~~~~i~~kw~~ 810 (940)
+.+....+...+..+.+.--++.+.++-+.
T Consensus 277 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 277 GQLQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred CchhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 988878777777766666556666655443
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=90.93 E-value=3 Score=41.34 Aligned_cols=70 Identities=19% Similarity=0.238 Sum_probs=47.0
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .++++... ++. .+++.+.+|++|++++.... ....+. ..|+.+..++++++
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 4566788888888764 34555553 345 78899999999999863221 122233 46777888888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 654
No 257
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=90.89 E-value=5.7 Score=43.41 Aligned_cols=85 Identities=19% Similarity=0.100 Sum_probs=53.9
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
...||||++.. + ...+-.+++..+.+..+ .+++.... ++..+++..+.+|++|+++...
T Consensus 92 ~g~l~Ig~~~~--~-----------~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~~ 150 (324)
T PRK12681 92 KGSLYIATTHT--Q-----------ARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIATE 150 (324)
T ss_pred CCeEEEEechh--H-----------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 35799998731 1 12455677777777764 34555554 5688999999999999998632
Q ss_pred eeecCcceeeeeccccccccEEEEEeccC
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. ......+.+ .|+....+++++++..
T Consensus 151 ~--~~~~~~l~~-~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 151 A--LHLYDDLIM-LPCYHWNRSVVVPPDH 176 (324)
T ss_pred c--ccCCCCeEE-EEeccceeEEEeCCCC
Confidence 1 111222333 4666677777776543
No 258
>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=90.76 E-value=13 Score=36.05 Aligned_cols=71 Identities=15% Similarity=0.137 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ +++++... ++..++...+.+|++|+++..... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 556677888887764 34455553 447889999999999999863322 1222232 356667778877765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 53
No 259
>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=90.49 E-value=0.25 Score=41.06 Aligned_cols=55 Identities=24% Similarity=0.440 Sum_probs=46.1
Q ss_pred cCCceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhhhhhccceeeeeee
Q 002301 622 KRQVVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILT 676 (940)
Q Consensus 622 ~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt 676 (940)
..++.+++|+++.++...| .-.|.+..+|++.+.+.++++.+.....+.+++.++
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 4578999999999999776 347899999999999999999999999888877654
No 260
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=90.36 E-value=13 Score=39.55 Aligned_cols=83 Identities=16% Similarity=0.167 Sum_probs=52.3
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+... -...+..+++..+.+..+ .+++.... +...+++..+.+|++|+++....
T Consensus 89 g~l~i~~~~~-------------~~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~~ 147 (290)
T PRK10837 89 GALRIYASST-------------IGNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEGP 147 (290)
T ss_pred CeEEEEecch-------------hHhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecCC
Confidence 4689988731 122445677788888763 23455543 44788999999999999986322
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. ....+. ..|+....+++++++..
T Consensus 148 ~---~~~~~~-~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 148 C---HSPELI-SEPWLEDELVVFAAPDS 171 (290)
T ss_pred C---CCCcee-EEEeecceEEEEEcCCC
Confidence 1 112222 35666777888877554
No 261
>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=90.33 E-value=16 Score=38.04 Aligned_cols=143 Identities=6% Similarity=0.013 Sum_probs=86.7
Q ss_pred HHHHHhcCcEEEE--cCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH--cCC
Q 002301 89 ALHLMEGQTVAII--GPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH--YGW 164 (940)
Q Consensus 89 a~~li~~~v~aii--Gp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~--~~w 164 (940)
..+.++.+|.++| ++..+. ..........++|+|...-..+. ...++ ....++..-+..+++.+.. .|-
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~--~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~ 117 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNE--IQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKY 117 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCc--HHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCC
Confidence 3444456777665 332222 11344556678999987543221 11233 3455666777778888877 899
Q ss_pred eEEEEEEEcC-CcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHH
Q 002301 165 REVIAIYVDD-DHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQY 243 (940)
Q Consensus 165 ~~v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~ 243 (940)
+++++|.... ..++...+.+++.+++.|+.... .. .... .. + .++++ |++.+...+..+++++++
T Consensus 118 ~~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~~~~----~~---~--~~~~a-i~~~~d~~A~g~~~~l~~ 183 (247)
T cd06276 118 KKLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-DYEN----RE---I--EKGDL-YIILSDTDLVFLIKKARE 183 (247)
T ss_pred CEEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-ccch----hh---c--cCCcE-EEEeCHHHHHHHHHHHHH
Confidence 9999997543 34567788999999999976431 11 0010 00 1 12354 555566778889999999
Q ss_pred cCCCCCCeE
Q 002301 244 LGMLGTGYV 252 (940)
Q Consensus 244 ~g~~~~~~~ 252 (940)
.|+..|+-+
T Consensus 184 ~g~~iP~di 192 (247)
T cd06276 184 SGLLLGKDI 192 (247)
T ss_pred cCCcCCcee
Confidence 998766443
No 262
>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=90.15 E-value=16 Score=35.93 Aligned_cols=72 Identities=19% Similarity=0.159 Sum_probs=47.5
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.+..+ .+++.... ++...+...+.+|++|+++..-. ......+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEc
Confidence 4566788888888764 33455543 45778999999999999986221 11122333 45677788888877
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 654
No 263
>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=89.72 E-value=7.3 Score=38.58 Aligned_cols=71 Identities=13% Similarity=0.106 Sum_probs=46.9
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
.++-.+++..+.++.+ .++++... ++..+++++|.+|++|++++.... ....+.. .+..+..++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~~ 79 (200)
T cd08465 12 RLVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPE---LPEELHA-ETLFEERFVCLAD 79 (200)
T ss_pred HHhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEecccc---CCcCeeE-EEeeeccEEEEEe
Confidence 3556678888877654 34555553 558999999999999999863221 1222333 4566777888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~h 82 (200)
T cd08465 80 RAT 82 (200)
T ss_pred CCC
Confidence 643
No 264
>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=89.72 E-value=15 Score=36.05 Aligned_cols=72 Identities=19% Similarity=0.179 Sum_probs=47.9
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
.++..+++..+.++.+ .+++.... ++...+++.+.+|++|+++..-.. .....+. +.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~ 80 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPELV-SFPYYDWHHHIIVP 80 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCcE-EeeccccceeEEec
Confidence 3566788888888864 24455543 457889999999999999862111 1122232 46777788888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (198)
T cd08444 81 VGH 83 (198)
T ss_pred CCC
Confidence 654
No 265
>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=89.65 E-value=13 Score=36.64 Aligned_cols=71 Identities=14% Similarity=0.130 Sum_probs=46.9
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .++++... +....++..|.+|++|+++... +.....+. ..+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 79 (200)
T cd08467 12 VALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLVR 79 (200)
T ss_pred HHHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEEc
Confidence 3455678888888765 34566554 4467899999999999998532 11122233 35777888888886
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~h 82 (200)
T cd08467 80 HGH 82 (200)
T ss_pred CCC
Confidence 543
No 266
>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=89.64 E-value=9.5 Score=37.42 Aligned_cols=70 Identities=11% Similarity=0.082 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
++-.+++..+.++.+ .+++.... ++...++..+.+|++|+++.... .....+ -..+.....++++++.
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 556677888887764 34455553 44678899999999999986321 112223 2357777788777765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 43
No 267
>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=89.51 E-value=10 Score=37.30 Aligned_cols=70 Identities=14% Similarity=0.205 Sum_probs=45.3
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .++++... ++..+++..+.+|++|+++.... .....+. ..++.+..+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEecC
Confidence 356677888887764 34455553 45788999999999999986321 1112222 345667778888765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 53
No 268
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=89.50 E-value=2 Score=46.92 Aligned_cols=67 Identities=16% Similarity=0.158 Sum_probs=45.0
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHH---HhhhCCCccC--cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHH
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYL---VDELNIDESR--LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELF 755 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l---~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~ 755 (940)
+.|++++||+ |++|++..++.....+ .+..+.+... ++.. ...+...++.+ |.+||+....++....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~Al~~----G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNL-QPPAIIAAWQR----GDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEEC-CcHHHHHHHHc----CCcCEEEEcchHHHHH
Confidence 3599999998 9999998766443322 1334444332 3333 46788899999 8999988777765433
No 269
>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=89.44 E-value=1.3 Score=46.51 Aligned_cols=102 Identities=13% Similarity=0.074 Sum_probs=62.1
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHH-HhcCC
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELF-LSTRC 760 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~-~~~~~ 760 (940)
.+|++++||. |+++.+..++.....++ ..+ ...+ ..+..|...+|++ |.+|+++........+ +.+..
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 5799999998 99999988776677774 343 2333 4578899999999 8999988765433211 11222
Q ss_pred cEEEeCCccccCcceeecCCCCc--chHHHHHHHHhc
Q 002301 761 EFSIVGQVFTKNGWGFAFPRDSP--LAVDISTAILKL 795 (940)
Q Consensus 761 ~l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~il~l 795 (940)
++..... .......+.+.++.- |-+....+|.+.
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 3322222 223445566666532 555555555443
No 270
>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=89.30 E-value=13 Score=36.22 Aligned_cols=71 Identities=13% Similarity=0.135 Sum_probs=47.0
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.+..+ .++++... +....+++++.+|++|+++.... .....+. +.+.....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~ 79 (196)
T cd08456 12 QSFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTL---HEPPGIE-RERLLRIDGVCVLP 79 (196)
T ss_pred HhhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecC---CCCCCee-EEEeeccCeEEEec
Confidence 3456688888888874 34566654 45778899999999999986321 1122232 45667778888776
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 80 ~~~ 82 (196)
T cd08456 80 PGH 82 (196)
T ss_pred CCC
Confidence 543
No 271
>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=89.20 E-value=19 Score=34.96 Aligned_cols=72 Identities=13% Similarity=0.001 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+...++..+.++.+ .+++.... ++..+++..+.+|++|++++...... +...+. ..++....++++++.
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 456678888888764 34455554 45788999999999999986332110 122232 356677778887765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 53
No 272
>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=89.05 E-value=13 Score=36.43 Aligned_cols=73 Identities=18% Similarity=0.124 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeee--cCcceeeeeccccccccEEEEE
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAII--TNRTKMADFTQPYIESGLVVVA 571 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t--~~R~~~v~ft~p~~~~~~~~vv 571 (940)
.+..+++..+.+..+ .+++.... ++...++..+.+|++|+++...... ......+ ...+..+..+++++
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 455677888888764 34455554 4467899999999999998632110 1122223 35667778888888
Q ss_pred eccC
Q 002301 572 PVRK 575 (940)
Q Consensus 572 ~~~~ 575 (940)
++..
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 7654
No 273
>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=88.92 E-value=19 Score=35.82 Aligned_cols=71 Identities=11% Similarity=0.141 Sum_probs=44.8
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .++++... ++...++..|.+|++|+++........-...+ ...|+.+..++++++.
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 455677888887764 34455554 56899999999999999885322111100112 1347777777777654
No 274
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=88.78 E-value=15 Score=39.81 Aligned_cols=84 Identities=19% Similarity=0.189 Sum_probs=54.1
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+... + ...+-.+++..+.+..+ .+++.... ++.+.+++.+.+|++|++++.-.
T Consensus 93 g~l~Ig~~~~--~-----------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~ 151 (309)
T PRK12682 93 GTLTIATTHT--Q-----------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATES 151 (309)
T ss_pred CeEEEeeCch--H-----------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecCc
Confidence 4689988631 1 23456677888887764 23455443 44688999999999999986322
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. .....++ +.|+....+++++++..
T Consensus 152 ~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 152 L--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred c--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 1 1122333 35777888888887654
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=88.47 E-value=17 Score=35.54 Aligned_cols=69 Identities=13% Similarity=0.103 Sum_probs=44.6
Q ss_pred eeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 495 FCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 495 ~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
+-.+++..+.++.+- ++++... ++...+...|.+|++|+++..-. .....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDP---LPLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCC---cCCCCcE-EEEccCCcEEEEEcCC
Confidence 446778888887652 3455543 44778999999999999986221 1122232 3466777788877655
Q ss_pred C
Q 002301 575 K 575 (940)
Q Consensus 575 ~ 575 (940)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 3
No 276
>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=88.32 E-value=2.3 Score=44.70 Aligned_cols=86 Identities=16% Similarity=0.093 Sum_probs=68.1
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHHH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHVV 112 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~v 112 (940)
+||.+.+...........|+...++..| |+.++...+..+-.|+..+.+.+..++++++.+|.+.. +. ..+
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 6999988875555566789999999888 56677777777778999999999999999999888766 22 345
Q ss_pred HHhhccCCccEEeee
Q 002301 113 SHVANELQVPLLSFS 127 (940)
Q Consensus 113 a~~~~~~~vP~Is~~ 127 (940)
...+.+.++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 567778899999765
No 277
>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=88.30 E-value=41 Score=36.31 Aligned_cols=199 Identities=12% Similarity=0.033 Sum_probs=101.1
Q ss_pred EEEEEEeecC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC-CHHHHHHHHHHHHhcCcEEEEcCCCch
Q 002301 32 VNIGALLSFS---TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNH-SGFLALAEALHLMEGQTVAIIGPQDAV 107 (940)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~s~ 107 (940)
.++++++|-. ..+.+....|++.+.++. +|.++.... ... ++........++.+++...||++.. .
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-------~~i~~~~~e--~~~~~~~~~~~~~~~~~~~g~dlIi~~g~-~ 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-------DGIEIIYVE--NVPETDADYEEAIRQLADQGYDLIIGHGF-E 71 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-------TTEEEEEEE--S-S-TCHHHHHHHHHHHHTT-SEEEEESG-G
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-------CCceEEEEe--cCCccHHHHHHHHHHHHHcCCCEEEEccH-H
Confidence 4677777664 223333444555444442 244544433 333 4555566677788888888888443 4
Q ss_pred hHHHHHHhhccC-CccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEE---E-cCCcchhhHH
Q 002301 108 TSHVVSHVANEL-QVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIY---V-DDDHGRNGIA 182 (940)
Q Consensus 108 ~a~~va~~~~~~-~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~---~-d~~~g~~~~~ 182 (940)
...++..++.++ ++-++...+......++-..+.||... ..+++-.+|.++..- .+++.|. . +.+.-.....
T Consensus 72 ~~~~~~~vA~~yPd~~F~~~d~~~~~~~~Nv~~~~f~~~e-~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~ 148 (306)
T PF02608_consen 72 YSDALQEVAKEYPDTKFIIIDGYIDAPEPNVISITFREEE-ASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFIN 148 (306)
T ss_dssp GHHHHHHHHTC-TTSEEEEESS---ST-TTEEEEEE-HHH-HHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHH
T ss_pred HHHHHHHHHHHCCCCEEEEEecCcCCCCCcEEEEEccccc-hhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHH
Confidence 445667778777 555554433322211122234444432 123344444444443 4777777 3 4444445666
Q ss_pred HHHHHHhcCc--eeEEEeecCCCC-CChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 183 ALGDTLAAKR--CRISFKAPLSVE-ATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 183 ~l~~~l~~~g--~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
.|..-++..+ +++... +... .+...-...-..+-..++|||+-.+. .....++++|++.|.
T Consensus 149 gF~~Ga~~~np~i~v~~~--~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 149 GFIAGAKYVNPDIKVNVS--YTGSFNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHTTTT-EEEEE--E-SSSS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCceEEEE--EcCCcCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHHcCC
Confidence 7777665543 443322 2211 13333344455566689999988655 556678999999884
No 278
>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=88.03 E-value=17 Score=35.41 Aligned_cols=72 Identities=22% Similarity=0.263 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .+++.... ++.+.+++.+.+|++|+++..-.. ......+ .+.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPP-FPLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCC-CccccCc-eEEEcccCcEEEEECC
Confidence 455678888887774 34455553 457899999999999999863211 1101223 2456777888888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 53
No 279
>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=88.00 E-value=20 Score=34.96 Aligned_cols=70 Identities=13% Similarity=0.119 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .+++.... ....++...+.+|++|+++... +.....+. ..++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEecC
Confidence 445678888887764 34565554 3467899999999999998632 22222232 356777788888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
+.
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 54
No 280
>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=87.96 E-value=24 Score=34.56 Aligned_cols=70 Identities=20% Similarity=0.164 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|+++...... ...+. +.++.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGLT-TEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCce-EEEeccCceEEEecC
Confidence 455678888888775 34455553 4467789999999999998632211 12222 356677778888765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
.-
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 281
>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=87.80 E-value=28 Score=33.90 Aligned_cols=70 Identities=19% Similarity=0.237 Sum_probs=45.2
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.++.+ .+++.... ++..++...+.+|++|+++... +.....+. ..++.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~~ 79 (196)
T cd08457 12 NGFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADG---PLEERQGF-LIETRSLPAVVAVP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEecc---CCCCCCcE-EEEeccCCeEEEee
Confidence 3456788888888775 34455553 3357888999999999998632 22222232 34566777777776
Q ss_pred cc
Q 002301 573 VR 574 (940)
Q Consensus 573 ~~ 574 (940)
+.
T Consensus 80 ~~ 81 (196)
T cd08457 80 MG 81 (196)
T ss_pred CC
Confidence 54
No 282
>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=87.78 E-value=25 Score=34.14 Aligned_cols=70 Identities=13% Similarity=0.053 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .++++... ++..++...+.+|++|+++... ......+. +.++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEeeC
Confidence 556788888888774 34455554 4588999999999999987522 22222232 456777788887765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 43
No 283
>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=87.60 E-value=5 Score=40.74 Aligned_cols=72 Identities=8% Similarity=-0.051 Sum_probs=40.3
Q ss_pred cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCc-cccCcceeecCCCCcchHHHHHHHHhcc
Q 002301 720 LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQV-FTKNGWGFAFPRDSPLAVDISTAILKLS 796 (940)
Q Consensus 720 ~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~k~spl~~~~~~~il~l~ 796 (940)
+....+..+..+.+.+ |++++.+......... ........+++. .....+++++.|+++-.+.-.+.|..+.
T Consensus 132 ~~~~~~~~~~~~~~~~----Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~ 204 (216)
T TIGR01256 132 LVYGEDVRQALQFVET----GNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLK 204 (216)
T ss_pred eeecCcHHHHHHHHHc----CCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHc
Confidence 3334566788888988 8888877654332211 122333333333 3334578888898875444444444433
No 284
>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=87.47 E-value=23 Score=34.66 Aligned_cols=72 Identities=8% Similarity=0.055 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .++++... ++...+.+.+.+|++|+++... ........++ ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~~~~~~ 82 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFMIIVSK 82 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEEEEecC
Confidence 455677888888765 34566554 4578899999999999998632 1111223343 356777888888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 54
No 285
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=87.05 E-value=12 Score=40.50 Aligned_cols=83 Identities=19% Similarity=0.208 Sum_probs=51.2
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+++||++. ... ...+..+++..+.++.+ .+++.+.. +....+...|.+|++|+++..-.
T Consensus 91 g~l~I~~~~--~~~----------~~~~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~~~ 150 (305)
T PRK11233 91 GQVSIGLAP--GTA----------ASSLTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIYEH 150 (305)
T ss_pred ceEEEEccc--chh----------hHHHHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEcCC
Confidence 468998852 110 12344567888888763 34455543 34678899999999999986321
Q ss_pred eecCcceeeeeccccccccEEEEEecc
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
.....+ ...|+.+..+++++++.
T Consensus 151 ---~~~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 151 ---SPVAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred ---cCCCCc-EEEEEeeeeEEEEEcCc
Confidence 111223 24577777888777654
No 286
>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=86.88 E-value=4.6 Score=41.52 Aligned_cols=195 Identities=18% Similarity=0.108 Sum_probs=115.8
Q ss_pred eeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcC-cccEEeeceeeecCc---ceeee--eccccccc
Q 002301 492 TSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAG-VYDAAVGDIAIITNR---TKMAD--FTQPYIES 565 (940)
Q Consensus 492 ~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g-~~Di~~~~~~~t~~R---~~~v~--ft~p~~~~ 565 (940)
..+..-++.+...+.-|+++++.+. .-..+...|..| ++|+.+.+-....++ ...+. -..|+..+
T Consensus 9 ~~~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~ 79 (230)
T PF13531_consen 9 LAPALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARS 79 (230)
T ss_dssp GHHHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEE
T ss_pred HHHHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccC
Confidence 3455567888888888888666654 367888888887 689887754222111 12333 56788888
Q ss_pred cEEEEEeccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeehhhhhhHhhcccccccc
Q 002301 566 GLVVVAPVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIFWFSFSTMFFAHKEKTV 645 (940)
Q Consensus 566 ~~~~vv~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 645 (940)
.+++++++..+
T Consensus 80 ~~vl~~~~~~~--------------------------------------------------------------------- 90 (230)
T PF13531_consen 80 PLVLAVPKGNP--------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEEEETTST---------------------------------------------------------------------
T ss_pred ceEEEeccCcc---------------------------------------------------------------------
Confidence 89999987761
Q ss_pred ccchhhhHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhCCCCeEEEeCc------hHHHHHHhhhC---CC
Q 002301 646 SALGRLVLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSSNYPIGYQVNS------FARNYLVDELN---ID 716 (940)
Q Consensus 646 s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~~~~i~~~~gs------~~~~~l~~~~~---~~ 716 (940)
..+.+++||.+.+.+|++.... .....+.+ .+ .-
T Consensus 91 ------------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~-~g~~~~~ 133 (230)
T PF13531_consen 91 ------------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAA-AGGQELL 133 (230)
T ss_dssp ------------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHH-HTHCHHH
T ss_pred ------------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHHH-cccHHHH
Confidence 4788899998777788887621 12223322 11 00
Q ss_pred ---ccCcc-cCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCc--EEEeCCccc--cCcceeecCCCCcchHHH
Q 002301 717 ---ESRLV-PLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCE--FSIVGQVFT--KNGWGFAFPRDSPLAVDI 788 (940)
Q Consensus 717 ---~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~--l~~~~~~~~--~~~~~~~~~k~spl~~~~ 788 (940)
..++. ..++..+....+.+ |..++.+.......+. .+..+ +....+... ...+.+++.++++-.+.-
T Consensus 134 ~~l~~~~~~~~~~~~~~~~~v~~----g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a 208 (230)
T PF13531_consen 134 DALQKNIVQYVPSTSQVLSAVAS----GEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAA 208 (230)
T ss_dssp HHHHHTEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHH
T ss_pred HHHHHhCcccccchHHHHHHHHc----CCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHH
Confidence 12333 34677888999998 7888888766655322 22223 334444444 245778888888655555
Q ss_pred HHHHHhcccccchHHHHHh
Q 002301 789 STAILKLSENGDLQRIHDK 807 (940)
Q Consensus 789 ~~~il~l~e~G~~~~i~~k 807 (940)
...+..|... .-+++..+
T Consensus 209 ~~f~~~L~s~-~~q~~l~~ 226 (230)
T PF13531_consen 209 RAFIDFLLSP-EGQQILAK 226 (230)
T ss_dssp HHHHHHHTSH-HHHHHHHH
T ss_pred HHHHHHHCCH-HHHHHHHH
Confidence 5555555443 34454443
No 287
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=86.74 E-value=20 Score=38.87 Aligned_cols=81 Identities=10% Similarity=0.110 Sum_probs=53.5
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+++||+... . ...+-..++..+.+..+ ++++... .+++++..|.+|++|++++...
T Consensus 117 ~~l~Ig~~~~--~-----------~~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~ 173 (317)
T PRK11482 117 RTITIATTPS--V-----------GALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDTHS 173 (317)
T ss_pred ceEEEEecHH--H-----------HHHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEeccC
Confidence 5799998731 1 12355677777877765 3444432 2568999999999999986432
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
...+.+.+ .|+....++++++...
T Consensus 174 ---~~~~~~~~-~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 174 ---CSNRTIQH-HVLFTDNVVLVCRQGH 197 (317)
T ss_pred ---CCCCceEE-EEEecCcEEEEEeCCC
Confidence 22333443 5777888888887664
No 288
>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=86.73 E-value=18 Score=36.23 Aligned_cols=70 Identities=11% Similarity=0.117 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.++.+ .+++.... .+...+.+.+.+|++|++++.. ......+. ..|.....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIF---EQIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecC---CCCCccce-eeeeeccceEEEEeC
Confidence 455677888877765 34455553 4577899999999999998632 22223343 457777888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 54
No 289
>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=86.46 E-value=1.6 Score=41.86 Aligned_cols=98 Identities=10% Similarity=0.077 Sum_probs=63.1
Q ss_pred HHHHHHcCCeEEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHH-HHHhcCCCeEEEEEecCC
Q 002301 156 AEIVDHYGWREVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLL-VKVALTESRIIVVHTHYN 232 (940)
Q Consensus 156 ~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l-~~l~~~~~~viv~~~~~~ 232 (940)
++.+...|-+++++|..+ ..+.....+.|++++++.|+.......... ....+..... ..++...++.||. ++..
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 466778899999999933 334556688999999999987554333332 2333332222 2344346776665 5567
Q ss_pred cHHHHHHHHHHcCCCCCCeEEEe
Q 002301 233 RGPVVFHVAQYLGMLGTGYVWIA 255 (940)
Q Consensus 233 ~~~~~l~~a~~~g~~~~~~~wi~ 255 (940)
.+..+++++.+.|+..|+-+.+.
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHcCCcccccccEE
Confidence 78889999999998765433333
No 290
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=86.14 E-value=28 Score=38.07 Aligned_cols=84 Identities=15% Similarity=0.113 Sum_probs=55.8
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..+|||+... -...+-.++++.+.++.+ .+.+.+.. +..++++.+|.+|++|+++....
T Consensus 93 g~lrIg~~~~-------------~~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 151 (327)
T PRK12680 93 GQLTLTTTHT-------------QARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVSTA 151 (327)
T ss_pred eEEEEEecch-------------hHHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEecC
Confidence 5799998742 123455688888888876 34455554 55789999999999999985321
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. ....... ..|+....++++++...
T Consensus 152 ~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 152 G--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred C--CCCCcce-EEEeeccceEEEEeCCC
Confidence 1 1111222 46788888888887654
No 291
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=86.12 E-value=18 Score=39.13 Aligned_cols=85 Identities=19% Similarity=0.311 Sum_probs=54.6
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||++.. . ...+-.+++..+.+..+ .+++.... ++..+++.+|.+|++|+++....
T Consensus 97 ~~l~ig~~~~--~-----------~~~~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 155 (312)
T PRK10341 97 VDVSFGFPSL--I-----------GFTFMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTLS 155 (312)
T ss_pred eEEEEEechH--H-----------hHhhHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecCC
Confidence 4688888631 1 12344577888887654 34566654 45789999999999999986322
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. .....+ -..|+.+..+++++++..
T Consensus 156 ~~-~~~~~l-~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 156 NE-MKLQDL-HVEPLFESEFVLVASKSR 181 (312)
T ss_pred cc-cccCCe-eEEEEecccEEEEEcCCC
Confidence 11 111222 346777788888887654
No 292
>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=85.87 E-value=35 Score=33.02 Aligned_cols=70 Identities=19% Similarity=0.226 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+..+++..+.+..+ .+++.... ++...+...+.+|++|+++.... .....+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPP---PDPPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCC---CCCCCee-EEEEeeccEEEEecC
Confidence 445677778877764 34455543 45788999999999999986322 1122232 356777888888876
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 293
>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=85.86 E-value=27 Score=34.39 Aligned_cols=70 Identities=13% Similarity=0.054 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .+++.... ++...++..+.+|++|+++... ......++ +.++.+..+++++++
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 455677888887764 34455554 5689999999999999998522 11122232 456667788888875
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 43
No 294
>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=85.69 E-value=13 Score=38.81 Aligned_cols=121 Identities=14% Similarity=0.088 Sum_probs=64.1
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHH---HHhhhCCC------------------c--cCcccCCCHHHHHHHhhcCCC
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNY---LVDELNID------------------E--SRLVPLNSPEEYAKALKDGPH 738 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~---l~~~~~~~------------------~--~~~~~~~~~~~~~~~l~~~~~ 738 (940)
.++++++||.+ |.+|++..+...... +.++.+.. . -++++. ...+...++.+
T Consensus 106 ~~~~sl~dlk~-G~~IAip~d~~n~~raL~~L~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~--- 180 (258)
T TIGR00363 106 KKIKNVNELQD-GAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDD--- 180 (258)
T ss_pred cCCCCHHHcCC-CCEEEEeCCcchHHHHHHHHHHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhc---
Confidence 68999999953 788999876543322 12333331 1 123333 45567788888
Q ss_pred CCceEEEEechhhHHHHHhcC-CcEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhh
Q 002301 739 KGGVAAVVDDRAYAELFLSTR-CEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKW 808 (940)
Q Consensus 739 ~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw 808 (940)
|++|+++...+++.-...+. -+-......-.+.-..++++++.-=.+.+.+.+..+++...-+.|.++|
T Consensus 181 -g~vDaa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 181 -PKVDLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred -ccccEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 88999988877665431221 1111111111111234555554333455555555566554544555553
No 295
>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=85.53 E-value=35 Score=33.51 Aligned_cols=71 Identities=20% Similarity=0.263 Sum_probs=47.1
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
.++..+++..+.++.+ .++++... ++..+++..+.+|++|++++.... ....+. ..|+....++++++
T Consensus 13 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 80 (203)
T cd08445 13 YGLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRI---EDPAIR-RIVLREEPLVVALP 80 (203)
T ss_pred HhHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCC---CCCCce-eEEEEeccEEEEee
Confidence 3566778888888765 34455553 447899999999999999863221 112233 44667778888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (203)
T cd08445 81 AGH 83 (203)
T ss_pred CCC
Confidence 653
No 296
>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=85.36 E-value=1.6 Score=46.77 Aligned_cols=89 Identities=16% Similarity=0.229 Sum_probs=56.8
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHH-HhcCC
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELF-LSTRC 760 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~-~~~~~ 760 (940)
.+|++++||+ |.++.+..+.....++ +.++.. .+.. ...|...+|++ |.+|+........... +.+.+
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa~---pv~i-p~~evy~aLq~----G~vDg~~~~~~~~~~~~~~ev~ 194 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGAS---PVPI-PWSEVYQALQQ----GVVDGAENSASSIYSLGLYEVA 194 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHH-HHCTSE---EEE--TGGGHHHHHHT----TSSSEEEEEHHHHHHTTGGGTS
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHH-HHcCCe---eecC-cHHHHHHHHhc----CCcCeEecCHHHHHhcChhhhC
Confidence 6899999998 8888888666666666 445533 2333 46789999999 8999998877655221 22345
Q ss_pred cEEEeCCccccCcceeecCCCC
Q 002301 761 EFSIVGQVFTKNGWGFAFPRDS 782 (940)
Q Consensus 761 ~l~~~~~~~~~~~~~~~~~k~s 782 (940)
++.+... ....++.+++.+..
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~ 215 (286)
T PF03480_consen 195 KYFTDTN-HGWSPYAVIMNKDW 215 (286)
T ss_dssp SEEEEEE-EEEEEEEEEEEHHH
T ss_pred CeeEeec-ccCcceEEEEcHHH
Confidence 6554433 44455666676654
No 297
>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=85.23 E-value=12 Score=36.37 Aligned_cols=99 Identities=11% Similarity=0.054 Sum_probs=66.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC--ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEE
Q 002301 151 QMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK--RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVH 228 (940)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~ 228 (940)
....+.+.+...++ ++.++..+.+. ++.+.+.+++. |+.|+....-+ .+..+...+++.|+++++|+|++.
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~~----~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~vg 108 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEEV----LEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVFVG 108 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHHH----HHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEEE
Confidence 45666666666666 77788766653 44455555554 67777543332 356788899999999999999999
Q ss_pred ecCCcHHHHHHHHHHcCCCCCCeEEEecCcc
Q 002301 229 THYNRGPVVFHVAQYLGMLGTGYVWIATSWL 259 (940)
Q Consensus 229 ~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 259 (940)
+..+.-..++.+.++.. ... +|+..+..
T Consensus 109 lG~PkQE~~~~~~~~~l--~~~-v~i~vG~~ 136 (172)
T PF03808_consen 109 LGAPKQERWIARHRQRL--PAG-VIIGVGGA 136 (172)
T ss_pred CCCCHHHHHHHHHHHHC--CCC-EEEEECch
Confidence 88887777776666543 222 77776543
No 298
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=84.53 E-value=13 Score=39.35 Aligned_cols=67 Identities=19% Similarity=0.336 Sum_probs=41.4
Q ss_pred CCCCChhHhhhCCCCeEEEeCc-hHH---HHHHhhhCC--------------------CccCcccCCCHHHHHHHhhcCC
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNS-FAR---NYLVDELNI--------------------DESRLVPLNSPEEYAKALKDGP 737 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs-~~~---~~l~~~~~~--------------------~~~~~~~~~~~~~~~~~l~~~~ 737 (940)
..|++++||.+ |.+|++.... ... .+| ++.+. ..-++++. ...+...++.+
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 KKIKSLDELQD-GSQVAVPNDPTNLGRSLLLL-QKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDD-- 193 (271)
T ss_pred cCCCCHHHhcC-CCEEEecCCCccHHHHHHHH-HHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccc--
Confidence 57999999963 7789988532 222 122 22222 01123333 45677788887
Q ss_pred CCCceEEEEechhhHHHH
Q 002301 738 HKGGVAAVVDDRAYAELF 755 (940)
Q Consensus 738 ~~g~~~a~~~~~~~~~~~ 755 (940)
|.+|+++...+++...
T Consensus 194 --g~vDaa~i~~~~a~~a 209 (271)
T PRK11063 194 --AQIALAVINTTYASQI 209 (271)
T ss_pred --ccccEEEEChHHHHHc
Confidence 8999999888877643
No 299
>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=84.09 E-value=43 Score=32.51 Aligned_cols=72 Identities=19% Similarity=0.136 Sum_probs=47.1
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .++++... +++..++.++.+|++|+++...... ....+. ..++.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~ 80 (199)
T cd08430 12 YSFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAP 80 (199)
T ss_pred eeeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEe
Confidence 3566788899998874 34455553 4588899999999999998632111 112233 35666777777776
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~~ 83 (199)
T cd08430 81 NIA 83 (199)
T ss_pred CCc
Confidence 553
No 300
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=83.91 E-value=5.4 Score=43.78 Aligned_cols=71 Identities=24% Similarity=0.273 Sum_probs=49.1
Q ss_pred CCCCChhHhhhCCCCeEEEeCch-HHHHHH---hhhCCCccC--cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHH
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSF-ARNYLV---DELNIDESR--LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELF 755 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~-~~~~l~---~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~ 755 (940)
.+|++++||+ |+++|+..++. ....+. ...+..... ++.. .+.+...++.. |.+||+....++....
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 6888999998 99999998874 333222 334444333 3334 45588889988 8999988888777665
Q ss_pred HhcC
Q 002301 756 LSTR 759 (940)
Q Consensus 756 ~~~~ 759 (940)
..+.
T Consensus 199 ~~~~ 202 (335)
T COG0715 199 EGEG 202 (335)
T ss_pred hccC
Confidence 5554
No 301
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=83.21 E-value=50 Score=32.61 Aligned_cols=88 Identities=13% Similarity=0.026 Sum_probs=64.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC-------CChhHHHHHHHHHhcCCCeEE
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE-------ATEDEITDLLVKVALTESRII 225 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~~~~~~vi 225 (940)
.|.++-++.++-+++.++. +|-...-+...+.++++|++|+....+... ......-++.+++..-++|.|
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 4577778999999999996 566667788888999999999876544321 112334455667777899999
Q ss_pred EEEecCCcHHHHHHHHHH
Q 002301 226 VVHTHYNRGPVVFHVAQY 243 (940)
Q Consensus 226 v~~~~~~~~~~~l~~a~~ 243 (940)
++.|..--...++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 999887666666666554
No 302
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=83.01 E-value=8.9 Score=42.20 Aligned_cols=92 Identities=10% Similarity=-0.010 Sum_probs=72.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 152 MAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
...+.+.++.+|++++.+|.+..-......+.+.+.|++.|+.+..-..+.+++..+....-+..+++.++|.||-.+.+
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 35567778899999999998776666778999999999999887766677777788889999999999999999988544
Q ss_pred --CcHHHHHHHHHH
Q 002301 232 --NRGPVVFHVAQY 243 (940)
Q Consensus 232 --~~~~~~l~~a~~ 243 (940)
-++.+.+....+
T Consensus 97 S~~D~AK~i~~~~~ 110 (377)
T COG1454 97 SVIDAAKAIALLAE 110 (377)
T ss_pred cHHHHHHHHHHHhh
Confidence 455555544443
No 303
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=82.18 E-value=17 Score=39.35 Aligned_cols=84 Identities=8% Similarity=0.090 Sum_probs=55.4
Q ss_pred CceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeece
Q 002301 467 GRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDI 546 (940)
Q Consensus 467 g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~ 546 (940)
+..++||+... ...++-.+++..+.++.+ .+++.+.. ++...++..|.+|++|+++...
T Consensus 111 ~~~i~i~~~~~-------------~~~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~ 169 (314)
T PRK09508 111 ERVFNLCICSP-------------LDIRLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISYE 169 (314)
T ss_pred ccEEEEEechh-------------HHHHHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEecC
Confidence 46788887521 113466788888888874 24455553 4568899999999999998743
Q ss_pred eeecCcceeeeeccccccccEEEEEeccC
Q 002301 547 AIITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 547 ~~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. .....+.+ .++....+++++++..
T Consensus 170 ~---~~~~~l~~-~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 170 E---FDRPEFTS-VPLFKDELVLVASKNH 194 (314)
T ss_pred C---CCccccce-eeeecCceEEEEcCCC
Confidence 2 11223333 4667788888887654
No 304
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=81.91 E-value=44 Score=36.05 Aligned_cols=70 Identities=7% Similarity=0.046 Sum_probs=45.6
Q ss_pred eHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEeccC
Q 002301 496 CIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 496 ~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
-.+++..+.++.+. +++.... ++..++.+.|.+|++|++++. .........+. ..++....+++++++..
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~-~~~~~~~~~l~-~~~l~~~~~~~v~~~~h 177 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGV-TGTEALANTFS-LDPLGSVQWRFVMAADH 177 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEec-ccCccccCCee-EEEecceeEEEEECCCC
Confidence 45778888887764 4555554 446788999999999998862 11111122333 34777778888886553
No 305
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=81.79 E-value=43 Score=36.13 Aligned_cols=83 Identities=13% Similarity=0.155 Sum_probs=50.5
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||++.. . ...+-.+++..+.+..+ .++++... .+-..+...+.+|++|+++....
T Consensus 94 g~l~I~~~~~---~----------~~~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~ 152 (309)
T PRK11013 94 GQLSIACLPV---F----------SQSLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTETL 152 (309)
T ss_pred CcEEEEEcHH---H----------HHhhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcCC
Confidence 3688887621 1 22456778888888763 34455554 33667889999999999986322
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.. ...+. ..++.....++++++..
T Consensus 153 ~~---~~~~~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK11013 153 HT---PAGTE-RTELLTLDEVCVLPAGH 176 (309)
T ss_pred CC---CCCce-eeeecceeEEEEEcCCC
Confidence 11 11222 33555566677776554
No 306
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=81.69 E-value=5.9 Score=44.33 Aligned_cols=88 Identities=6% Similarity=0.016 Sum_probs=64.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|.+++.+++...-...+..+.+.+.|++.|+.+..-..+.+.++.+++......+++.++|+||-.+.+
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 4467778999999999887543333456788999999999876544455555778889999999999999999976543
Q ss_pred -CcHHHHHHH
Q 002301 232 -NRGPVVFHV 240 (940)
Q Consensus 232 -~~~~~~l~~ 240 (940)
-++.+.+..
T Consensus 100 ~iD~AK~ia~ 109 (383)
T PRK09860 100 PHDCAKGIAL 109 (383)
T ss_pred HHHHHHHHHH
Confidence 344444433
No 307
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=81.45 E-value=36 Score=36.42 Aligned_cols=85 Identities=12% Similarity=0.194 Sum_probs=50.8
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..||||+... -..++-.+++..+.+..+ ++++.... ++...+..++.+|++|+++....
T Consensus 93 g~l~i~~~~~-------------~~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~ 151 (296)
T PRK11062 93 LLFDVGVADA-------------LSKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDCP 151 (296)
T ss_pred eEEEEEecch-------------hhHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecCC
Confidence 3689988631 123566777777776553 34454443 45889999999999999875321
Q ss_pred eecCcceeeeeccccccccEEEEEecc
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
........+ ...|+....++++++++
T Consensus 152 ~~~~~~~~l-~~~~l~~~~~~~~~~~~ 177 (296)
T PRK11062 152 VDSTQQEGL-FSKKLGECGVSFFCTNP 177 (296)
T ss_pred Cccccccch-hhhhhhccCcceEecCC
Confidence 111111222 23466666666666543
No 308
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=81.43 E-value=36 Score=36.56 Aligned_cols=85 Identities=12% Similarity=0.026 Sum_probs=52.1
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+... + ...+..+++..+.++.. .+++.... ++..+++..+.+|++|++++...
T Consensus 92 g~l~Ig~~~~--~-----------~~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 150 (300)
T PRK11074 92 GQLSIAVDNI--V-----------RPDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGATR 150 (300)
T ss_pred ceEEEEEcCc--c-----------chhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEecCc
Confidence 5799998632 1 12344577777777765 33455543 44678999999999999987321
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. ......+. ..++....+++++++..
T Consensus 151 ~-~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 151 A-IPVGGRFA-FRDMGMLSWACVVSSDH 176 (300)
T ss_pred c-CCcccccc-eeecccceEEEEEcCCC
Confidence 1 11111222 34566777788876654
No 309
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=80.89 E-value=22 Score=35.35 Aligned_cols=107 Identities=19% Similarity=0.163 Sum_probs=63.1
Q ss_pred CCCCChhHhhhCCCCeE-EEeCchHHHHHHhh---hCCCccCcccC----CCHHHHHHHhhcCCCCCceEEEEechhhHH
Q 002301 682 SPIKGIDSLRSSNYPIG-YQVNSFARNYLVDE---LNIDESRLVPL----NSPEEYAKALKDGPHKGGVAAVVDDRAYAE 753 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~-~~~gs~~~~~l~~~---~~~~~~~~~~~----~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~ 753 (940)
..|++++||.+.+.++. =.+||-....+... .+.....+.-| .+-.....++.+ |+.|+=+.-...+
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~----G~AD~GvGlr~~A- 161 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVAS----GRADAGVGLRHAA- 161 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHc----CCCCccccHHHHH-
Confidence 45899999995544422 23677666655433 22222334434 345567788888 8999888844443
Q ss_pred HHHhcC-CcEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccc
Q 002301 754 LFLSTR-CEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGD 800 (940)
Q Consensus 754 ~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~ 800 (940)
.++ -+|.- +....|-|+.+|+.-=.+.+...+..|...++
T Consensus 162 ---~~~gL~Fip----l~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 162 ---EKYGLDFIP----LGDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred ---HHcCCceEE----cccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 332 24442 34456788888876555555555555555443
No 310
>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=80.74 E-value=65 Score=33.88 Aligned_cols=69 Identities=14% Similarity=0.146 Sum_probs=45.3
Q ss_pred eeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 495 FCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 495 ~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
+-.+++..+.+..+ .++++... ++..+++..+.+|++|+++..-... ...+. ..|+....+++++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCC
Confidence 45577777777665 23455543 4578899999999999998632222 12222 3567778888888765
Q ss_pred C
Q 002301 575 K 575 (940)
Q Consensus 575 ~ 575 (940)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 311
>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=80.52 E-value=58 Score=31.57 Aligned_cols=73 Identities=14% Similarity=0.116 Sum_probs=46.5
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
.++..+++..+.++.+ .+++.... +....+...+.+|++|+++..... +.....+ -+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~ 81 (199)
T cd08416 12 VNTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVP 81 (199)
T ss_pred HhhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEEC
Confidence 3556778888888774 23455543 346788999999999999863211 1112222 245677778888887
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 82 ~~h 84 (199)
T cd08416 82 ATS 84 (199)
T ss_pred CCC
Confidence 653
No 312
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=80.27 E-value=45 Score=36.19 Aligned_cols=83 Identities=11% Similarity=0.090 Sum_probs=52.5
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
.+++||+... . ...+-.+++..+.+..+ .+.++... +.-.++...|.+|++|+++..-
T Consensus 89 g~l~Ig~~~~--~-----------~~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~- 146 (317)
T PRK15421 89 TRLRIAIECH--S-----------CIQWLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD- 146 (317)
T ss_pred eeEEEEeccc--c-----------hHHHHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC-
Confidence 4688888621 0 11244567777877754 34455543 3367889999999999998632
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
....+.+.+ .++....+++++++..
T Consensus 147 --~~~~~~~~~-~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 147 --ILPRSGLHY-SPMFDYEVRLVLAPDH 171 (317)
T ss_pred --cccCCCceE-EEeccceEEEEEcCCC
Confidence 222233443 6777788888887654
No 313
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=79.95 E-value=6.5 Score=44.12 Aligned_cols=79 Identities=10% Similarity=0.050 Sum_probs=59.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
..+.+.++.+|.+++.++....-...+..+.+.+.|++.|+.+.....+.+.++.+.+...++..++.++|+||-.+.+
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGG 116 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGG 116 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCCh
Confidence 4466778899998887776443333456788999999999887654445555677888999999999999999988654
No 314
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=79.87 E-value=86 Score=33.15 Aligned_cols=162 Identities=15% Similarity=0.215 Sum_probs=96.0
Q ss_pred eEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 31 VVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
.=.||.||.-++. .-+.+++.|+-+. +|..+-+--.|++-.-.+.+.-.-+.+.+-+++|.-=..+. .
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~~--~ 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFSH--E 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecccH--H
Confidence 4568999998753 5678889898886 34444444444443333444444555566566666433333 2
Q ss_pred HHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH---HHcC---CeEEEEEEEcCCcchhhHHHH
Q 002301 111 VVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV---DHYG---WREVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 111 ~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l---~~~~---w~~v~ii~~d~~~g~~~~~~l 184 (940)
.+..+++...||+|. .|+|...| .+++++++ .|+| -.+++.+. |. .+....+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vG--Dg--NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVG--DG--NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEc--Cc--chHHHHH
Confidence 667899999999995 35554444 35566663 6665 34555444 32 6677888
Q ss_pred HHHHhcCceeEEEeecCCCCCChhHHHHHHHHH-hcCCCeEEEE
Q 002301 185 GDTLAAKRCRISFKAPLSVEATEDEITDLLVKV-ALTESRIIVV 227 (940)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l-~~~~~~viv~ 227 (940)
.......|..+.....-...+ ..++-...+++ ++++..+.+.
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~~p-~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGYEP-DPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHhCCeEEEECCCcCCc-CHHHHHHHHHHHHhcCCeEEEe
Confidence 888888888776543322222 34455555554 3344444433
No 315
>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=79.84 E-value=62 Score=31.49 Aligned_cols=73 Identities=15% Similarity=0.137 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.+..+ .+++.... +....+...+.+|++|+++............+. +.|.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEEC
Confidence 455677888877764 24455554 447789999999999998863211110112222 456677788888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 316
>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=79.83 E-value=20 Score=34.86 Aligned_cols=100 Identities=12% Similarity=0.017 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec
Q 002301 151 QMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
....+.+.....+ .+|.++....+......+.+++.. -|++|+....-+ ....+-...+++|++.++|+|++.+.
T Consensus 34 l~~~ll~~~~~~~-~~v~llG~~~~~~~~~~~~l~~~y--p~l~i~g~~~g~--~~~~~~~~i~~~I~~~~pdiv~vglG 108 (171)
T cd06533 34 LMPALLELAAQKG-LRVFLLGAKPEVLEKAAERLRARY--PGLKIVGYHHGY--FGPEEEEEIIERINASGADILFVGLG 108 (171)
T ss_pred HHHHHHHHHHHcC-CeEEEECCCHHHHHHHHHHHHHHC--CCcEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEEECC
Confidence 4555666665555 567778766654433333343322 267777643322 23444455899999999999999998
Q ss_pred CCcHHHHHHHHHHcCCCCCCeEEEecCc
Q 002301 231 YNRGPVVFHVAQYLGMLGTGYVWIATSW 258 (940)
Q Consensus 231 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~ 258 (940)
.+.-..++.+.++.. +.-++++.+.
T Consensus 109 ~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 109 APKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred CCHHHHHHHHHHHHC---CCCEEEEece
Confidence 888777777666544 3345665543
No 317
>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=78.93 E-value=65 Score=31.18 Aligned_cols=70 Identities=19% Similarity=0.240 Sum_probs=46.5
Q ss_pred eeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 495 FCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 495 ~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
+..++++.+.++.+ .++++... ++..++...+.+|++|+++...... ....+ .+.++....+++++++.
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 56678888888775 33455553 4578899999999999998632211 11222 34677778888888655
Q ss_pred C
Q 002301 575 K 575 (940)
Q Consensus 575 ~ 575 (940)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 3
No 318
>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=78.79 E-value=8.9 Score=43.42 Aligned_cols=79 Identities=15% Similarity=0.097 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
+.+.++++.+|.+++.+|++..-......+.+.+.|++.|+.+..-..+.+.++.+.+...++..++.++|+||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGG 90 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 4466778899999999888655444445788999999889877644445555677888888899999999999887554
No 319
>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=78.75 E-value=30 Score=34.47 Aligned_cols=102 Identities=20% Similarity=0.190 Sum_probs=62.6
Q ss_pred CCCCChhHhhhCCCCeE-EEeCchHHHHHHhhh---CCCccCcc----cCCCHHHHHHHhhcCCCCCceEEEEechhhHH
Q 002301 682 SPIKGIDSLRSSNYPIG-YQVNSFARNYLVDEL---NIDESRLV----PLNSPEEYAKALKDGPHKGGVAAVVDDRAYAE 753 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~-~~~gs~~~~~l~~~~---~~~~~~~~----~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~ 753 (940)
..|++++||.+.+.++. =..||-...+|...+ +.....+. ...+-.+...+|.. |..|+-+.-...++
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 47999999986666643 346777776664433 23333333 33567788999999 88888887655543
Q ss_pred HHHhcCCcEEEeCCccccCcceeecCCCCcchHHHHHHHH
Q 002301 754 LFLSTRCEFSIVGQVFTKNGWGFAFPRDSPLAVDISTAIL 793 (940)
Q Consensus 754 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il 793 (940)
-+ ..-+|.-+ ....|-++++|..-..+.+.+.|.
T Consensus 157 ~~--~gL~Fvpl----~~E~~dlv~~~~~~~~~~vq~ll~ 190 (193)
T PF12727_consen 157 EF--YGLDFVPL----AEERYDLVIRREDLEDPAVQALLD 190 (193)
T ss_pred hh--cCCCcEEc----cccceEEEEEhhHcCCHHHHHHHH
Confidence 11 12234333 335678888887655555555543
No 320
>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=78.01 E-value=9.5 Score=42.52 Aligned_cols=89 Identities=7% Similarity=-0.052 Sum_probs=64.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.+|.+++.+++..........+.+.+.|++.|+++..-..+.+.++.+.+...+...+..++|.||-.+.+
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 3466778889999998887544433346788999999989887544445555677889999999999999999976443
Q ss_pred -CcHHHHHHHH
Q 002301 232 -NRGPVVFHVA 241 (940)
Q Consensus 232 -~~~~~~l~~a 241 (940)
-++.+++...
T Consensus 93 viD~aK~ia~~ 103 (370)
T cd08192 93 ALDLAKAVALM 103 (370)
T ss_pred HHHHHHHHHHH
Confidence 4555554433
No 321
>PLN02245 ATP phosphoribosyl transferase
Probab=77.85 E-value=16 Score=40.17 Aligned_cols=93 Identities=10% Similarity=0.077 Sum_probs=53.0
Q ss_pred CCCCChhHhhh-------CCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHH
Q 002301 682 SPIKGIDSLRS-------SNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAEL 754 (940)
Q Consensus 682 ~~i~si~dL~~-------~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~ 754 (940)
..+++++||.. ..++|++.--.....||. +.+....+++...-.-|.. -.. |-.|++++=.....-
T Consensus 177 ~~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~-~~Gv~~v~Iv~l~GAvE~A--P~l----GlADaIvDIVsTGtT 249 (403)
T PLN02245 177 ENINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMK-DNGFKHVTFSTADGALEAA--PAM----GIADAILDLVSSGTT 249 (403)
T ss_pred cccCCHHHhcccccccccCceEEEeCCHHHHHHHHH-HcCCCeEEEEECcCceecc--ccc----CchhhhcchhccHHH
Confidence 35788899873 115788777777888884 4455434565554443432 222 556666654443332
Q ss_pred HHhcCCcEEEeC-CccccCcceeecCCCCc
Q 002301 755 FLSTRCEFSIVG-QVFTKNGWGFAFPRDSP 783 (940)
Q Consensus 755 ~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 783 (940)
+-.+ +|.+++ +.+....-.++..|++.
T Consensus 250 LraN--gLk~i~~~~Il~S~A~LIan~~sl 277 (403)
T PLN02245 250 LREN--NLKEIEGGVVLESQAVLVASRRAL 277 (403)
T ss_pred HHHC--CCEEccCceEEEEEEEEEEecchh
Confidence 2222 688885 45555555566666654
No 322
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=77.06 E-value=9.7 Score=42.62 Aligned_cols=86 Identities=9% Similarity=0.061 Sum_probs=61.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|.+++.++....-+-....+.+.+.+++.|+.+..-..+.+.++.+++...+..+++.++|+||-.+.+
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 98 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGS 98 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChH
Confidence 4567788889999998887544333346788999999999876544445545667888888899999999998866543
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-+..+.+
T Consensus 99 ~iD~aK~i 106 (382)
T PRK10624 99 PQDTCKAI 106 (382)
T ss_pred HHHHHHHH
Confidence 3444443
No 323
>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=76.09 E-value=11 Score=42.15 Aligned_cols=88 Identities=11% Similarity=0.063 Sum_probs=63.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.++.+++.+|+...-......+.+.+.+++.|+.+..-..+...++.+++...++.+++.++|+||-.+.+
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 4466778888999998887554333446788999999999877544445555678889999999999999999887544
Q ss_pred -CcHHHHHHH
Q 002301 232 -NRGPVVFHV 240 (940)
Q Consensus 232 -~~~~~~l~~ 240 (940)
-++.+++..
T Consensus 95 ~iD~aK~ia~ 104 (376)
T cd08193 95 SMDVAKLVAV 104 (376)
T ss_pred HHHHHHHHHH
Confidence 344444433
No 324
>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=76.02 E-value=12 Score=41.64 Aligned_cols=88 Identities=7% Similarity=0.007 Sum_probs=64.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
+.+.++++.++.+++.+|+....+.....+.+.+.+++.|+++.....+...++.+++...+..++..++|+||-.+.+
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 4566778888999999888654433366778999999888876644445555678889999999998999999876543
Q ss_pred -CcHHHHHHH
Q 002301 232 -NRGPVVFHV 240 (940)
Q Consensus 232 -~~~~~~l~~ 240 (940)
-++.+++..
T Consensus 92 ~~D~AK~va~ 101 (370)
T cd08551 92 VLDTAKAIAL 101 (370)
T ss_pred HHHHHHHHHH
Confidence 445555443
No 325
>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=75.65 E-value=73 Score=30.81 Aligned_cols=72 Identities=14% Similarity=0.031 Sum_probs=46.4
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+-.+++..+.++.+ .++++... ++.+.++.++.+|++|+++..... .....+ .+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~ 80 (195)
T cd08431 12 LQPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVA 80 (195)
T ss_pred hHHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEc
Confidence 3556788889988875 24455553 346788999999999999863211 111122 245666777887776
Q ss_pred ccC
Q 002301 573 VRK 575 (940)
Q Consensus 573 ~~~ 575 (940)
+..
T Consensus 81 ~~h 83 (195)
T cd08431 81 PNH 83 (195)
T ss_pred CCC
Confidence 653
No 326
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=75.22 E-value=19 Score=38.13 Aligned_cols=96 Identities=9% Similarity=-0.004 Sum_probs=75.1
Q ss_pred CCCCceEEecCChHHHHHHH----HHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHH
Q 002301 136 LQFPYFVRTTQSDQYQMAAI----AEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEIT 211 (940)
Q Consensus 136 ~~~p~~~r~~psd~~~~~ai----~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~ 211 (940)
+..++-|-+.|+....+++. .+-++..|.|++.++.+-+.--.......++.|+++||.+..-....+.++..++.
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~ 117 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVT 117 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHH
Confidence 34567677777776655543 34478899999999987666666678889999999999988777777778888999
Q ss_pred HHHHHHhcCCCeEEEEEecC
Q 002301 212 DLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 212 ~~l~~l~~~~~~viv~~~~~ 231 (940)
..+.-.|..+.|.+|-.+.+
T Consensus 118 ~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHhcccceEEEEcCc
Confidence 99999999999998877543
No 327
>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=75.14 E-value=13 Score=41.50 Aligned_cols=89 Identities=8% Similarity=0.010 Sum_probs=64.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
+.+.+.++.+|-+++.+++..........+.+.+.|++.|+.+..-..+.+.++.+.+...+..+++.++|+||-.+.+
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 94 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGGS 94 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 4466778888888998887544333345788999999999876654455555677889999999999999999976543
Q ss_pred -CcHHHHHHHH
Q 002301 232 -NRGPVVFHVA 241 (940)
Q Consensus 232 -~~~~~~l~~a 241 (940)
-++.+++...
T Consensus 95 ~~D~aK~ia~~ 105 (374)
T cd08189 95 VIDCAKAIAAR 105 (374)
T ss_pred HHHHHHHHHHH
Confidence 4555554433
No 328
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=74.84 E-value=40 Score=35.58 Aligned_cols=120 Identities=9% Similarity=0.115 Sum_probs=59.8
Q ss_pred CCCCChhHhhhCCCCeEEEe--CchHHHH-HHhhhC---------C-----------CccCcccCCCHHHHHHHhhcCCC
Q 002301 682 SPIKGIDSLRSSNYPIGYQV--NSFARNY-LVDELN---------I-----------DESRLVPLNSPEEYAKALKDGPH 738 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~--gs~~~~~-l~~~~~---------~-----------~~~~~~~~~~~~~~~~~l~~~~~ 738 (940)
.+|++++||.+ |.+|++.. +...+.+ +.+..+ . .+-++++. ...+...++.+
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 KKIKTVAQIKE-GATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMEL-EGAQLPRVLDD--- 194 (272)
T ss_pred cCCCCHHHcCC-CCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEc-CHHHhHhhccC---
Confidence 68999999964 77899986 3322222 222211 1 11122222 45667778877
Q ss_pred CCceEEEEechhhHHHHHhcCC--cEEEeCCccccCcceeecCCCCcchHHHHHHHHhcccccchHHHHHhh
Q 002301 739 KGGVAAVVDDRAYAELFLSTRC--EFSIVGQVFTKNGWGFAFPRDSPLAVDISTAILKLSENGDLQRIHDKW 808 (940)
Q Consensus 739 ~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~spl~~~~~~~il~l~e~G~~~~i~~kw 808 (940)
|++|+++...+++.-. .-.+ +-......-.+.-..++++.+..=.+.+.+.+..++....-+.|.++|
T Consensus 195 -g~vD~a~i~~~~~~~a-g~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 195 -PKVDVAIISTTYIQQT-GLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred -cccCEEEEchhHHHHc-CCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 7899888877766421 1111 111111111111123455544333445555555555554444555544
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=74.70 E-value=13 Score=41.45 Aligned_cols=86 Identities=8% Similarity=0.032 Sum_probs=63.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.++.+++.+|+....+..+..+.+.+.|++.|+++..-..+.+.++.+++...+..++..++|+||-.+.+
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 3456677778889999888554443346788999999999887655556656778889999999999999999977543
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+++
T Consensus 92 ~~D~AKai 99 (375)
T cd08194 92 PIDTAKAI 99 (375)
T ss_pred HHHHHHHH
Confidence 3444444
No 330
>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=74.29 E-value=87 Score=30.29 Aligned_cols=67 Identities=9% Similarity=0.079 Sum_probs=41.5
Q ss_pred eeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 495 FCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 495 ~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
+...++..+.++ . .++++... ++...+...+.+|++|+++..- ......+ .+.++.+..++++++..
T Consensus 14 ~l~~~l~~f~~~-~-~v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~ 80 (195)
T cd08428 14 WFLPALAPVLKR-E-RILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASPD 80 (195)
T ss_pred HhHHHHHHHHhC-c-CeEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECCc
Confidence 344567777776 3 55566654 4577899999999999876421 1122222 24566666777766543
No 331
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=73.62 E-value=62 Score=34.53 Aligned_cols=81 Identities=15% Similarity=0.110 Sum_probs=51.7
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||++.. . ...+...++..+.++- .++++... +.-..++..+.+|++|+++..-
T Consensus 90 g~l~I~~~~~--~-----------~~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~- 146 (294)
T PRK03635 90 LTLSIAVNAD--S-----------LATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE- 146 (294)
T ss_pred eEEEEeecch--h-----------HHHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc-
Confidence 4689998631 1 1123345677777653 45566554 3456889999999999997532
Q ss_pred eecCcceeeeeccccccccEEEEEecc
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
......+ .+.|+.+..++++++..
T Consensus 147 --~~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 147 --PQPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred --CCCCCCc-eeeecccceEEEEEcch
Confidence 1222223 45778888888888754
No 332
>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=73.36 E-value=92 Score=30.13 Aligned_cols=70 Identities=14% Similarity=0.124 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
++..+++..+.++.+ .++++... +.+..+...+.+|++|+++..... ....+. +.++....+++++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDIA-VENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCce-eEEeeeccEEEEEeC
Confidence 355677888887765 34455554 568889999999999999863211 112222 456677778888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 54
No 333
>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=73.29 E-value=14 Score=41.35 Aligned_cols=86 Identities=8% Similarity=0.024 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|.+++.+|+...-.-....+.+.+.|++.|+.+..-..+.+.++.+.+......+++.++|+||-.+.+
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGS 97 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGS 97 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChH
Confidence 4466778889999998887544333336788999999999876544445545677888888889999999999977543
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+.+
T Consensus 98 viD~aKai 105 (379)
T TIGR02638 98 PIDTAKAI 105 (379)
T ss_pred HHHHHHHH
Confidence 3444443
No 334
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=73.22 E-value=34 Score=34.75 Aligned_cols=93 Identities=16% Similarity=0.214 Sum_probs=51.1
Q ss_pred CCCCChhHhhh--------CC--CCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhh
Q 002301 682 SPIKGIDSLRS--------SN--YPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAY 751 (940)
Q Consensus 682 ~~i~si~dL~~--------~~--~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~ 751 (940)
..+++++||.. .+ .+|++.--.....||. +.+....+++...-.-|..-.+ |-.|++++-...
T Consensus 109 ~~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvElaP~~------GlAD~IvDivsT 181 (228)
T PRK13583 109 IDVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEGAPAN------GSAEIIVDITST 181 (228)
T ss_pred cccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceeccccc------Ccchhhhhhhch
Confidence 35677777751 12 4677776677788884 3454423566554333332211 555666664444
Q ss_pred HHHHHhcCCcEEEeC-CccccCcceeecCCCCc
Q 002301 752 AELFLSTRCEFSIVG-QVFTKNGWGFAFPRDSP 783 (940)
Q Consensus 752 ~~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 783 (940)
..-+-.+ +|.+++ +.+..+.-.++..+.|.
T Consensus 182 G~TLr~N--gL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 182 GETLRAN--HLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred hHHHHHC--CCEEecCceEEEEEEEEEEecccc
Confidence 3332222 688886 35555555666677764
No 335
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=73.02 E-value=10 Score=39.55 Aligned_cols=78 Identities=10% Similarity=0.072 Sum_probs=59.2
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEE-ecCCcHHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVH-THYNRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~-~~~~~~~~~l~~a~~ 243 (940)
|++|.. ++.|.....+.+++++++.|..+... .+...+.......++++...++|.||+. ..+.....+++++.+
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 455553 45688888999999999999988775 2222355666677888878899999987 555677899999999
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 886
No 336
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=73.00 E-value=1.3e+02 Score=31.83 Aligned_cols=85 Identities=15% Similarity=0.095 Sum_probs=53.6
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+.... ...+..++++.+.++.+ .+.+.... .+-++++.++.+|++|+++...
T Consensus 97 ~~l~I~~~~~~-------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~- 154 (294)
T PRK09986 97 GRIEIGIVGTA-------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM- 154 (294)
T ss_pred ceEEEEEehHH-------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC-
Confidence 46899986321 12344667778877765 33455543 3457889999999999988521
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
........+.+ .|+....+++++++..
T Consensus 155 ~~~~~~~~l~~-~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 ADLEPNPGFTS-RRLHESAFAVAVPEEH 181 (294)
T ss_pred CccCCCCCeEE-EEeecccEEEEEcCCC
Confidence 11122233443 6677788888887765
No 337
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=72.87 E-value=9.2 Score=38.78 Aligned_cols=88 Identities=11% Similarity=0.145 Sum_probs=43.3
Q ss_pred CCCeEEEeCchHHHHHHhhhCCC-ccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEe--CC--c
Q 002301 694 NYPIGYQVNSFARNYLVDELNID-ESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIV--GQ--V 768 (940)
Q Consensus 694 ~~~i~~~~gs~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~--~ 768 (940)
|.+||+-..|.-...+.+..-.. +-.+++. +..+.++.+.+ |.+||.++... +.-.. +-++... .. .
T Consensus 114 GmRVGiD~~S~Dq~~LT~~~~~gk~Ve~Vei-~Y~q~~~~l~~----g~IDA~IWN~d--~i~~~-~~~l~~~~l~~~~~ 185 (232)
T PF14503_consen 114 GMRVGIDPSSIDQKILTEAEFEGKNVEFVEI-PYNQLLELLRS----GEIDAAIWNYD--EIEDK-NFGLKYVPLKDDPM 185 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHHHTTS--EEEE---HHHHHHHHHH----TS--EEEEE----HHCCH-HCTEEEEE--SSCH
T ss_pred eeEeecCCCCccHHHHHHHHhCCCceEEEEe-cHHHHHHHHHC----CCccEEEECCc--ccccc-cCCeeEEeCCchHH
Confidence 77899999998777775432222 1234444 57899999999 99999999876 22111 1233332 22 1
Q ss_pred c-ccCcceeecCCCCc-chHHHH
Q 002301 769 F-TKNGWGFAFPRDSP-LAVDIS 789 (940)
Q Consensus 769 ~-~~~~~~~~~~k~sp-l~~~~~ 789 (940)
. ..+.-.++.+|+.+ +...+.
T Consensus 186 ~~~~seAVivi~~~~~~i~~ll~ 208 (232)
T PF14503_consen 186 SKDASEAVIVIRKDNEPIKALLR 208 (232)
T ss_dssp HHHTT-EEEEEETT-HHHHHHHH
T ss_pred HHhcCeeEEEEeCCCHHHHHHHH
Confidence 1 12335677788876 333333
No 338
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=72.78 E-value=94 Score=33.08 Aligned_cols=81 Identities=20% Similarity=0.187 Sum_probs=54.8
Q ss_pred EEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeee
Q 002301 470 LRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAII 549 (940)
Q Consensus 470 l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t 549 (940)
++||+... + ...+..+++..+.++.+ .+.+.... .+..+++..+.+|++|+++....
T Consensus 92 l~Ig~~~~--~-----------~~~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~-- 148 (296)
T PRK09906 92 LTIGFVPS--A-----------EVNLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHP-- 148 (296)
T ss_pred EEEEEecc--h-----------hhhHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCC--
Confidence 89988631 1 12445677777887764 34555554 44788999999999999986332
Q ss_pred cCcceeeeeccccccccEEEEEeccC
Q 002301 550 TNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 550 ~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.....+.+ .|+....+++++++..
T Consensus 149 -~~~~~l~~-~~l~~~~~~~v~~~~~ 172 (296)
T PRK09906 149 -VYSDEIDY-LELLDEPLVVVLPVDH 172 (296)
T ss_pred -CCCCCceE-EEEecccEEEEecCCC
Confidence 23334443 6888889999987654
No 339
>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=72.42 E-value=17 Score=39.29 Aligned_cols=89 Identities=15% Similarity=0.065 Sum_probs=63.5
Q ss_pred EEEEEe---ecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 33 NIGALL---SFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 33 ~IG~l~---~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
++|.+. ......-.....|+...++.+| |+.++...+..+-.|+..+.+.+..|+++++.+|.+ ......
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 456666 6654444667889999999998 678888888888889999999999999999998887 333444
Q ss_pred HHHHHhhccCCcc--EEeeec
Q 002301 110 HVVSHVANELQVP--LLSFSA 128 (940)
Q Consensus 110 ~~va~~~~~~~vP--~Is~~a 128 (940)
..+.+.+.+.+.. .|.+..
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 5566778888888 776543
No 340
>TIGR00035 asp_race aspartate racemase.
Probab=72.04 E-value=17 Score=37.41 Aligned_cols=87 Identities=15% Similarity=0.156 Sum_probs=46.5
Q ss_pred CHHHHHHHHHHHHh-cCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH
Q 002301 81 SGFLALAEALHLME-GQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV 159 (940)
Q Consensus 81 ~~~~a~~~a~~li~-~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l 159 (940)
++...+..+.+.++ .++.+|+=|-++.... +..+-+..++|+|+. .++.++.+
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 35554544444444 4888777555444332 455666678998862 12233333
Q ss_pred HHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEE
Q 002301 160 DHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRIS 196 (940)
Q Consensus 160 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (940)
+..|.++|+++.....- ....+++.+++.|+++.
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 44566777777544321 12335566666665544
No 341
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=71.55 E-value=55 Score=34.26 Aligned_cols=177 Identities=15% Similarity=0.107 Sum_probs=107.1
Q ss_pred HHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCc-ccEEeeceeeecC---cce--eeeeccccccccEEEEE
Q 002301 498 DVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGV-YDAAVGDIAIITN---RTK--MADFTQPYIESGLVVVA 571 (940)
Q Consensus 498 dll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~-~Di~~~~~~~t~~---R~~--~v~ft~p~~~~~~~~vv 571 (940)
++.+.+.+..|.++++++- .-..+.++|.+|. +|+.+..=..+.. ... +-+...+|....+++++
T Consensus 46 ~i~~~F~~~~~~~V~~~f~---------gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~ 116 (258)
T COG0725 46 EIAKQFEKETGVKVEVEFG---------GSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAV 116 (258)
T ss_pred HHHHHHHHHHCCeEEEEec---------chHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEE
Confidence 6677777777777666664 3678888899876 8887663322211 111 22356778888899998
Q ss_pred eccCCCCCcceeecCcchhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeehhhhhhHhhccccccccccchhh
Q 002301 572 PVRKLDSNAWAFLSPFTPMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIFWFSFSTMFFAHKEKTVSALGRL 651 (940)
Q Consensus 572 ~~~~~~~~~~~~l~PF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~ 651 (940)
++...
T Consensus 117 ~~~~~--------------------------------------------------------------------------- 121 (258)
T COG0725 117 PKGSK--------------------------------------------------------------------------- 121 (258)
T ss_pred eCCCc---------------------------------------------------------------------------
Confidence 87651
Q ss_pred hHHHHHhhhhhhhhhccceeeeeeeeccccCCCCChhHhhhC-CCCeEEEe------CchHHHHHHhhhCCC---ccCcc
Q 002301 652 VLIIWLFVVLIINSSYTASLTSILTVQKLSSPIKGIDSLRSS-NYPIGYQV------NSFARNYLVDELNID---ESRLV 721 (940)
Q Consensus 652 l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~si~dL~~~-~~~i~~~~------gs~~~~~l~~~~~~~---~~~~~ 721 (940)
..+.++++|.+. ..++++.+ |.+....|+ ..+.- ..+++
T Consensus 122 ------------------------------~~~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~-~~g~~~~~~~k~v 170 (258)
T COG0725 122 ------------------------------KKIESLEDLLERPDVRLAIGDPKTVPAGKYAKEALE-LLGLWYTLKDKLV 170 (258)
T ss_pred ------------------------------cCcccHHHHhcCcCcEEEecCCCCCCchHHHHHHHH-HhchhhhccccEE
Confidence 233447777763 45566643 666666664 33322 24667
Q ss_pred cCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCccc-cCcceeecCCCCc---chHHHHHHHHh
Q 002301 722 PLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQVFT-KNGWGFAFPRDSP---LAVDISTAILK 794 (940)
Q Consensus 722 ~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~k~sp---l~~~~~~~il~ 794 (940)
.-.+.++.+..|.+ |..|+.+.-...+...- +.-.+..+..... +..|.+++.+++. ....|-+.++.
T Consensus 171 ~~~~v~~~l~~V~~----G~ad~g~vy~sd~~~~~-~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s 242 (258)
T COG0725 171 LATNVRQALAYVET----GEADAGFVYVSDALLSK-KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS 242 (258)
T ss_pred ecCcHHHHHHHHHc----CCCCeEEEEEEhhhccC-CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC
Confidence 77888899999999 78877665444222211 1112334443332 3557788888776 45555555543
No 342
>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=71.06 E-value=19 Score=40.28 Aligned_cols=86 Identities=6% Similarity=-0.018 Sum_probs=61.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCc-chhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDH-GRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
..+.++++.+| +++.+|+..... .....+.+.+.+++.|+++..-..+.+.++.+++......+++.++|+||-.+.+
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 34566777788 899888855432 4566788999999999877644455555677888888889999999999976543
Q ss_pred --CcHHHHHH
Q 002301 232 --NRGPVVFH 239 (940)
Q Consensus 232 --~~~~~~l~ 239 (940)
-++.+.+.
T Consensus 94 S~iD~aK~ia 103 (380)
T cd08185 94 SSMDTAKAIA 103 (380)
T ss_pred cHHHHHHHHH
Confidence 34444443
No 343
>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=70.69 E-value=47 Score=35.17 Aligned_cols=121 Identities=22% Similarity=0.250 Sum_probs=72.5
Q ss_pred CCCCChhHhhh----CCC--CeEEE-eCch---HHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhh
Q 002301 682 SPIKGIDSLRS----SNY--PIGYQ-VNSF---ARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAY 751 (940)
Q Consensus 682 ~~i~si~dL~~----~~~--~i~~~-~gs~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~ 751 (940)
.+++|++||++ +.. .+|.. .|+. ....+.+..+.. .+.++|+...+.+.+|.. |.+|+.+.....
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 68899999865 222 35544 2432 223444555654 467899999999999999 899998877554
Q ss_pred H-HHHHhcCC---------------cEEEeCCc----c-ccCcceeecCCCCc--chHHHHHHHHhcccccchHHHHHh
Q 002301 752 A-ELFLSTRC---------------EFSIVGQV----F-TKNGWGFAFPRDSP--LAVDISTAILKLSENGDLQRIHDK 807 (940)
Q Consensus 752 ~-~~~~~~~~---------------~l~~~~~~----~-~~~~~~~~~~k~sp--l~~~~~~~il~l~e~G~~~~i~~k 807 (940)
. .+..+..- +.-.+.+. + .....+++.|||-| ..+.+..++.+..++-.+++..++
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 4 44332111 11111111 1 11225889999999 899999999999998777665444
No 344
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=70.45 E-value=50 Score=34.17 Aligned_cols=88 Identities=11% Similarity=0.048 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEe
Q 002301 150 YQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHT 229 (940)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~ 229 (940)
..+..+.+.....| .+|.++..+.+-.....+.+++.. |+.|+....=+ .+.++...++.+|.++++|++++.+
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~v~~~a~~~l~~~y---~l~i~g~~~Gy--f~~~e~~~i~~~I~~s~~dil~Vgl 165 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPEVLAQTEAKLRTQW---NVNIVGSQDGY--FTPEQRQALFERIHASGAKIVTVAM 165 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHHHHHHHHHHHHHHh---CCEEEEEeCCC--CCHHHHHHHHHHHHhcCCCEEEEEC
Confidence 44566777666667 677788766553334444444332 67776443211 2345567789999999999999998
Q ss_pred cCCcHHHHHHHHHH
Q 002301 230 HYNRGPVVFHVAQY 243 (940)
Q Consensus 230 ~~~~~~~~l~~a~~ 243 (940)
..+.-..++.+..+
T Consensus 166 G~PkQE~~~~~~~~ 179 (243)
T PRK03692 166 GSPKQEIFMRDCRL 179 (243)
T ss_pred CCcHHHHHHHHHHH
Confidence 88776666665544
No 345
>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=70.17 E-value=11 Score=41.99 Aligned_cols=89 Identities=8% Similarity=0.037 Sum_probs=65.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
+.+.+.++.+| ++.+|+...-......+.+.+.|++.|+++..-..+...++.+++...+..+++.++|+||-.+.+
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 34666778887 898888663333347899999999999988766666766788999999999999999999988654
Q ss_pred -CcHHHHHHHHHH
Q 002301 232 -NRGPVVFHVAQY 243 (940)
Q Consensus 232 -~~~~~~l~~a~~ 243 (940)
-++.+++.....
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 345555544443
No 346
>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=69.69 E-value=20 Score=39.98 Aligned_cols=86 Identities=7% Similarity=-0.035 Sum_probs=60.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.+|.+++.+|+.....-....+.+.+.+++.|+.+..-..+.+.++.+++...+..++..++|+||-.+.+
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 96 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGGS 96 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4566778888999999887544333335788899999888876544445445667788888888998999999977544
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+.+
T Consensus 97 viD~AK~i 104 (377)
T cd08188 97 PIDCAKGI 104 (377)
T ss_pred HHHHHHHH
Confidence 3444433
No 347
>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=69.57 E-value=96 Score=30.24 Aligned_cols=128 Identities=20% Similarity=0.239 Sum_probs=76.7
Q ss_pred CCHHHHHHHHHHH-HhcCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH
Q 002301 80 HSGFLALAEALHL-MEGQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI 158 (940)
Q Consensus 80 ~~~~~a~~~a~~l-i~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~ 158 (940)
++-..++..+.++ ..+++.+||.-+. ++. -+-+..++|+|.. .++.....+++.+.
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG~--ta~---~lr~~~~iPVV~I------------------~~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRGG--TAE---LLRKHVSIPVVEI------------------PISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEHH--HHH---HHHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECCH--HHH---HHHHhCCCCEEEE------------------CCCHhHHHHHHHHH
Confidence 4667888889999 7779999995222 222 2344558999963 13333445555543
Q ss_pred HHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHH
Q 002301 159 VDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVF 238 (940)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l 238 (940)
- .++ ++++++...+.. .....+.+.+ |+++.... + .+..++...+++++..+.++||-... ..
T Consensus 74 ~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~---~~~~e~~~~i~~~~~~G~~viVGg~~------~~ 136 (176)
T PF06506_consen 74 K-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y---DSEEEIEAAIKQAKAEGVDVIVGGGV------VC 136 (176)
T ss_dssp C-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E---SSHHHHHHHHHHHHHTT--EEEESHH------HH
T ss_pred H-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E---CCHHHHHHHHHHHHHcCCcEEECCHH------HH
Confidence 2 334 899998866543 2356666666 55554332 2 36789999999999999999886553 35
Q ss_pred HHHHHcCCC
Q 002301 239 HVAQYLGML 247 (940)
Q Consensus 239 ~~a~~~g~~ 247 (940)
+.|.+.|+.
T Consensus 137 ~~A~~~gl~ 145 (176)
T PF06506_consen 137 RLARKLGLP 145 (176)
T ss_dssp HHHHHTTSE
T ss_pred HHHHHcCCc
Confidence 677888873
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=69.54 E-value=1.1e+02 Score=29.45 Aligned_cols=70 Identities=20% Similarity=0.225 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.++++.+.++.+ .++++... ++...++..+.+|++|+++..... ....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEI---QSDGID-YQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCC---CCCCcE-EEEEEccceEEEecC
Confidence 455678888888765 34455554 457889999999999999853211 112232 456677788888776
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 53
No 349
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=69.35 E-value=1.1e+02 Score=31.84 Aligned_cols=83 Identities=18% Similarity=0.145 Sum_probs=52.1
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||++... ...+..+++..+.+..+ .+++.... ++-.+++..+.+|++|+++....
T Consensus 67 ~~l~I~~~~~~-------------~~~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~ 125 (269)
T PRK11716 67 GELSLFCSVTA-------------AYSHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAKP 125 (269)
T ss_pred ceEEEEecchH-------------HHHHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEecC
Confidence 45888876311 12355688888888764 24455553 45778999999999999986321
Q ss_pred eecCcceeeeeccccccccEEEEEecc
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
. .....+. ..+.....++++++..
T Consensus 126 ~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 126 E--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred C--CCCcceE-EEEcccceEEEEEcCC
Confidence 1 1112232 3566777778777654
No 350
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=69.14 E-value=1.1e+02 Score=29.43 Aligned_cols=70 Identities=21% Similarity=0.207 Sum_probs=45.5
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
..+..+++..+.+..+ .+++.... ++...+...+.+|++|+++... +.....+ ...++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~ 79 (198)
T cd08447 12 YSFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAVP 79 (198)
T ss_pred HHHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEec
Confidence 3556678888888764 23455443 4588999999999999998621 1122222 235666777777776
Q ss_pred cc
Q 002301 573 VR 574 (940)
Q Consensus 573 ~~ 574 (940)
..
T Consensus 80 ~~ 81 (198)
T cd08447 80 AG 81 (198)
T ss_pred CC
Confidence 54
No 351
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=69.13 E-value=27 Score=36.65 Aligned_cols=71 Identities=23% Similarity=0.171 Sum_probs=42.6
Q ss_pred eHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCc-ccEEeeceeeecCc---ceeee-ec-cccccccEEE
Q 002301 496 CIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGV-YDAAVGDIAIITNR---TKMAD-FT-QPYIESGLVV 569 (940)
Q Consensus 496 ~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~-~Di~~~~~~~t~~R---~~~v~-ft-~p~~~~~~~~ 569 (940)
.-++.+.+.++.|.++++.+- + -..+.+++.+|. +|+.+.+-....++ ...+. .+ .+|....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~--------~-Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFA--------S-SSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEec--------c-cHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 345666666666777555443 2 346778888877 99988754221111 12222 21 3577788899
Q ss_pred EEeccC
Q 002301 570 VAPVRK 575 (940)
Q Consensus 570 vv~~~~ 575 (940)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888764
No 352
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=68.88 E-value=36 Score=32.90 Aligned_cols=120 Identities=13% Similarity=0.163 Sum_probs=67.4
Q ss_pred HHHHHhc--CcEEEEcCCCch---hHHHHHHhhccCCccEEeeecCCCCCCCCC-CCceEEecCChHHHHHHHHHHHHHc
Q 002301 89 ALHLMEG--QTVAIIGPQDAV---TSHVVSHVANELQVPLLSFSATDPTLSSLQ-FPYFVRTTQSDQYQMAAIAEIVDHY 162 (940)
Q Consensus 89 a~~li~~--~v~aiiGp~~s~---~a~~va~~~~~~~vP~Is~~at~~~ls~~~-~p~~~r~~psd~~~~~ai~~~l~~~ 162 (940)
+.+++.+ +++.++|..... ....+.++++.+++|+++...+...|.++. .|. ..-.-.+..++..-
T Consensus 27 aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~--------~~~lg~lg~~~~~p 98 (171)
T PRK00945 27 AAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK--------YINLHELTNYLKDP 98 (171)
T ss_pred HHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC--------cccHHHHHhhccCc
Confidence 3444444 899999987754 567789999999999998655555555532 122 11223344444444
Q ss_pred CCeE---------EEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC-------CChhHHHHHHHHHh
Q 002301 163 GWRE---------VIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE-------ATEDEITDLLVKVA 218 (940)
Q Consensus 163 ~w~~---------v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~ 218 (940)
+|.- |.++..+..|....+..++....- ..|+....+.+. ...+++.+.|+++-
T Consensus 99 ~~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~f~~~--~~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 99 NWKGLDGNGNYDLVIFIGVTYYYASQGLSALKHFSPL--KTITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred hhhhhcCCCCcCEEEEecCCchhHHHHHHHHhhcCCc--eEEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 4433 345556666666666666544331 122222222221 24566677776653
No 353
>PRK10200 putative racemase; Provisional
Probab=68.75 E-value=57 Score=33.50 Aligned_cols=87 Identities=13% Similarity=0.062 Sum_probs=51.7
Q ss_pred CCHHHHHHHHHHHHhc-CcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH
Q 002301 80 HSGFLALAEALHLMEG-QTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI 158 (940)
Q Consensus 80 ~~~~~a~~~a~~li~~-~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~ 158 (940)
-++...+....+.+++ ++.+|+=|-.+..+. ...+-+..++|+|+- .++.++.
T Consensus 58 ~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~ 111 (230)
T PRK10200 58 DKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRA 111 (230)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHH
Confidence 3566666655555554 888887655555544 455666778998852 2233344
Q ss_pred HHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC-ceeE
Q 002301 159 VDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK-RCRI 195 (940)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v 195 (940)
++..+-++|+++..... -....+++.+.++ |+++
T Consensus 112 ~~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 112 ITGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeE
Confidence 44557778888875532 2233455555544 7665
No 354
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=68.41 E-value=25 Score=38.40 Aligned_cols=63 Identities=17% Similarity=0.165 Sum_probs=44.0
Q ss_pred cCCCceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCcc-CeEEeeCCCCCCCCCHhHHHHHHHcCcccEE
Q 002301 464 PNNGRHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAV-PYKLIPFGDGHNNPSCTELVRLITAGVYDAA 542 (940)
Q Consensus 464 ~~~g~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~-~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~ 542 (940)
|..|+++++++. +|.. .-+.-.|++.+.+.+|+++ ++... +-.-+...|.+|++|+.
T Consensus 25 ~~~~~~V~~~~~---~W~~----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv~ 82 (331)
T PRK11119 25 PGKGITVQPAQS---TIAE----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATFT 82 (331)
T ss_pred CCCCeEEEEeec---CccH----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeEe
Confidence 557889999987 3422 1234467778888899986 55443 24677889999999998
Q ss_pred eeceee
Q 002301 543 VGDIAI 548 (940)
Q Consensus 543 ~~~~~~ 548 (940)
...-..
T Consensus 83 ~~~W~P 88 (331)
T PRK11119 83 AVNWFP 88 (331)
T ss_pred hhhccc
Confidence 764443
No 355
>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=68.21 E-value=1.2e+02 Score=29.40 Aligned_cols=70 Identities=16% Similarity=0.121 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .++++... ++..++..++.+|++|+++.. .......+. +.++....++++++.
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 445677888888764 34455553 457889999999999999852 122222333 346667777777765
Q ss_pred cC
Q 002301 574 RK 575 (940)
Q Consensus 574 ~~ 575 (940)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 43
No 356
>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=68.01 E-value=23 Score=39.23 Aligned_cols=77 Identities=5% Similarity=0.038 Sum_probs=57.2
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcc-hhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 154 AIAEIVDHYGWREVIAIYVDDDHG-RNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
.+.++++.+| +++.+|+....+- ....+.+.+.+++.|+++..-..+.+.++.+++....+.+++.++|+||-.+.+
T Consensus 16 ~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 16 KHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 3556778888 8888887544323 234678899999999877654445555778889999999999999999988654
No 357
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=67.75 E-value=25 Score=36.47 Aligned_cols=98 Identities=15% Similarity=0.226 Sum_probs=56.8
Q ss_pred HHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcH
Q 002301 155 IAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRG 234 (940)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~ 234 (940)
+-++++.++.+++.+|...+. .....+.+.+.+++.|+++..........+..++.....+++..++++||-.+.+ ..
T Consensus 10 l~~~l~~~~~~~~lvv~d~~t-~~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG-~i 87 (250)
T PF13685_consen 10 LPEILSELGLKKVLVVTDENT-YKAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGG-TI 87 (250)
T ss_dssp HHHHHGGGT-SEEEEEEETTH-HHHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESH-HH
T ss_pred HHHHHHhcCCCcEEEEEcCCH-HHHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCc-HH
Confidence 567788888899998886654 3445678889999999888744323323455667777777776788888777654 33
Q ss_pred HHHHHH-HHHcCCCCCCeEEEecC
Q 002301 235 PVVFHV-AQYLGMLGTGYVWIATS 257 (940)
Q Consensus 235 ~~~l~~-a~~~g~~~~~~~wi~~~ 257 (940)
.++-+. |.++| ..|+-+-|.
T Consensus 88 ~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 88 IDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp HHHHHHHHHHHT-----EEEEES-
T ss_pred HHHHHHHHHhcC---CCEEEeccc
Confidence 344433 34445 456666664
No 358
>PRK10537 voltage-gated potassium channel; Provisional
Probab=67.40 E-value=5.3 Score=44.59 Aligned_cols=57 Identities=23% Similarity=0.298 Sum_probs=43.7
Q ss_pred CCcCCceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhhhhhccceeeeeee
Q 002301 620 PPKRQVVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILT 676 (940)
Q Consensus 620 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt 676 (940)
++..++.+++||++.++...+ .-.|.+..+|++.+++.++++.+.....+.++..+.
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~i 222 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPVI 222 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445689999999999888665 447899999999999999988776665555555443
No 359
>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=67.00 E-value=73 Score=31.16 Aligned_cols=86 Identities=13% Similarity=0.075 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcC--ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEE
Q 002301 150 YQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAK--RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVV 227 (940)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~ 227 (940)
..+..+.+.....+ .+|.++....+ .++.+.+.+++. |++|+.. ..+ .+.++-..++.+|.++++|++++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~--~g~-f~~~~~~~i~~~I~~s~~dil~V 106 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA--FGP-LEPEERKAALAKIARSGAGIVFV 106 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE--CCC-CChHHHHHHHHHHHHcCCCEEEE
Confidence 45666666666666 47777876554 344445555444 6777765 221 24455577899999999999999
Q ss_pred EecCCcHHHHHHHHHH
Q 002301 228 HTHYNRGPVVFHVAQY 243 (940)
Q Consensus 228 ~~~~~~~~~~l~~a~~ 243 (940)
.+..+.-..++.+..+
T Consensus 107 glG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 107 GLGCPKQEIWMRNHRH 122 (177)
T ss_pred EcCCcHhHHHHHHhHH
Confidence 9887777666655533
No 360
>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=66.76 E-value=20 Score=39.99 Aligned_cols=86 Identities=9% Similarity=0.064 Sum_probs=61.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|-+++.+++.....-....+.+.+.|++.|+.+..-..+.+.++.+.+......+++.++|+||-.+.+
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 4466778888888888887443322256788999999888876544445545677888999999999999999977544
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+.+
T Consensus 97 ~iD~aK~i 104 (377)
T cd08176 97 PHDCAKAI 104 (377)
T ss_pred HHHHHHHH
Confidence 3444443
No 361
>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=66.71 E-value=1.7e+02 Score=30.99 Aligned_cols=64 Identities=16% Similarity=0.097 Sum_probs=41.0
Q ss_pred HHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 498 DVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 498 dll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
.++..+.++. .+++.... ++-..+++.|.+|++|+++..... ....+. +.|+.+..+++++++.
T Consensus 107 ~~l~~~~~~~--~i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEe-------CcchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 4566666653 44455543 445678999999999999863221 222333 4677888888887654
No 362
>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=66.32 E-value=20 Score=39.63 Aligned_cols=76 Identities=17% Similarity=0.115 Sum_probs=56.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
..+.++++.++ +++.+|+....+ ....+.+.+.+++.|+.+.+. .+...++.+++....+.+++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~-~~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 87 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL-DLVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGG 87 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCc
Confidence 34566677776 888888744333 367888999999999887644 35555677888888899999999998887544
No 363
>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=66.27 E-value=50 Score=31.81 Aligned_cols=66 Identities=12% Similarity=0.013 Sum_probs=39.7
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+...++..+.+..+ .++++... ++ .+.++.+|++|+++... +.....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~---------~~-~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 77 (194)
T cd08432 13 RWLIPRLARFQARHP-DIDLRLST---------SD-RLVDFAREGIDLAIRYG---DGDWPGL-EAERLMDEELVPVCSP 77 (194)
T ss_pred HHHHHHhHHHHHHCC-CeEEEEEe---------cC-CccccccccccEEEEec---CCCCCCc-ceEEccCCcEEEecCH
Confidence 344566777777765 34555553 12 45678899999998522 1112222 2456777788887765
Q ss_pred c
Q 002301 574 R 574 (940)
Q Consensus 574 ~ 574 (940)
.
T Consensus 78 ~ 78 (194)
T cd08432 78 A 78 (194)
T ss_pred H
Confidence 3
No 364
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=65.99 E-value=17 Score=39.61 Aligned_cols=103 Identities=15% Similarity=0.181 Sum_probs=60.6
Q ss_pred CCCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC-
Q 002301 682 SPIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC- 760 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~- 760 (940)
.||.+.+||. |.++-++........++ .++-. -.+. ...|...+|+. |-+|+.-..... +...+..
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~~-a~GA~---P~pm-~f~Evy~aLqt----GvVDGqEnp~~~--i~~~k~~E 223 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMFK-ALGAN---PTPM-PFAEVYTALQT----GVVDGQENPLSN--IYSAKLYE 223 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHHH-HcCCC---CCCC-CHHHHHHHHHc----CCcccccCCHHH--HhhccHHH
Confidence 4999999999 99999998877777773 44433 2222 56899999999 777777554432 2222211
Q ss_pred --c-EEEeCCccccCcceeecCCCCc--chHHHHHHHHhccccc
Q 002301 761 --E-FSIVGQVFTKNGWGFAFPRDSP--LAVDISTAILKLSENG 799 (940)
Q Consensus 761 --~-l~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~il~l~e~G 799 (940)
+ +...+- ...++.+.+.+..- |-+...++|++..+..
T Consensus 224 Vqky~t~tnH--~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 224 VQKYLTLTNH--IYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred HhHHhhhccc--cccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 1 111111 12234444444432 6666666666655543
No 365
>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=65.86 E-value=1.4e+02 Score=29.13 Aligned_cols=69 Identities=13% Similarity=0.087 Sum_probs=43.6
Q ss_pred eeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 494 GFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 494 G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
.+-.+++..+.++.+ .+++.... ++-++++.++.+|++|+++..... . ...+. +.++.+..+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~-~--~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYP-Y--QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCC-C--CCCeE-EEEeeccceEEEeCC
Confidence 455677788877653 34455553 457789999999999999863211 1 12233 346666677776654
Q ss_pred c
Q 002301 574 R 574 (940)
Q Consensus 574 ~ 574 (940)
.
T Consensus 82 ~ 82 (198)
T cd08485 82 S 82 (198)
T ss_pred C
Confidence 4
No 366
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=64.78 E-value=1.5e+02 Score=31.37 Aligned_cols=64 Identities=14% Similarity=0.071 Sum_probs=40.6
Q ss_pred HHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEecc
Q 002301 498 DVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPVR 574 (940)
Q Consensus 498 dll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~~ 574 (940)
+.+..+.+.- .+.++... +..++++..|.+|++|+++.... .....+. +.|+....+++++++.
T Consensus 107 ~~l~~~~~~~--~i~i~~~~-------~~~~~~~~~L~~~~~d~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~ 170 (294)
T PRK13348 107 PALAAVLAGE--RILLELIV-------DDQDHTFALLERGEVVGCVSTQP---KPMRGCL-AEPLGTMRYRCVASPA 170 (294)
T ss_pred HHHHHHHhCC--CeEEEEEE-------cchHHHHHHHhcCCeEEEEecCC---cccCCcc-cccccccceEEEEccc
Confidence 4455554443 34455443 45788999999999999875321 1223344 5778888888887654
No 367
>PRK07475 hypothetical protein; Provisional
Probab=64.06 E-value=35 Score=35.44 Aligned_cols=120 Identities=15% Similarity=0.067 Sum_probs=66.5
Q ss_pred CCHHHHHHHH-HHHHhcCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH
Q 002301 80 HSGFLALAEA-LHLMEGQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI 158 (940)
Q Consensus 80 ~~~~~a~~~a-~~li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~ 158 (940)
.++...+.++ .+|...++.+|+.|- .........+.+..+||+++. ..+.+..
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 3455555444 444445999998844 444445566667789999851 1122223
Q ss_pred HHHc--CCeEEEEEEEcCCcchhhHHHHHHHHhcCceeE-E----E-eec--------C--CCC-CC----hhHHHHHHH
Q 002301 159 VDHY--GWREVIAIYVDDDHGRNGIAALGDTLAAKRCRI-S----F-KAP--------L--SVE-AT----EDEITDLLV 215 (940)
Q Consensus 159 l~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v-~----~-~~~--------~--~~~-~~----~~~~~~~l~ 215 (940)
++.. +-++|+++..+... -..+.+++.|+.. + . ... + ..+ .+ ..++.+.++
T Consensus 115 l~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~~~I~~~~~~~d~~~~~~~l~~~~~ 188 (245)
T PRK07475 115 IQALLPAGQKVGILTADASS------LTPAHLLAVGVPPDTSSLPIAGLEEGGEFRRNILENRGELDNEAAEQEVVAAAR 188 (245)
T ss_pred HHHhccCCCeEEEEeCCchh------hhHHHHHhCCCCCCCccccccCcccchHHHHHHhcccccccHHHHHHHHHHHHH
Confidence 3332 36789999866542 2246677778751 1 1 000 0 000 01 245666666
Q ss_pred HHh--cCCCeEEEEEecC
Q 002301 216 KVA--LTESRIIVVHTHY 231 (940)
Q Consensus 216 ~l~--~~~~~viv~~~~~ 231 (940)
++. ..++++||+.|..
T Consensus 189 ~l~~~~~~~daIvL~CTe 206 (245)
T PRK07475 189 ALLERHPDIGAIVLECTN 206 (245)
T ss_pred HHHhhCCCCCEEEEcCcC
Confidence 665 3478999988754
No 368
>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=63.40 E-value=33 Score=38.50 Aligned_cols=86 Identities=13% Similarity=0.087 Sum_probs=57.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.+| +++.+|+..........+.+.+.+++.|+++..-..+.+.....+....+...++.++|+||-.+.+
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 8888887433333366788999999999876543333323455667777777888899999877544
Q ss_pred -CcHHHHHH
Q 002301 232 -NRGPVVFH 239 (940)
Q Consensus 232 -~~~~~~l~ 239 (940)
-++.+++.
T Consensus 91 ~iD~aK~ia 99 (386)
T cd08191 91 CIDLAKIAG 99 (386)
T ss_pred HHHHHHHHH
Confidence 34444443
No 369
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=63.21 E-value=1.3e+02 Score=30.36 Aligned_cols=86 Identities=20% Similarity=0.153 Sum_probs=52.9
Q ss_pred CHHHHHHH-HHHHHhcCcEEEEcCCCchhHHHHHHhh-ccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH
Q 002301 81 SGFLALAE-ALHLMEGQTVAIIGPQDAVTSHVVSHVA-NELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI 158 (940)
Q Consensus 81 ~~~~a~~~-a~~li~~~v~aiiGp~~s~~a~~va~~~-~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~ 158 (940)
++...+.. |..|-.-++..|+=|. .+++.+++-. +..+||+|+- .++-++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~--NT~H~~~d~iq~~~~iPllhI-------------------------idaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPT--NTMHKVADDIQKAVGIPLLHI-------------------------IDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeC--CcHHHHHHHHHHhcCCCeehH-------------------------HHHHHHH
Confidence 44444443 3444334888888544 4455655544 4779999952 4555666
Q ss_pred HHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEE
Q 002301 159 VDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRIS 196 (940)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (940)
+++-|-++|+++.....- ...-.++.|.++|++++
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 777788888888765321 12335667788887765
No 370
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=62.97 E-value=1.1e+02 Score=33.52 Aligned_cols=75 Identities=13% Similarity=0.009 Sum_probs=60.9
Q ss_pred eEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHH
Q 002301 31 VVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSH 110 (940)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~ 110 (940)
.-++|.+..+..+.-.....|+++.++.+|. ..++...+..+=.|+..+.+.+..|++++|++|.....+....
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 4568888888765556778899999999994 4678887877888999999999999999999999766655554
Q ss_pred H
Q 002301 111 V 111 (940)
Q Consensus 111 ~ 111 (940)
+
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 4
No 371
>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=62.91 E-value=33 Score=38.20 Aligned_cols=86 Identities=7% Similarity=0.013 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|.+++.+|+....+ ....+.+.+++.|+.+..-..+.+.++.+.+...+..+++.++|+||-.+.+
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 346677888898999988754443 4566778888888766544445555667788888888888899999876543
Q ss_pred -CcHHHHHHHH
Q 002301 232 -NRGPVVFHVA 241 (940)
Q Consensus 232 -~~~~~~l~~a 241 (940)
-++.+++...
T Consensus 89 ~~D~aK~ia~~ 99 (367)
T cd08182 89 VLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHH
Confidence 4555555443
No 372
>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=61.89 E-value=31 Score=37.94 Aligned_cols=84 Identities=18% Similarity=0.152 Sum_probs=58.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
.-+.+.++.++ +++.+|+....+ ....+.+.+.+++.|+.+.....+...++.+++.......++.++|+||-.+.+
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 34556677777 888888754433 445778888898888876544445545677778888888888899999977543
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+++
T Consensus 90 ~~D~aK~i 97 (345)
T cd08171 90 AIDTVKVL 97 (345)
T ss_pred HHHHHHHH
Confidence 3444444
No 373
>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=61.83 E-value=1.8e+02 Score=29.22 Aligned_cols=123 Identities=7% Similarity=0.051 Sum_probs=70.5
Q ss_pred HHHhcCcEEEEcCCCchhHHHHHHhh-ccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEE
Q 002301 91 HLMEGQTVAIIGPQDAVTSHVVSHVA-NELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIA 169 (940)
Q Consensus 91 ~li~~~v~aiiGp~~s~~a~~va~~~-~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~i 169 (940)
++.+.++.+|+-+ |++....+..+- ...++|+++. .++.++-+.. +-++|++
T Consensus 60 ~l~~~g~d~i~i~-C~s~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 60 KLEKAGVDAIVIA-CNSAHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHHHTTESEEEES-SHHHHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEE
T ss_pred HHHhCCCCEEEEc-CCchhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEE
Confidence 3334488888763 333333444455 6679998862 1222334444 8999999
Q ss_pred EEEcCCcchhhHHHHHHHHhcC-ce--eEEEee------cCCCCC-Chh---HHHHHHHHH-hcCCCeEEEEEecCCcHH
Q 002301 170 IYVDDDHGRNGIAALGDTLAAK-RC--RISFKA------PLSVEA-TED---EITDLLVKV-ALTESRIIVVHTHYNRGP 235 (940)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~-g~--~v~~~~------~~~~~~-~~~---~~~~~l~~l-~~~~~~viv~~~~~~~~~ 235 (940)
+.+ ++......+.+.+++. |+ ++.... ....+. ... .+...+.++ +..++++|++.|..-...
T Consensus 113 l~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~ 189 (216)
T PF01177_consen 113 LTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPLL 189 (216)
T ss_dssp EES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGG
T ss_pred Eec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHH
Confidence 985 4455566777777777 76 444321 110111 222 344444444 378999999998764333
Q ss_pred -HHHHHHHH
Q 002301 236 -VVFHVAQY 243 (940)
Q Consensus 236 -~~l~~a~~ 243 (940)
.....+.+
T Consensus 190 ~~~~~~l~~ 198 (216)
T PF01177_consen 190 LGAIEALEE 198 (216)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHhhcc
Confidence 56655554
No 374
>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=61.78 E-value=60 Score=31.14 Aligned_cols=120 Identities=13% Similarity=0.220 Sum_probs=64.3
Q ss_pred HHHHHhc--CcEEEEcCCCc--hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCC
Q 002301 89 ALHLMEG--QTVAIIGPQDA--VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGW 164 (940)
Q Consensus 89 a~~li~~--~v~aiiGp~~s--~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w 164 (940)
+.+++.+ +++.++|+... .....+.++++..++|+++.......+.++. +. ..|. -.-.+..++..-+|
T Consensus 20 aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg---v~-~~~~---~lg~~g~~~~~p~~ 92 (162)
T TIGR00315 20 VAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG---IE-SEEM---NLHEITQFLADPSW 92 (162)
T ss_pred HHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC---ee-cCCC---CHHHHHHhccCchh
Confidence 3344444 89999998774 6778899999999999997543333343322 11 1121 11234445555444
Q ss_pred eEE---------EEEEEcCCcchhhHHHHHHHHhcCcee-EEEeecCCCC-------CChhHHHHHHHHHh
Q 002301 165 REV---------IAIYVDDDHGRNGIAALGDTLAAKRCR-ISFKAPLSVE-------ATEDEITDLLVKVA 218 (940)
Q Consensus 165 ~~v---------~ii~~d~~~g~~~~~~l~~~l~~~g~~-v~~~~~~~~~-------~~~~~~~~~l~~l~ 218 (940)
.-+ .++..+..++...+..++... .++ |+....+.+. ...+++.+.|+++.
T Consensus 93 e~~~g~g~~DlvlfvG~~~y~~~~~ls~lk~f~---~~~~i~l~~~y~pnA~~Sf~n~~~~~~~~~l~~~~ 160 (162)
T TIGR00315 93 EGFDGEGNYDLVLFLGIIYYYLSQMLSSLKHFS---HIVTIAIDKYYQPNADYSFPNLSKDEYLDYLRKLL 160 (162)
T ss_pred hhccCCCCcCEEEEeCCcchHHHHHHHHHHhhc---CcEEEEecCCCCCCCceeccccCHHHHHHHHHHHh
Confidence 443 344455555555555555433 222 3222223221 23556666666653
No 375
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=61.32 E-value=2.5e+02 Score=30.67 Aligned_cols=133 Identities=15% Similarity=0.152 Sum_probs=74.0
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCchhH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDAVTS 109 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~a 109 (940)
-.++.+|...+ ..-+.+++.|+.++ +|..+.+...++.-.-.+.+.-+.+.++.-+++|+ .|. .
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~----~ 111 (336)
T PRK03515 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGYG----Q 111 (336)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEEeCC----h
Confidence 34777887764 35678999999885 34444443333322222334344444444333333 332 2
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH---HHHcC---Ce--EEEEEEEcCCcchhhH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI---VDHYG---WR--EVIAIYVDDDHGRNGI 181 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~---l~~~~---w~--~v~ii~~d~~~g~~~~ 181 (940)
..+..+++..++|+|. |.+ +...| .++++++ .+++| ++ +|+++. |..+ +..
T Consensus 112 ~~~~~~a~~~~vPVIN--a~~----~~~HP------------tQaLaDl~Ti~e~~g~~~l~g~~ia~vG-D~~~--~v~ 170 (336)
T PRK03515 112 EIVETLAEYAGVPVWN--GLT----NEFHP------------TQLLADLLTMQEHLPGKAFNEMTLAYAG-DARN--NMG 170 (336)
T ss_pred HHHHHHHHhCCCCEEE--CCC----CCCCh------------HHHHHHHHHHHHHhCCCCcCCCEEEEeC-CCcC--cHH
Confidence 3456677778899996 222 22333 3556665 35665 33 555553 3212 366
Q ss_pred HHHHHHHhcCceeEEEee
Q 002301 182 AALGDTLAAKRCRISFKA 199 (940)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~ 199 (940)
..+...+...|.++....
T Consensus 171 ~Sl~~~~~~~g~~v~~~~ 188 (336)
T PRK03515 171 NSLLEAAALTGLDLRLVA 188 (336)
T ss_pred HHHHHHHHHcCCEEEEEC
Confidence 777777778888776643
No 376
>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=61.13 E-value=32 Score=36.11 Aligned_cols=78 Identities=9% Similarity=0.031 Sum_probs=55.4
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhc-CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAA-KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVA 241 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a 241 (940)
+|++|.++ ++|.....+.+.+++++ .|.++...... .+.....+.+.++.+.+.|.+|+.... .....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDAK---NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 36777754 67888889999999999 89888764321 244556677788877889999886543 2345677777
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.|+
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 77664
No 377
>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=60.96 E-value=34 Score=35.32 Aligned_cols=77 Identities=9% Similarity=0.125 Sum_probs=52.9
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
++++.+. ..++......+++++++.|+.+.....- .+.+.....++++...+++.||+..........+..+.+.
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 6777754 6688888999999999999887654322 2344566777777777899888875544443356666665
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
+.
T Consensus 79 ~i 80 (264)
T cd01537 79 GI 80 (264)
T ss_pred CC
Confidence 53
No 378
>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=60.74 E-value=37 Score=38.04 Aligned_cols=87 Identities=9% Similarity=0.042 Sum_probs=60.2
Q ss_pred HHHHHHHHHc---CCeEEEEEEEcCCcc-hhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEE
Q 002301 153 AAIAEIVDHY---GWREVIAIYVDDDHG-RNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVH 228 (940)
Q Consensus 153 ~ai~~~l~~~---~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~ 228 (940)
..+.++++.+ |.+++.+|+...... ....+.+.+.+++.|+++..-..+.+.++.+++......+++.++|+||-.
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 788998887544333 234678889999889876544445555677888999999999999998876
Q ss_pred ecC--CcHHHHHH
Q 002301 229 THY--NRGPVVFH 239 (940)
Q Consensus 229 ~~~--~~~~~~l~ 239 (940)
+.+ -+..+++.
T Consensus 92 GGGS~iD~aK~ia 104 (383)
T cd08186 92 GGGSPIDSAKSAA 104 (383)
T ss_pred CCccHHHHHHHHH
Confidence 543 34444443
No 379
>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=60.47 E-value=40 Score=36.89 Aligned_cols=99 Identities=10% Similarity=0.094 Sum_probs=63.5
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC--
Q 002301 154 AIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-- 231 (940)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-- 231 (940)
.+.+.++.+|.+++.+|+....+ ....+.+.+.+++. +++.......++++.+++...+..+++.++|+||-.+.+
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~-~~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~ 90 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVV-KGVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST 90 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchh-hhHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH
Confidence 35667788899999888854433 36677888888876 555443334434677888888999988899998877543
Q ss_pred CcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 232 NRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 232 ~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
-+..+++......| ..++-|-|.
T Consensus 91 ~D~aK~ia~~~~~~---~p~i~iPTt 113 (332)
T cd07766 91 LDTAKAVAALLNRG---LPIIIVPTT 113 (332)
T ss_pred HHHHHHHHHHhcCC---CCEEEEeCC
Confidence 34444443332223 334445443
No 380
>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=60.45 E-value=32 Score=38.48 Aligned_cols=85 Identities=7% Similarity=0.068 Sum_probs=58.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCc-chhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDH-GRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~ 231 (940)
+.+.+.++.++ +++.+|.....+ .....+.+.+.|++.|+++..-..+.+.++.+++...+...+..++|+||-.+.+
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 888888654332 2245788999999999877654455555667888889999999999999977543
Q ss_pred --CcHHHHH
Q 002301 232 --NRGPVVF 238 (940)
Q Consensus 232 --~~~~~~l 238 (940)
-++.+++
T Consensus 97 S~iD~aK~i 105 (382)
T cd08187 97 SVIDSAKAI 105 (382)
T ss_pred HHHHHHHHH
Confidence 3444443
No 381
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=60.31 E-value=42 Score=32.84 Aligned_cols=75 Identities=23% Similarity=0.329 Sum_probs=45.8
Q ss_pred CCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcE
Q 002301 683 PIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEF 762 (940)
Q Consensus 683 ~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l 762 (940)
++++.+||. +.+|++.--...+.||. +.+.+ .++++..-.-|..-. . |-.|++++-.....-+..+ +|
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f~-~~Gi~-v~ii~l~GsvE~aP~--~----GlaD~IvDiv~TG~TL~~N--gL 167 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYFE-KKGID-VEIIKLNGSVELAPL--L----GLADAIVDIVSTGTTLREN--GL 167 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHHH-HcCCe-EEEEECcceeecccC--C----CceeEEEEEeCCHHHHHHC--CC
Confidence 567888987 88899887778888884 44553 455555443333211 2 7788887765555444333 45
Q ss_pred EEeCCcc
Q 002301 763 SIVGQVF 769 (940)
Q Consensus 763 ~~~~~~~ 769 (940)
.++.+.+
T Consensus 168 ~~ie~i~ 174 (182)
T TIGR00070 168 RIIEVIL 174 (182)
T ss_pred EEeeEEE
Confidence 5554433
No 382
>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=60.03 E-value=39 Score=34.88 Aligned_cols=76 Identities=8% Similarity=0.059 Sum_probs=54.8
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++..+ +.|.....+.+++++++.|+.+..... ..+.+.....++++.+.+++.|++......... ++.+.+.
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 5666654 778888899999999999988775422 233445567777777789999998876655555 7777776
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 64
No 383
>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=59.21 E-value=39 Score=35.43 Aligned_cols=77 Identities=9% Similarity=0.044 Sum_probs=53.8
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec-CCcHHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH-YNRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~-~~~~~~~l~~a~~ 243 (940)
|+++.. ++.|.......+.+++++.|.++..... ..+.......+..+...+.|.||+... .......++++.+
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 566665 5677888899999999999998776422 123444456667766678999998753 3334567788887
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|+
T Consensus 79 ~~i 81 (273)
T cd06305 79 AGI 81 (273)
T ss_pred cCC
Confidence 775
No 384
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=58.80 E-value=6.1 Score=49.35 Aligned_cols=53 Identities=13% Similarity=0.319 Sum_probs=45.9
Q ss_pred ceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhhhhhccceeeeeeee
Q 002301 625 VVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLIINSSYTASLTSILTV 677 (940)
Q Consensus 625 ~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~ 677 (940)
...++|+++.+|...| .-.|.+...|++.++|+++++++.++..+++++++..
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 4558999999998765 3379999999999999999999999999999987754
No 385
>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=58.42 E-value=1.5e+02 Score=30.12 Aligned_cols=88 Identities=17% Similarity=0.133 Sum_probs=58.4
Q ss_pred ChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEE
Q 002301 147 SDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIV 226 (940)
Q Consensus 147 sd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 226 (940)
++......++.+... .++++|.+..+ ..+...+.++..+..+.+...-|+..+..++...-+++++.++|+|+
T Consensus 111 P~ril~~lV~al~~~---~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIv 183 (221)
T PF07302_consen 111 PDRILPPLVAALVGG---HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIV 183 (221)
T ss_pred hHHhHHHHHHHhcCC---CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 333333444444433 89999998765 33444455556666666655555546788899999999999999999
Q ss_pred EEecC--CcHHHHHHHH
Q 002301 227 VHTHY--NRGPVVFHVA 241 (940)
Q Consensus 227 ~~~~~--~~~~~~l~~a 241 (940)
++|-+ ...+++++++
T Consensus 184 LDCmGYt~~~r~~~~~~ 200 (221)
T PF07302_consen 184 LDCMGYTQEMRDIVQRA 200 (221)
T ss_pred EECCCCCHHHHHHHHHH
Confidence 99754 4455566554
No 386
>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=57.84 E-value=2.4e+02 Score=29.37 Aligned_cols=206 Identities=9% Similarity=0.020 Sum_probs=111.8
Q ss_pred eEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEe-cC-CCCHHHHHHHHHHHHhc-CcEEEEcC-CCc
Q 002301 31 VVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQ-DC-NHSGFLALAEALHLMEG-QTVAIIGP-QDA 106 (940)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~-D~-~~~~~~a~~~a~~li~~-~v~aiiGp-~~s 106 (940)
..+||++.+-.+ .+....+|++..+++--+. .+.-.++ |. ..+-...+.....|..+ .+-|||=. .-+
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 578999876543 3456667777777765322 5554444 43 23555666777777666 66666632 334
Q ss_pred hhHHHHHHhhc-cCCccEEeeecC-CCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchh----h
Q 002301 107 VTSHVVSHVAN-ELQVPLLSFSAT-DPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRN----G 180 (940)
Q Consensus 107 ~~a~~va~~~~-~~~vP~Is~~at-~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~----~ 180 (940)
.++.++..+=+ +-.|..|+-.+. +|..-+.... +-+.++....+..++...+..|-+.++-+.....-... .
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 45555555433 335655542211 1111111122 33457778889999999999999999988654443333 3
Q ss_pred HHHHHHHHhcCceeEEEeecCCCCCC--hh---H--HHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 181 IAALGDTLAAKRCRISFKAPLSVEAT--ED---E--ITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~--~~---~--~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
.+.+++..++.|++.+....-.+..+ .. + ....-+++++.+.++-+.+++......+++++.+.|.
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 56677788889999887655443211 11 1 1233355666789999999998888899999998874
No 387
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=57.78 E-value=1.4e+02 Score=31.86 Aligned_cols=101 Identities=11% Similarity=0.022 Sum_probs=50.0
Q ss_pred CChhHhhhCCCCeEEE-eCchHHHHHHhhhCCC---ccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCC
Q 002301 685 KGIDSLRSSNYPIGYQ-VNSFARNYLVDELNID---ESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRC 760 (940)
Q Consensus 685 ~si~dL~~~~~~i~~~-~gs~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~ 760 (940)
-+++||. +.++... .+.....++.+ .+.. ......+++.+...+++.. |...+++.+.. .........
T Consensus 181 i~~~dL~--~~p~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~lp~~~-~~~~~~~~~ 252 (297)
T PRK11139 181 KTPEDLA--RHTLLHDDSREDWRAWFRA-AGLDDLNVQQGPIFSHSSMALQAAIH----GQGVALGNRVL-AQPEIEAGR 252 (297)
T ss_pred CCHHHhh--cCceEeecCcccHHHHHHH-hCCCCcCcccceeeCCHHHHHHHHHh----CCCeEecchhh-hHHHHHCCc
Confidence 4688888 5554332 22333445532 2331 1112346778888888888 55455555433 332233221
Q ss_pred cEEEeCCcc-ccCcceeecCCCCcchHHHHHHHH
Q 002301 761 EFSIVGQVF-TKNGWGFAFPRDSPLAVDISTAIL 793 (940)
Q Consensus 761 ~l~~~~~~~-~~~~~~~~~~k~spl~~~~~~~il 793 (940)
-...+.+.. ....+.++.+|+.+....+...+.
T Consensus 253 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~ 286 (297)
T PRK11139 253 LVCPFDTVLPSPNAFYLVCPDSQAELPKVAAFRQ 286 (297)
T ss_pred eecccccCcCCCccEEEEeccccccChhHHHHHH
Confidence 111222222 234678888887665555444443
No 388
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=57.74 E-value=2e+02 Score=30.19 Aligned_cols=83 Identities=12% Similarity=0.030 Sum_probs=55.4
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+... ....+-.+++..+.+..+ .+++.... +....++..|.+|++|+++....
T Consensus 89 ~~l~Ig~~~~-------------~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~ 147 (275)
T PRK03601 89 NELSIGASAS-------------LWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITTEA 147 (275)
T ss_pred ceEEEeccHH-------------HHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEcCC
Confidence 5689988631 123556677888877654 34455544 45788999999999999996432
Q ss_pred eecCcceeeeeccccccccEEEEEeccC
Q 002301 548 IITNRTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
. .. ..+ ...|+....+++++++..
T Consensus 148 ~--~~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 148 P--KM-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred C--cc-CCc-cEEEecceeEEEEecCch
Confidence 2 22 223 345788888988887654
No 389
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=57.39 E-value=13 Score=41.76 Aligned_cols=89 Identities=13% Similarity=0.190 Sum_probs=69.7
Q ss_pred hhhHHHHHHHHHHHHHHHhhhhhccCCCCCCCCcCCceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhhhhh
Q 002301 589 PMMWGVTAIFFLAVGAVVWILEHRLNDEFRGPPKRQVVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLIINSS 666 (940)
Q Consensus 589 ~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~ 666 (940)
...|..-++.+++.++++++.|.-...+-......+.-.++|+...+++..| ...|..+.+|++..++.++++-+-+.
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 4578888888999999999999874333222333567889999999888664 66899999999999999998888777
Q ss_pred ccceeeeeeee
Q 002301 667 YTASLTSILTV 677 (940)
Q Consensus 667 Yta~L~s~Lt~ 677 (940)
=-+-|-|=++.
T Consensus 314 PAGILGSGfAL 324 (654)
T KOG1419|consen 314 PAGILGSGFAL 324 (654)
T ss_pred ccccccchhhh
Confidence 77777776665
No 390
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=57.32 E-value=38 Score=37.62 Aligned_cols=83 Identities=12% Similarity=0.093 Sum_probs=58.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.+. .++..+..+.+...+..+++.++|+||-.+.+
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 898888744433 346788888998888877543 34545677788888888888899999977544
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-++.+++
T Consensus 96 v~D~aK~i 103 (366)
T PRK09423 96 TLDTAKAV 103 (366)
T ss_pred HHHHHHHH
Confidence 3444444
No 391
>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=56.96 E-value=52 Score=31.75 Aligned_cols=67 Identities=15% Similarity=0.050 Sum_probs=38.9
Q ss_pred eeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEe
Q 002301 493 SGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAP 572 (940)
Q Consensus 493 ~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~ 572 (940)
.++..+++..+.++.+ .++++... .+.+. .+.+|++|+++... +.....+. +.++.+..++++++
T Consensus 13 ~~~l~~~l~~~~~~~P-~v~i~i~~---------~~~~~-~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 77 (197)
T cd08422 13 RLHLAPLLAEFLARYP-DVRLELVL---------SDRLV-DLVEEGFDLAIRIG---ELPDSSLV-ARRLGPVRRVLVAS 77 (197)
T ss_pred HHHHHHHHHHHHHhCC-ceEEEEec---------Ccccc-chhhcCccEEEEeC---CCCCcchh-hhhhhccCcEEEEC
Confidence 3556678888888764 34454442 12333 45678899998622 22222232 35667777777776
Q ss_pred cc
Q 002301 573 VR 574 (940)
Q Consensus 573 ~~ 574 (940)
+.
T Consensus 78 ~~ 79 (197)
T cd08422 78 PA 79 (197)
T ss_pred HH
Confidence 43
No 392
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=56.50 E-value=1.4e+02 Score=31.95 Aligned_cols=56 Identities=14% Similarity=0.154 Sum_probs=38.2
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeec
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGD 545 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~ 545 (940)
++++||.. +|.. .=+.-.|++.+.+.+|+++++.. .+-.-+...|.+|++|+.+..
T Consensus 8 ~~I~ig~~---~w~~----------~~~~~~i~~~iLE~~Gy~Ve~~~---------~~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 8 KTVRFADV---GWTD----------ITATTALASVLLEGLGYQPKVTL---------LSVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred CeEEEeeC---Ccch----------HHHHHHHHHHHHHHcCCcceeEE---------ccHHHHHHHHHcCCceEeccc
Confidence 45888876 3321 12234667777788899977643 335677889999999998764
No 393
>TIGR03316 ygeW probable carbamoyltransferase YgeW. Members of this protein family include the ygeW gene product of Escherichia coli. The function is unknown. Members show homology to ornithine carbamoyltransferase (TIGR00658) and aspartate carbamoyltransferase (carbamoyltransferase), and therefore may belong to the carbamoyltransferases in function. Members often are found in a large, conserved genomic region associated with purine catabolism.
Probab=56.21 E-value=3.1e+02 Score=30.20 Aligned_cols=139 Identities=12% Similarity=0.133 Sum_probs=76.5
Q ss_pred EEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCC-chhH
Q 002301 33 NIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQD-AVTS 109 (940)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~-s~~a 109 (940)
.++.+|-..+ ..-+.+++.|+.++ +|..+.+...++.-.-.+.+.-+.+.++.-+++|+ -|.. ....
T Consensus 44 ~v~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~~~~~~~ 113 (357)
T TIGR03316 44 LGISLFRDNS---TRTRFSFASAMNLL-------GLHAQDLDEGKSQIGHGETVRETAEMISFFADGIGIRDDMYIGVGN 113 (357)
T ss_pred EEEEEEcCCC---cchHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEeCCCcccccc
Confidence 4666776654 25678999999886 45566665444332333444444455555344443 2221 0112
Q ss_pred HHHHHhhcc-----------CCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH---HHcCC------eEEEE
Q 002301 110 HVVSHVANE-----------LQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV---DHYGW------REVIA 169 (940)
Q Consensus 110 ~~va~~~~~-----------~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l---~~~~w------~~v~i 169 (940)
..+..+++. ..||+|.-. + +..+| .+++++++ ++||. .+|++
T Consensus 114 ~~l~~~a~~~~~~~~~~~~~s~vPVINa~--~----~~~HP------------tQaLaDl~Ti~e~~G~~~~l~g~kvai 175 (357)
T TIGR03316 114 AYMREVAKYVQEGYKDGVLEQRPPLVNLQ--C----DIDHP------------TQAMADIMTLQEKFGGIENLKGKKFAM 175 (357)
T ss_pred HHHHHHHHhhhhccccccccCCCCEEECC--C----CCCCc------------hHHHHHHHHHHHHhCCccccCCCEEEE
Confidence 233344444 689999732 2 22333 35577763 66774 36887
Q ss_pred EEE-cCCcchh--hHHHHHHHHhcCceeEEEee
Q 002301 170 IYV-DDDHGRN--GIAALGDTLAAKRCRISFKA 199 (940)
Q Consensus 170 i~~-d~~~g~~--~~~~l~~~l~~~g~~v~~~~ 199 (940)
++. |-.+|+. ....+...+...|.++....
T Consensus 176 ~~~~d~~~gr~~~v~~Sl~~~~~~~G~~v~~~~ 208 (357)
T TIGR03316 176 TWAYSPSYGKPLSVPQGIIGLMTRFGMDVTLAH 208 (357)
T ss_pred EeccccccCccchHHHHHHHHHHHcCCEEEEEC
Confidence 763 4445543 34556667777888776543
No 394
>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=55.72 E-value=1.6e+02 Score=28.87 Aligned_cols=129 Identities=13% Similarity=0.138 Sum_probs=67.6
Q ss_pred CcEEEEcCCCchhHHHHHHhhccCC--ccE-EeeecCCCCCCC-CCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEE
Q 002301 96 QTVAIIGPQDAVTSHVVSHVANELQ--VPL-LSFSATDPTLSS-LQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIY 171 (940)
Q Consensus 96 ~v~aiiGp~~s~~a~~va~~~~~~~--vP~-Is~~at~~~ls~-~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~ 171 (940)
++.+++||.+++-......++.... ... ++++.-.|...+ .+-.|.|- + ... +-+.++.-..=..+- +
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fv---s-~~~---f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFV---S-KEE---FERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------HHH---HHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEE---e-ech---hhhhhccccEEEEee-e
Confidence 6789999999998877777776543 333 333333333322 33455553 1 112 222222221111111 3
Q ss_pred EcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 172 VDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 172 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
.++.||.. .+.+.+.+++...++.... ..-+..++....+.++++..+.....+-+...+.
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il~~~-----------~~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~r 135 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCILDVD-----------PEGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRRR 135 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEEEET-----------HHHHHHHHHCTTTEEEEEEEESSHHHHHHHHHTT
T ss_pred cchhhhhc-cchhhHhhhcCCcEEEEcc-----------HHHHHHHHhcccCceEEEEEccchHHHHHHHhcc
Confidence 45567754 4667777777767665321 1234555555677777776665555555554443
No 395
>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=55.46 E-value=56 Score=33.96 Aligned_cols=77 Identities=10% Similarity=0.061 Sum_probs=52.0
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.. .+.|.......+.+++++.|.++... ....+.......++++.+.++|.||+..........++++.+.
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 456664 46677788889999999999887543 2112334455677777778899988876544444567777776
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 64
No 396
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=55.06 E-value=60 Score=33.73 Aligned_cols=77 Identities=4% Similarity=0.002 Sum_probs=52.6
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++.. +++|.......+.+++++.|..+..... ..+.......++++...++|.||+..........++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 456664 4567788889999999999988776432 12344555677777778899999864333334567777777
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 64
No 397
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=55.06 E-value=3e+02 Score=29.59 Aligned_cols=132 Identities=17% Similarity=0.201 Sum_probs=76.1
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCchhH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDAVTS 109 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~a 109 (940)
-.++.+|-..+ ..-+.+++.|+.++ +|..+.+...++.-.-.+.+.-+.+.++.-+++|+ .+..
T Consensus 39 k~~~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dt~~vls~y~D~iviR~~~~---- 104 (302)
T PRK14805 39 KSVVMLFEKPS---LRTRVSFDIGINKL-------GGHCLYLDQQNGALGKRESVADFAANLSCWADAIVARVFSH---- 104 (302)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHc-------CCcEEECCCCcCcCCCCcCHHHHHHHHHHhCCEEEEeCCCh----
Confidence 44777887654 35678999999986 34455443333332223344444444555455555 3322
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH---HHcC---CeEEEEEEEcCCcchhhHHH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV---DHYG---WREVIAIYVDDDHGRNGIAA 183 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l---~~~~---w~~v~ii~~d~~~g~~~~~~ 183 (940)
..+..+++..++|+|.- .+ +...| .+++++++ +++| -.+|+++. | +.+.+..
T Consensus 105 ~~~~~~a~~~~vPVINa--~~----~~~HP------------tQaL~Dl~Ti~e~~g~l~g~kva~vG-D---~~~v~~S 162 (302)
T PRK14805 105 STIEQLAEHGSVPVINA--LC----DLYHP------------CQALADFLTLAEQFGDVSKVKLAYVG-D---GNNVTHS 162 (302)
T ss_pred hHHHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHhCCcCCcEEEEEc-C---CCccHHH
Confidence 24556677788999973 22 22333 35566653 4565 25677775 3 2346677
Q ss_pred HHHHHhcCceeEEEee
Q 002301 184 LGDTLAAKRCRISFKA 199 (940)
Q Consensus 184 l~~~l~~~g~~v~~~~ 199 (940)
+...+...|.++....
T Consensus 163 ~~~~~~~~g~~v~~~~ 178 (302)
T PRK14805 163 LMYGAAILGATMTVIC 178 (302)
T ss_pred HHHHHHHcCCEEEEEC
Confidence 7777888888877654
No 398
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=54.95 E-value=1.8e+02 Score=27.47 Aligned_cols=122 Identities=13% Similarity=0.158 Sum_probs=75.7
Q ss_pred HHHHHHhc--CcEEEEcCCCc--hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcC
Q 002301 88 EALHLMEG--QTVAIIGPQDA--VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYG 163 (940)
Q Consensus 88 ~a~~li~~--~v~aiiGp~~s--~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~ 163 (940)
.+..++.+ +...|+||..- ..-..+..+.++.++|++..+++...+.++.- -+......++..+++.-.
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 34445554 89999999876 44566788999999999987766666665431 244455677778887766
Q ss_pred Ce---------EEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC-------CChhHHHHHHHHHh
Q 002301 164 WR---------EVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE-------ATEDEITDLLVKVA 218 (940)
Q Consensus 164 w~---------~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~ 218 (940)
|. -|.++..-..|....+..++... .=..|+....+.+. ...+++-+.|+++-
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 64 35566666666666666665544 11234433333322 34556666666653
No 399
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=54.53 E-value=16 Score=40.85 Aligned_cols=60 Identities=18% Similarity=0.329 Sum_probs=45.1
Q ss_pred HHHHHhhhhhccCCCCCCCCcCCceeehhhhhhHhhccc--cccccccchhhhHHHHHhhhhhhhh
Q 002301 602 VGAVVWILEHRLNDEFRGPPKRQVVTIFWFSFSTMFFAH--KEKTVSALGRLVLIIWLFVVLIINS 665 (940)
Q Consensus 602 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~ 665 (940)
.+.+++.+|+-.+ .++..++.-++|++..+|..-| .-.|.+.+++++...-.+.++++.+
T Consensus 359 FStlvY~~Ek~~~----~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlA 420 (477)
T KOG3713|consen 359 FSTLVYFAEKDEP----DTKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLA 420 (477)
T ss_pred HHHHHHHhhhcCC----CCCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhh
Confidence 3344566666543 3336678899999999998776 4489999999999998888877754
No 400
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=54.34 E-value=67 Score=33.32 Aligned_cols=60 Identities=20% Similarity=0.172 Sum_probs=36.3
Q ss_pred HHhhhhcccCCCCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHH
Q 002301 17 FVYRITAQASGRPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALA 87 (940)
Q Consensus 17 ~~~~~~~~~~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~ 87 (940)
++++|.++.......|+||+.-- ..+..+...++-+.++ .|++|+++.+.+-..|-.|+.
T Consensus 16 ~~~~~~~~~~~~~~~I~vg~~~~---p~a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 16 ALAACGAAAAKATKTIKVGATPG---PHAEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred HHHhhhhhccccCCcEEEeecCC---chHHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 34445543332226899997522 2233444466666665 489999999988777766653
No 401
>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=54.30 E-value=53 Score=36.67 Aligned_cols=81 Identities=10% Similarity=0.104 Sum_probs=57.1
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC--
Q 002301 154 AIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-- 231 (940)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-- 231 (940)
.+.++++.++ +++.+|+..... ..+.+.+.+++.|+.+.... +...++.+++...+...++.++|+||-.+.+
T Consensus 13 ~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 87 (374)
T cd08183 13 ELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGSV 87 (374)
T ss_pred HHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCchH
Confidence 4566677775 888888754332 67788889999998765433 3445667788888888999999999987554
Q ss_pred CcHHHHHH
Q 002301 232 NRGPVVFH 239 (940)
Q Consensus 232 ~~~~~~l~ 239 (940)
-++.+++.
T Consensus 88 ~D~aK~ia 95 (374)
T cd08183 88 IDAGKAIA 95 (374)
T ss_pred HHHHHHHH
Confidence 44444443
No 402
>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=53.92 E-value=55 Score=33.91 Aligned_cols=77 Identities=4% Similarity=-0.085 Sum_probs=52.7
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQ 242 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~ 242 (940)
+|++|.++ +.|.....+.+.+++++.|+++.....- .+.......++++...+.+.||+.... ......+..+.
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 46777764 5788888999999999999887654322 234445577777777789998887543 33334666666
Q ss_pred HcC
Q 002301 243 YLG 245 (940)
Q Consensus 243 ~~g 245 (940)
+.+
T Consensus 78 ~~~ 80 (267)
T cd01536 78 AAG 80 (267)
T ss_pred HCC
Confidence 655
No 403
>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=53.12 E-value=15 Score=27.06 Aligned_cols=28 Identities=21% Similarity=0.540 Sum_probs=22.7
Q ss_pred hhhHHHHHHHHHHHHHHHhhhhhccCCC
Q 002301 589 PMMWGVTAIFFLAVGAVVWILEHRLNDE 616 (940)
Q Consensus 589 ~~vW~~i~~~~~~~~~~~~~~~~~~~~~ 616 (940)
.++|.++..+++++++++|.+..+..+.
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~~k~~ 38 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPGRKKA 38 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcchh
Confidence 3689999999999999999997655443
No 404
>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=53.00 E-value=1.7e+02 Score=30.27 Aligned_cols=127 Identities=12% Similarity=0.044 Sum_probs=70.8
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
-+||.+.+...........|+..++++.+. +.+.......+..+...+.+.+.++++.+..+|+..... .+..
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~d~-~A~g 193 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAAGG-TGPG 193 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcCCC-CchH
Confidence 357777543222233445688888876431 233322333333344566677778877667888875444 4444
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEE
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREV 167 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v 167 (940)
+...+.+.++-++++..+. +.....|-+..+..+....+..+++.+..-.|+..
T Consensus 194 v~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 194 VIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred HHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 4555656667777765532 22223466666666666666666666655556443
No 405
>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=52.89 E-value=51 Score=34.53 Aligned_cols=80 Identities=8% Similarity=-0.061 Sum_probs=53.6
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQY 243 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~ 243 (940)
+|++|..+ +.|.......+.+++++.|.++.....-. ..+.......++.+...+++.||+..........+.++.+
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 36777754 67888888999999999998887643211 1123445567777777899999987543333224677777
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 664
No 406
>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=52.15 E-value=77 Score=33.04 Aligned_cols=75 Identities=12% Similarity=0.014 Sum_probs=49.9
Q ss_pred EEEEEEc-----CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHH
Q 002301 167 VIAIYVD-----DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVA 241 (940)
Q Consensus 167 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a 241 (940)
|+++.++ +.|.....+.+.+.+++.|..+..... . .........+..+...++|.||+...... ..+..+
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 5666655 778888899999999999988765432 2 22233345555666778999998764333 346667
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 66663
No 407
>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=52.01 E-value=55 Score=36.09 Aligned_cols=83 Identities=14% Similarity=0.131 Sum_probs=55.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.++++.+| +++.+|+.... .....+.+.+.+++.|+.+.... +...++.+.+...+..+++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~-~~~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTV-LKKSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHH-HHHHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 34566788888 88877764333 33556888889988887654332 4433466778888888888899998876543
Q ss_pred -CcHHHHH
Q 002301 232 -NRGPVVF 238 (940)
Q Consensus 232 -~~~~~~l 238 (940)
-+..+++
T Consensus 89 ~~D~aK~i 96 (349)
T cd08550 89 TLDTAKAV 96 (349)
T ss_pred HHHHHHHH
Confidence 3444444
No 408
>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=51.83 E-value=1.5e+02 Score=31.08 Aligned_cols=20 Identities=25% Similarity=0.492 Sum_probs=11.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEc
Q 002301 153 AAIAEIVDHYGWREVIAIYVD 173 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d 173 (940)
..++++++.++.. +++++.+
T Consensus 110 ~~~~~l~~~~~~~-vV~m~~~ 129 (258)
T cd00423 110 PEMAPLAAEYGAP-VVLMHMD 129 (258)
T ss_pred hHHHHHHHHcCCC-EEEECcC
Confidence 4567777888863 3344433
No 409
>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=51.00 E-value=85 Score=32.59 Aligned_cols=76 Identities=12% Similarity=-0.003 Sum_probs=53.6
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.+ +++|.....+.+.+++++.|..+.....- .+.+.....+..+...+.|.||+....... ..++++.+.
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 566665 46788888899999999999887754321 234455577778888899999987544333 457788776
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 64
No 410
>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=50.95 E-value=73 Score=33.81 Aligned_cols=77 Identities=5% Similarity=-0.007 Sum_probs=54.8
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEec-CCcHHHHHHHHHH
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTH-YNRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~-~~~~~~~l~~a~~ 243 (940)
|++|..+ +.|.....+.+.+++++.|.++...... .+.......++++.+.+++.||+... .......++++.+
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 5677754 6678888899999999999887764322 23444567777777789999988753 3334677788887
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 664
No 411
>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=50.76 E-value=1.8e+02 Score=25.83 Aligned_cols=79 Identities=14% Similarity=0.199 Sum_probs=41.9
Q ss_pred HHHcCCeEEEEEEEcCCc-chhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHH
Q 002301 159 VDHYGWREVIAIYVDDDH-GRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPV 236 (940)
Q Consensus 159 l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~ 236 (940)
++..|.+.|.-+..|++- +......+.+.+++.|+...+.-......+.+++....+.+...... |++||... -+..
T Consensus 23 la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~P-vl~hC~sG~Ra~~ 101 (110)
T PF04273_consen 23 LAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKP-VLAHCRSGTRASA 101 (110)
T ss_dssp HHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTS-EEEE-SCSHHHHH
T ss_pred HHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCC-EEEECCCChhHHH
Confidence 456899999988888653 45566678889999998876542222234566676666666665444 55555543 3433
Q ss_pred HH
Q 002301 237 VF 238 (940)
Q Consensus 237 ~l 238 (940)
++
T Consensus 102 l~ 103 (110)
T PF04273_consen 102 LW 103 (110)
T ss_dssp HH
T ss_pred HH
Confidence 33
No 412
>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=50.52 E-value=80 Score=32.87 Aligned_cols=78 Identities=8% Similarity=0.039 Sum_probs=50.9
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.+ ++.|.....+.+.+++++.|.++.....-. .........++.+...+.+.||+..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 566664 467888999999999999998876543221 1222445566667777889888864332334566666665
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
+.
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 53
No 413
>KOG1545 consensus Voltage-gated shaker-like K+ channel KCNA [Inorganic ion transport and metabolism]
Probab=50.20 E-value=11 Score=39.98 Aligned_cols=87 Identities=15% Similarity=0.181 Sum_probs=60.9
Q ss_pred CCCCcceeecCcchhhH-HHHHHHHHHHHHHHhhhhhccC-CCCCCCCcCCceeehhhhhhHhhccc--cccccccchhh
Q 002301 576 LDSNAWAFLSPFTPMMW-GVTAIFFLAVGAVVWILEHRLN-DEFRGPPKRQVVTIFWFSFSTMFFAH--KEKTVSALGRL 651 (940)
Q Consensus 576 ~~~~~~~~l~PF~~~vW-~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~ 651 (940)
....++++-+-+...+= ++++++|++++++++--.-+.- .+-..++..++..+||++..+|...+ .-.|.+..+++
T Consensus 343 HSkGLQILGqTl~aSmrElgLLIFFlfIgviLFsSavYFAEade~~S~F~SIPdaFWwavVTMTTVGYGDm~P~TvgGKI 422 (507)
T KOG1545|consen 343 HSKGLQILGQTLRASMRELGLLIFFLFIGVILFSSAVYFAEADEPESHFSSIPDAFWWAVVTMTTVGYGDMVPVTVGGKI 422 (507)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhceeeeeecCCCccCCCcCcccceEEEEEEEeeccccceecccCcee
Confidence 34445555555655554 5778888888888765544432 24556677789999999999998775 44799999999
Q ss_pred hHHHHHhhhhh
Q 002301 652 VLIIWLFVVLI 662 (940)
Q Consensus 652 l~~~w~~~~li 662 (940)
+-....+.+++
T Consensus 423 VGslCAiaGVL 433 (507)
T KOG1545|consen 423 VGSLCAIAGVL 433 (507)
T ss_pred hhhHHhhhhhe
Confidence 88776666543
No 414
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=50.13 E-value=2.3e+02 Score=29.80 Aligned_cols=87 Identities=13% Similarity=0.160 Sum_probs=52.2
Q ss_pred cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCc-hhHHHHHHhhccCCc
Q 002301 43 NVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDA-VTSHVVSHVANELQV 121 (940)
Q Consensus 43 ~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~a~~va~~~~~~~v 121 (940)
.+|+.-..++...+.+|| |+.+++.+ +..-++. ...+++..+.+.||-...+ ..-..+...+...++
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 445555556667777776 45565543 3322322 2334555567777766655 445568889999999
Q ss_pred cEEeeecCCCCCCCCCCCceEEec
Q 002301 122 PLLSFSATDPTLSSLQFPYFVRTT 145 (940)
Q Consensus 122 P~Is~~at~~~ls~~~~p~~~r~~ 145 (940)
|+|+.++..-.+ -|.-+++.
T Consensus 148 p~I~~gGag~k~----dp~~~~~~ 167 (268)
T PRK15116 148 PLVTTGGAGGQI----DPTQIQVV 167 (268)
T ss_pred CEEEECCcccCC----CCCeEEEE
Confidence 999865544333 25555544
No 415
>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=50.01 E-value=61 Score=33.96 Aligned_cols=79 Identities=11% Similarity=0.060 Sum_probs=53.4
Q ss_pred EEEEEEEc---CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHHH
Q 002301 166 EVIAIYVD---DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHVA 241 (940)
Q Consensus 166 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~a 241 (940)
+|++|..+ +.|.....+.+.+++++.|..+.....-. .+.......+.++...+.|.+|+..... .....++.+
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 36677643 56888889999999999998876542211 1344556677777778899998865332 234567777
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.|+
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
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=49.84 E-value=67 Score=33.48 Aligned_cols=77 Identities=8% Similarity=-0.003 Sum_probs=52.4
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHHH
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~~ 243 (940)
|+++..+ +.|.....+.+.+++++.|.++..... ..+.......+.++...+++.+|+.... ......+.++.+
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA---NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4566654 667888899999999999988765321 1234445666777777889999986443 223556777777
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 664
No 417
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=49.58 E-value=66 Score=35.27 Aligned_cols=82 Identities=10% Similarity=0.013 Sum_probs=57.5
Q ss_pred CCeEEEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHH
Q 002301 163 GWREVIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFH 239 (940)
Q Consensus 163 ~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~ 239 (940)
.-.+++++.. +++|.....+.+++++++.|+++.... +...+...-...++.+...+++.|++.... ......++
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 4457888874 567888889999999999998887532 211233333466777777889999986433 33467888
Q ss_pred HHHHcCC
Q 002301 240 VAQYLGM 246 (940)
Q Consensus 240 ~a~~~g~ 246 (940)
+|.+.|.
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 8888875
No 418
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=49.50 E-value=4.1e+02 Score=30.79 Aligned_cols=130 Identities=13% Similarity=0.180 Sum_probs=67.9
Q ss_pred EEcCCCchhHHHHHHhhc-cCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEc-CCcc
Q 002301 100 IIGPQDAVTSHVVSHVAN-ELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVD-DDHG 177 (940)
Q Consensus 100 iiGp~~s~~a~~va~~~~-~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d-~~~g 177 (940)
|++|.+...-.++..+.+ ...+=+|.++. - | ++|- +.....+...+..+...-+++.|+|.. ....
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--------V-VWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-C--------c-eEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 778887776666666654 23444554322 1 1 3452 222223333333444345789888843 3334
Q ss_pred hhhHHHHHHHHhcC--ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC------CcHHHHHHHHHHcCCCC
Q 002301 178 RNGIAALGDTLAAK--RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY------NRGPVVFHVAQYLGMLG 248 (940)
Q Consensus 178 ~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~------~~~~~~l~~a~~~g~~~ 248 (940)
+..++.+.+.+++. |+.+.... +. ..+...++..+. +++.|++.+.. +....++.......+.+
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~~-v~----~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~g 337 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIFN-VA----RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRN 337 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEE-CC----CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcCC
Confidence 56688888888876 45544322 22 223344444443 46777777543 12444555555444433
No 419
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=49.40 E-value=68 Score=33.73 Aligned_cols=77 Identities=5% Similarity=-0.091 Sum_probs=52.5
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~~ 243 (940)
|+++.. .+.|.......+.+++++.|..+..... ..+.......+..+...++|.||+.... +.....++.+.+
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 566654 3667888899999999999988765422 1233444567777888899999986433 223456777777
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|.
T Consensus 79 ~~i 81 (282)
T cd06318 79 AGV 81 (282)
T ss_pred CCC
Confidence 664
No 420
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=49.29 E-value=21 Score=30.78 Aligned_cols=78 Identities=21% Similarity=0.276 Sum_probs=40.1
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCcchhhHHHHHHhhccccccchhhhhccccccccccccC
Q 002301 830 SFSGLYLLCGLACLLALFIYLMQIVHQFSRHYPGDTESNGGSSRSARLQTFLSFVNEKEDEVKSRSKRRHVERTSYRSED 909 (940)
Q Consensus 830 ~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 909 (940)
.+.|+|-.+|.|.++|.++.++-+++-.. .|++.+... +.-.... --++.+.+|+-+...+.|.+..++..++++.
T Consensus 52 s~lg~ysawgagsfiatliillviffviy--~re~~~~~~-gt~~d~~-layr~ltrkkl~~ha~kkqniyeripyrp~r 127 (150)
T PF06084_consen 52 SMLGIYSAWGAGSFIATLIILLVIFFVIY--SREEEKNNN-GTEVDQC-LAYRSLTRKKLEQHASKKQNIYERIPYRPCR 127 (150)
T ss_pred hhhhhhhhcccchHHHHHHHHHHHhheeE--eccccccCC-Cceechh-hHHHHHHHHHHHHHHHhhcchhhhcCCCccc
Confidence 46788888899988887776665443222 222211111 1111111 1122233444443445555667888888774
Q ss_pred CC
Q 002301 910 EM 911 (940)
Q Consensus 910 ~~ 911 (940)
|.
T Consensus 128 q~ 129 (150)
T PF06084_consen 128 QN 129 (150)
T ss_pred cc
Confidence 43
No 421
>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=49.20 E-value=55 Score=34.57 Aligned_cols=79 Identities=13% Similarity=0.061 Sum_probs=50.9
Q ss_pred EEEEEEc---CCcchhhHHHHHHHHhcCceeEEEeecCCCC-CChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHH
Q 002301 167 VIAIYVD---DDHGRNGIAALGDTLAAKRCRISFKAPLSVE-ATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQ 242 (940)
Q Consensus 167 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~ 242 (940)
|++|..+ ++|....++.+.+++++.|..+......... .+.......+..+...++|.||+..........++++.
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~ 81 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVL 81 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHH
Confidence 6777764 4677788899999999999776654222110 12334456677777789999988654333345566666
Q ss_pred HcC
Q 002301 243 YLG 245 (940)
Q Consensus 243 ~~g 245 (940)
+.+
T Consensus 82 ~~~ 84 (280)
T cd06303 82 ASG 84 (280)
T ss_pred hCC
Confidence 655
No 422
>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=49.16 E-value=61 Score=33.19 Aligned_cols=78 Identities=9% Similarity=0.066 Sum_probs=53.9
Q ss_pred EEEEEEEc---CCcchhhHHHHHHHHhc--CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHH
Q 002301 166 EVIAIYVD---DDHGRNGIAALGDTLAA--KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHV 240 (940)
Q Consensus 166 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~ 240 (940)
+|++|.++ +.++....+.+.+.+++ .++++.....- .+..+....+.++...+++.|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADSQ---SDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecCC---CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 36777753 46778888899999988 77777654322 233466777777777789999988666555446677
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.+.
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 776654
No 423
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=48.28 E-value=17 Score=33.83 Aligned_cols=58 Identities=17% Similarity=0.281 Sum_probs=41.3
Q ss_pred HHHHHHHhc--CcEEEEcCCCc--hhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEec
Q 002301 87 AEALHLMEG--QTVAIIGPQDA--VTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTT 145 (940)
Q Consensus 87 ~~a~~li~~--~v~aiiGp~~s--~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~ 145 (940)
+++.+++.+ +++.++|.... .....+..+++..++|+++.... ...-+..+|.+.-..
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~-kg~i~~~hp~~~G~~ 63 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG-KGVIPEDHPLFLGYL 63 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG-TTSSTTTSTTEEEES
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc-ccccCCCCchhcccC
Confidence 455666665 89999998766 78899999999999999985433 333345568776533
No 424
>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=47.90 E-value=97 Score=32.30 Aligned_cols=76 Identities=12% Similarity=0.104 Sum_probs=50.8
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.+ ++.|.....+.+.+.+++.|..+.....- .+.......++.+...+.+.||+.........+++.+++.
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 566664 46777788889999999999887654321 2334455667777777888888865433444566666665
Q ss_pred C
Q 002301 245 G 245 (940)
Q Consensus 245 g 245 (940)
+
T Consensus 79 ~ 79 (269)
T cd06281 79 D 79 (269)
T ss_pred C
Confidence 5
No 425
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=47.73 E-value=1.7e+02 Score=29.54 Aligned_cols=91 Identities=19% Similarity=0.186 Sum_probs=52.3
Q ss_pred CCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeCCccccCc
Q 002301 694 NYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVGQVFTKNG 773 (940)
Q Consensus 694 ~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 773 (940)
+.+|++.--.....||.+ .+.. .+++...-.-|..- ..|-.|++++-.....-+-.+ +|.++.+.+ .+.
T Consensus 115 ~~rIATkYp~it~~yf~~-~gv~-~~iv~l~GsvE~aP------~~GlAD~IvDivsTG~TLr~N--gL~~ie~Il-~s~ 183 (215)
T PRK01686 115 RLRVATKYPNIARRYFAE-KGEQ-VEIIKLYGSVELAP------LVGLADAIVDIVETGNTLRAN--GLVEVEEIM-DIS 183 (215)
T ss_pred CCEEEeCCHHHHHHHHHH-cCCe-EEEEECcCceeecc------ccCCccEEEEeecChHHHHHC--cCEEeeEEE-eeE
Confidence 667888777778888854 4554 55665544444322 226678888765555443333 566665444 444
Q ss_pred ceeecCCCCc--chHHHHHHHHhc
Q 002301 774 WGFAFPRDSP--LAVDISTAILKL 795 (940)
Q Consensus 774 ~~~~~~k~sp--l~~~~~~~il~l 795 (940)
-.++..+.|. -.+.++..+.+|
T Consensus 184 A~LI~n~~s~~~k~~~i~~l~~~l 207 (215)
T PRK01686 184 ARLIVNRASLKLKREEIRPLIEKL 207 (215)
T ss_pred EEEEEecccchhhHHHHHHHHHHH
Confidence 5555566665 224555555554
No 426
>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=47.64 E-value=66 Score=36.22 Aligned_cols=78 Identities=6% Similarity=-0.028 Sum_probs=55.5
Q ss_pred cCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC--CcHHHHHH
Q 002301 162 YGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY--NRGPVVFH 239 (940)
Q Consensus 162 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~--~~~~~~l~ 239 (940)
.+.+++.+|+...-......+.+.+.|++.|+++..-..+.+.++.+.+...+..+++.++|+||-.+.+ -+..+++.
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 4668888887433333346788999999999877654455555677888899999999999999976543 45555544
No 427
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=47.62 E-value=2e+02 Score=31.34 Aligned_cols=124 Identities=10% Similarity=0.061 Sum_probs=67.7
Q ss_pred CceEEEEEEeec-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEe-cCCCCHHHHHHHHHHHHhc----CcEEEEc
Q 002301 29 PSVVNIGALLSF-STNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQ-DCNHSGFLALAEALHLMEG----QTVAIIG 102 (940)
Q Consensus 29 ~~~i~IG~l~~~-~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~-D~~~~~~~a~~~a~~li~~----~v~aiiG 102 (940)
.+.++++.+... ..........|+.-|+++.+ .++..... ....+...+.+.+.+++++ ++.||+.
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g--------~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~ 231 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKG--------IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIA 231 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcC--------CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEE
Confidence 356777766432 22233445678888877632 22222222 2333556677777888764 4789997
Q ss_pred CCCchhHHHHHHhhccC---CccEEeeecCCCCCCCCCC-CceEEecCChHHHHHHHHHHHHH
Q 002301 103 PQDAVTSHVVSHVANEL---QVPLLSFSATDPTLSSLQF-PYFVRTTQSDQYQMAAIAEIVDH 161 (940)
Q Consensus 103 p~~s~~a~~va~~~~~~---~vP~Is~~at~~~ls~~~~-p~~~r~~psd~~~~~ai~~~l~~ 161 (940)
..+.. +..+...+.+. .+|+|++..+........- |.+.-...+...++...++++..
T Consensus 232 ~~d~~-A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 232 NNDAM-AMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred CCchH-HHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 54443 33344444444 5698887654322211111 33555666667777777776543
No 428
>PF14981 FAM165: FAM165 family
Probab=47.50 E-value=40 Score=24.02 Aligned_cols=33 Identities=15% Similarity=0.094 Sum_probs=28.2
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 002301 828 LKSFSGLYLLCGLACLLALFIYLMQIVHQFSRH 860 (940)
Q Consensus 828 l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~ 860 (940)
++++--++||+..-.++.++.|..--+|+++|.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567888999999999999999999888887765
No 429
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=47.01 E-value=1.5e+02 Score=31.93 Aligned_cols=79 Identities=24% Similarity=0.220 Sum_probs=44.6
Q ss_pred CCCCChhHhhhCCCCeEEEe-CchHHHH---HHhhhCCCccCccc--CCCHHHHHHHhhcCCCCCceEEEEechhh---H
Q 002301 682 SPIKGIDSLRSSNYPIGYQV-NSFARNY---LVDELNIDESRLVP--LNSPEEYAKALKDGPHKGGVAAVVDDRAY---A 752 (940)
Q Consensus 682 ~~i~si~dL~~~~~~i~~~~-gs~~~~~---l~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~g~~~a~~~~~~~---~ 752 (940)
..|+++.||. |++|.+.. ||-..-. +.+..+.....+.. .-...|..+++++ |.+||++.-... .
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 5799999999 99988763 4433222 22344444322211 1133455777888 899998775421 1
Q ss_pred HHHHhcCCcEEEeC
Q 002301 753 ELFLSTRCEFSIVG 766 (940)
Q Consensus 753 ~~~~~~~~~l~~~~ 766 (940)
-..+...|++.+++
T Consensus 201 i~el~~~~~i~lv~ 214 (321)
T COG2358 201 ISELATTCDIVLVP 214 (321)
T ss_pred HHHHHhhCCeEEEe
Confidence 13334456666554
No 430
>cd08483 PBP2_HvrB The C-terminal substrate-binding domain of LysR-type transcriptional regulator HvrB, an activator of S-adenosyl-L-homocysteine hydrolase expression, contains the type 2 periplasmic binding fold. The transcriptional regulator HvrB of the LysR family is required for the light-dependent activation of both ahcY, which encoding the enzyme S-adenosyl-L-homocysteine hydrolase (AdoHcyase) that responsible for the reversible hydrolysis of AdoHcy to adenosine and homocysteine, and orf5, a gene of unknown. The topology of this C-terminal domain of HvrB 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 transp
Probab=46.31 E-value=2.7e+02 Score=26.47 Aligned_cols=64 Identities=16% Similarity=0.168 Sum_probs=37.0
Q ss_pred eeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeeceeeecCcceeeeeccccccccEEEEEec
Q 002301 495 FCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIAIITNRTKMADFTQPYIESGLVVVAPV 573 (940)
Q Consensus 495 ~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~~t~~R~~~v~ft~p~~~~~~~~vv~~ 573 (940)
+-..++..+.++.+ .++++... ...+.++.+|++|+++... +.....+. ..++.+..+++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~l~~~~----------~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 77 (190)
T cd08483 14 WLMPRLGSFWAKHP-EIELSLLP----------SADLVDLRPDGIDVAIRYG---NGDWPGLE-SEPLTAAPFVVVAAP 77 (190)
T ss_pred hHHhhHHHHHHHCC-CceEEEEe----------cCCcCCCCCCCcCEEEEec---CCCCCCcE-EEeecccceEeeeCH
Confidence 34456777777664 33444432 1234578899999998632 21222233 356777778877754
No 431
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=46.05 E-value=1.3e+02 Score=32.44 Aligned_cols=80 Identities=10% Similarity=0.027 Sum_probs=52.8
Q ss_pred CeEEEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHH
Q 002301 164 WREVIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVA 241 (940)
Q Consensus 164 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a 241 (940)
-+.|+++.. ++.|.......+.+++++.|..+.....- .+.+.-...+..+...+.|.||+..........++++
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 457888875 35677788899999999999887754321 1233334566677777899998865432234556666
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.|.
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 66553
No 432
>cd08475 PBP2_CrgA_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 6. 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 a
Probab=45.87 E-value=1.9e+02 Score=27.75 Aligned_cols=67 Identities=18% Similarity=0.075 Sum_probs=37.8
Q ss_pred cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeC--CccccCcceeecCCCCcchHHHHHHH
Q 002301 720 LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVG--QVFTKNGWGFAFPRDSPLAVDISTAI 792 (940)
Q Consensus 720 ~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~i 792 (940)
....++.+...+.+.. |...+++.+. .++..... ..+..+. .......+.++.+|+..........+
T Consensus 128 ~~~~~~~~~~~~~v~~----g~gi~~~p~~-~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08475 128 RLQFDDGEAIADAALA----GLGIAQLPTW-LVADHLQR-GELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAAV 196 (199)
T ss_pred cEEECCHHHHHHHHHh----CCCEEeeeHH-HHHhHhhc-CcEEEecCCCcCCCccEEEEeCCcccCCHHHHHHH
Confidence 3456788899999998 5545555543 33333322 2344332 22334567888888776555444443
No 433
>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=45.35 E-value=4.1e+02 Score=28.41 Aligned_cols=40 Identities=20% Similarity=0.119 Sum_probs=23.8
Q ss_pred CcchhHHHHHH-HHHHHHHhhhhcccCCCCceEEEEEEeecC
Q 002301 1 MKLSGVMLLMI-FYCELFVYRITAQASGRPSVVNIGALLSFS 41 (940)
Q Consensus 1 Mk~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~i~IG~l~~~~ 41 (940)
||++.++++++ +++.+++.+|... ...++.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGD-GGEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccC-CCCCceEEEEeCCCCC
Confidence 78876655543 3343444566643 3456789999865543
No 434
>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=44.99 E-value=85 Score=34.58 Aligned_cols=84 Identities=11% Similarity=0.160 Sum_probs=54.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCC--CChhHHHHHHHHHhcCCCeEEEEEec
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVE--ATEDEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
..+.++++.++.+++.+|+.... .....+.+.+.+++.|+.+......... ++.+.+...+..+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~-~~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENT-YAAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcH-HHHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 34667788888899888873332 2333578888999998866433333332 566777788888777 8999887754
Q ss_pred C--CcHHHHH
Q 002301 231 Y--NRGPVVF 238 (940)
Q Consensus 231 ~--~~~~~~l 238 (940)
+ -+..+++
T Consensus 90 Gs~~D~aK~v 99 (348)
T cd08175 90 GTINDITKYV 99 (348)
T ss_pred cHHHHHHHHH
Confidence 3 3444444
No 435
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=44.91 E-value=1.5e+02 Score=26.86 Aligned_cols=71 Identities=11% Similarity=0.113 Sum_probs=42.9
Q ss_pred EEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC----CcHHHHHHHHHHcC
Q 002301 170 IYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY----NRGPVVFHVAQYLG 245 (940)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~----~~~~~~l~~a~~~g 245 (940)
....++.-.-+..-+...++..|.++.+-.... .....+..+.+.++++|++++.. ..+..+++++++.+
T Consensus 5 ~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~v------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~ 78 (122)
T cd02071 5 AKPGLDGHDRGAKVIARALRDAGFEVIYTGLRQ------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELG 78 (122)
T ss_pred EecCCChhHHHHHHHHHHHHHCCCEEEECCCCC------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcC
Confidence 333344344455666677888888887654332 12355566667788998888654 33455566666655
Q ss_pred C
Q 002301 246 M 246 (940)
Q Consensus 246 ~ 246 (940)
.
T Consensus 79 ~ 79 (122)
T cd02071 79 A 79 (122)
T ss_pred C
Confidence 4
No 436
>PF15050 SCIMP: SCIMP protein
Probab=44.79 E-value=1.1e+02 Score=27.06 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=4.8
Q ss_pred HHHHHHHHHHH
Q 002301 840 LACLLALFIYL 850 (940)
Q Consensus 840 ~g~~la~~vf~ 850 (940)
++++|++++|.
T Consensus 19 vS~~lglIlyC 29 (133)
T PF15050_consen 19 VSVVLGLILYC 29 (133)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 437
>PRK00865 glutamate racemase; Provisional
Probab=44.77 E-value=2.4e+02 Score=29.51 Aligned_cols=36 Identities=8% Similarity=0.221 Sum_probs=24.6
Q ss_pred HHHHhcCcEEEEcCCCchhHHHHHHhhccCCccEEe
Q 002301 90 LHLMEGQTVAIIGPQDAVTSHVVSHVANELQVPLLS 125 (940)
Q Consensus 90 ~~li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is 125 (940)
..|.+.++.+|+=+-.+..+.++..+-+..++|+|+
T Consensus 61 ~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 61 EFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 334445888887666665555666666777999996
No 438
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=44.50 E-value=68 Score=31.41 Aligned_cols=29 Identities=31% Similarity=0.524 Sum_probs=26.2
Q ss_pred EEEEcCCCchhHHHHHHhhccCCccEEee
Q 002301 98 VAIIGPQDAVTSHVVSHVANELQVPLLSF 126 (940)
Q Consensus 98 ~aiiGp~~s~~a~~va~~~~~~~vP~Is~ 126 (940)
++|+||..++-+.....+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57999999999999999999999999973
No 439
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=43.73 E-value=1.6e+02 Score=35.64 Aligned_cols=67 Identities=16% Similarity=0.148 Sum_probs=47.7
Q ss_pred cCCeEEEEEEEcCC---------cch---hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEe
Q 002301 162 YGWREVIAIYVDDD---------HGR---NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHT 229 (940)
Q Consensus 162 ~~w~~v~ii~~d~~---------~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~ 229 (940)
|..-+|++|..-|+ -|+ .....+...+++.|.++.....++ .+.+.+...+.+..+ ++|+||..+
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 45668888876543 122 345677888999999988776676 566778888877754 799999885
Q ss_pred cC
Q 002301 230 HY 231 (940)
Q Consensus 230 ~~ 231 (940)
..
T Consensus 261 G~ 262 (633)
T PRK14498 261 GT 262 (633)
T ss_pred CC
Confidence 54
No 440
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=43.66 E-value=4.7e+02 Score=28.56 Aligned_cols=132 Identities=14% Similarity=0.130 Sum_probs=73.3
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEE--EcCCCchhH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAI--IGPQDAVTS 109 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~ai--iGp~~s~~a 109 (940)
-.++.+|-..+ ..-+.+++.|+.++ +|..+.+...++.-.-.+.+.-+.+.++.-+++| =.+..
T Consensus 46 k~l~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~iviR~~~~---- 111 (334)
T PRK12562 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGHGQ---- 111 (334)
T ss_pred CEEEEEECCCC---chhHHHHHHHHHHc-------CCeEEEeCCccccCCCCcCHHHHHHHHHHhCCEEEEECCch----
Confidence 34787887764 35678999999886 4555544333333222334444444445433333 34322
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH---HHcCC-----eEEEEEEEcCCcchhhH
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV---DHYGW-----REVIAIYVDDDHGRNGI 181 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l---~~~~w-----~~v~ii~~d~~~g~~~~ 181 (940)
..+..+++...||+|.- .+ +...| .+++++++ +++|+ .+|+++. |..+ +..
T Consensus 112 ~~~~~~a~~~~vPVINa--~~----~~~HP------------tQaLaDl~Ti~e~~g~~~l~gl~va~vG-D~~~--~v~ 170 (334)
T PRK12562 112 EVVETLAEYAGVPVWNG--LT----NEFHP------------TQLLADLLTMQEHLPGKAFNEMTLVYAG-DARN--NMG 170 (334)
T ss_pred HHHHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHhCCCCcCCcEEEEEC-CCCC--CHH
Confidence 24566777789999973 22 22333 35566663 66653 3454443 3212 355
Q ss_pred HHHHHHHhcCceeEEEe
Q 002301 182 AALGDTLAAKRCRISFK 198 (940)
Q Consensus 182 ~~l~~~l~~~g~~v~~~ 198 (940)
..+...+...|.++...
T Consensus 171 ~S~~~~~~~~G~~v~~~ 187 (334)
T PRK12562 171 NSMLEAAALTGLDLRLV 187 (334)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 66666677778776654
No 441
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=43.43 E-value=1.5e+02 Score=32.32 Aligned_cols=79 Identities=11% Similarity=0.037 Sum_probs=54.5
Q ss_pred eEEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHH
Q 002301 165 REVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQ 242 (940)
Q Consensus 165 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~ 242 (940)
+.++++..+ +.|.......+.+++.+.|..+..... ..+.......++.+...+.|.||+..........+..+.
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~ 141 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---GKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAE 141 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHh
Confidence 578888864 668888889999999999977654321 123345567777787788999998754433445667776
Q ss_pred HcCC
Q 002301 243 YLGM 246 (940)
Q Consensus 243 ~~g~ 246 (940)
+.|.
T Consensus 142 ~~~i 145 (342)
T PRK10014 142 EKGI 145 (342)
T ss_pred hcCC
Confidence 6653
No 442
>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=43.21 E-value=85 Score=32.78 Aligned_cols=80 Identities=14% Similarity=0.127 Sum_probs=52.0
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc-HHHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR-GPVVFHVAQ 242 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~-~~~~l~~a~ 242 (940)
+|++|.++ +.|.......+.+.+++.|.++.....-. ..+.......+.++...+.|.||+...... ....+..+.
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 46777654 66778888999999999998877543211 123344556677777778998888643322 245666666
Q ss_pred HcCC
Q 002301 243 YLGM 246 (940)
Q Consensus 243 ~~g~ 246 (940)
+.|+
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6553
No 443
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=42.85 E-value=2.6e+02 Score=25.43 Aligned_cols=27 Identities=30% Similarity=0.206 Sum_probs=17.6
Q ss_pred ChHHHHHHHHHHHHHcCCeEEEEEEEcC
Q 002301 147 SDQYQMAAIAEIVDHYGWREVIAIYVDD 174 (940)
Q Consensus 147 sd~~~~~ai~~~l~~~~w~~v~ii~~d~ 174 (940)
+-..|-+.+-++....||.-+. ++.|.
T Consensus 15 s~~~Q~~~~~~~a~~~g~~i~~-~~~d~ 41 (137)
T cd00338 15 SLERQREALREYAARNGLEVVG-EYEDA 41 (137)
T ss_pred CHHHHHHHHHHHHHHCCCEEEE-EEEeC
Confidence 3346777788888777887554 44443
No 444
>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=42.78 E-value=1.8e+02 Score=29.86 Aligned_cols=89 Identities=15% Similarity=0.193 Sum_probs=53.4
Q ss_pred CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchh-HHHHHHhhccCC
Q 002301 42 TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVT-SHVVSHVANELQ 120 (940)
Q Consensus 42 ~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~-a~~va~~~~~~~ 120 (940)
..+|+.-..++.-.+.++| |..+++... ..-++. ...+++..+...||....+.. -..+...+...+
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 4456655677777788887 445555433 222322 234555556777777655443 455788899999
Q ss_pred ccEEeeecCCCCCCCCCCCceEEecC
Q 002301 121 VPLLSFSATDPTLSSLQFPYFVRTTQ 146 (940)
Q Consensus 121 vP~Is~~at~~~ls~~~~p~~~r~~p 146 (940)
+|+|+..+..-.+ .|.-+|...
T Consensus 128 ip~I~s~g~g~~~----dp~~i~i~d 149 (231)
T cd00755 128 IPVISSMGAGGKL----DPTRIRVAD 149 (231)
T ss_pred CCEEEEeCCcCCC----CCCeEEEcc
Confidence 9999864433322 255555543
No 445
>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=42.70 E-value=1.1e+02 Score=32.00 Aligned_cols=77 Identities=5% Similarity=-0.078 Sum_probs=52.2
Q ss_pred EEEEEE---cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHH
Q 002301 167 VIAIYV---DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQ 242 (940)
Q Consensus 167 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~ 242 (940)
|++|.+ ++.|+....+.+.+++++.|..+..... ..+.+.....++.+...+++.||+.... +.....++.+.
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 456664 4578888899999999999988775422 1234445566777777789999887543 33345677777
Q ss_pred HcCC
Q 002301 243 YLGM 246 (940)
Q Consensus 243 ~~g~ 246 (940)
+.+.
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7664
No 446
>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=42.68 E-value=1.4e+02 Score=31.10 Aligned_cols=78 Identities=10% Similarity=0.039 Sum_probs=50.3
Q ss_pred CCeEEEEEEE---------cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc
Q 002301 163 GWREVIAIYV---------DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR 233 (940)
Q Consensus 163 ~w~~v~ii~~---------d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~ 233 (940)
..+.|++|.+ ++.|.....+.+.+.+++.|+.+..... . .. +.....+.+...++|.||+......
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~--~~--~~~~~~~~l~~~~~dgiii~~~~~~ 76 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S--SP--DRDWLARYLASGRADGVILIGQHDQ 76 (275)
T ss_pred CceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C--ch--hHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 3567888885 3446777788899999999988765421 1 11 2334445555678999888654333
Q ss_pred HHHHHHHHHHcCC
Q 002301 234 GPVVFHVAQYLGM 246 (940)
Q Consensus 234 ~~~~l~~a~~~g~ 246 (940)
...++++.+.|.
T Consensus 77 -~~~~~~~~~~~i 88 (275)
T cd06295 77 -DPLPERLAETGL 88 (275)
T ss_pred -hHHHHHHHhCCC
Confidence 345677777664
No 447
>PRK07377 hypothetical protein; Provisional
Probab=42.59 E-value=58 Score=31.47 Aligned_cols=61 Identities=15% Similarity=0.175 Sum_probs=44.3
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVG 544 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~ 544 (940)
.++|+|+... . ...+..-+-.++.++.+.++++.+ .++++| .+-..+.+.+.+|++|++.+
T Consensus 75 ~~~Rlgv~~~-------~-~~~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEI-------E-TETSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEec-------c-ccccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 4689998743 0 122234455778889999999988 555555 45899999999999998876
No 448
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity []. This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined [, ]. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1VE4_A 2VD3_B 1NH7_A 1NH8_A 1Z7N_G 1Z7M_E 1O64_A 1O63_A 1USY_F 1Q1K_A ....
Probab=41.83 E-value=25 Score=33.70 Aligned_cols=102 Identities=18% Similarity=0.293 Sum_probs=56.2
Q ss_pred CCCChhHhhhCCCCeEEEeCchHHHHHHhhhCCCccCcccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcE
Q 002301 683 PIKGIDSLRSSNYPIGYQVNSFARNYLVDELNIDESRLVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEF 762 (940)
Q Consensus 683 ~i~si~dL~~~~~~i~~~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l 762 (940)
++++++||.+ +.+|++.--.....||.+ .+.+ .+++...-.-|..-.+ |-.|++++-.....-+-++ +|
T Consensus 57 ~~~~~~~l~~-~~rIATkyp~l~~~yf~~-~g~~-~~ii~l~GsvE~ap~~------glAD~IvDiv~TG~TLr~N--gL 125 (163)
T PF01634_consen 57 PYKSVEDLKA-GLRIATKYPNLTRRYFAE-KGIN-VEIIKLSGSVELAPPL------GLADAIVDIVETGTTLRAN--GL 125 (163)
T ss_dssp CGCCGGGGSS-TEEEEES-HHHHHHHHHH-CT-E-EEEEE-SS-TTHHHHT------TSSSEEEEEESSSHHHHHT--TE
T ss_pred CCCCHHHhcc-CCEEEECCHHHHHHHHHH-cCCc-EEEEEccCCccccCCC------CCCCEEEEeccCcHHHHHC--CC
Confidence 3677888865 667888777778888853 3433 4566555445544443 5567888766554433333 67
Q ss_pred EEeCCccccCcceeecCCCCc--chHHHHHHHHhcc
Q 002301 763 SIVGQVFTKNGWGFAFPRDSP--LAVDISTAILKLS 796 (940)
Q Consensus 763 ~~~~~~~~~~~~~~~~~k~sp--l~~~~~~~il~l~ 796 (940)
..++..+. +.-.++..|.+. -.+.++..+.+|.
T Consensus 126 ~~i~~i~~-s~a~LI~n~~~~~~k~~~i~~l~~~l~ 160 (163)
T PF01634_consen 126 KEIETILE-SSARLIANKASLKEKEEKIDELVTRLR 160 (163)
T ss_dssp EEEEEEEE-EEEEEEEEHHHHHHCHHHHHHHHHHHH
T ss_pred EEeEEEEE-EEEEEEEcCccchhhHHHHHHHHHHHH
Confidence 77755444 444454455443 2234555555443
No 449
>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=41.61 E-value=1.8e+02 Score=27.74 Aligned_cols=65 Identities=12% Similarity=0.114 Sum_probs=35.8
Q ss_pred ccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeC--CccccCcceeecCCCCcchHHHHHH
Q 002301 721 VPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVG--QVFTKNGWGFAFPRDSPLAVDISTA 791 (940)
Q Consensus 721 ~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~ 791 (940)
..+++.+...+.+.. |..-+++.+.....+ ... ..+.... +......++++.+|+.+....+...
T Consensus 124 ~~~~~~~~~~~~v~~----g~Gi~~~p~~~~~~~-~~~-~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 124 MRFEQFSMLAQAAVA----GLGVALLPRFLIEEE-LAR-GRLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred eEeccHHHHHHHHHh----CCCeEEecHHHHHHH-HHC-CCEEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 345678888889988 555566655443322 222 2333221 2223456788888877655444443
No 450
>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=41.47 E-value=62 Score=32.09 Aligned_cols=71 Identities=13% Similarity=0.106 Sum_probs=50.2
Q ss_pred HHHHHhcCCCCCCCCEEEEEEe-cCCCCHHHHHHHHHHHHhc----CcEEEEcCCCchhHHHHHHhhccCCccEEee
Q 002301 55 AVDDVNSDPTTLGGTKLKLQMQ-DCNHSGFLALAEALHLMEG----QTVAIIGPQDAVTSHVVSHVANELQVPLLSF 126 (940)
Q Consensus 55 Ave~IN~~~~iL~g~~l~~~~~-D~~~~~~~a~~~a~~li~~----~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~ 126 (940)
-.+.||+.+-++||--+....+ |.+.+|......+..+.+. ++.+|+||-......+. .++...++|++-.
T Consensus 4 l~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la~-~lA~~Lg~p~v~v 79 (191)
T TIGR01744 4 LKQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPAI-MTGLKLGVPVVFA 79 (191)
T ss_pred HHHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHHH-HHHHHHCCCEEEE
Confidence 3578999999999888877654 6666886655444444433 78999998887765443 4667778999853
No 451
>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=40.81 E-value=1.5e+02 Score=30.84 Aligned_cols=76 Identities=4% Similarity=-0.067 Sum_probs=51.0
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.. ++.|.....+.+.+++++.|..+..... . .+.+.-...++.+...++|.||+....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG-H--HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC-C--CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 455553 4778888899999999999988775322 1 233444567777777899999987643333 236777766
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 63
No 452
>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=40.62 E-value=1.4e+02 Score=30.76 Aligned_cols=75 Identities=8% Similarity=-0.026 Sum_probs=50.6
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++..+ +.|.....+.+.+++++.|.++..... ..+.+.....++++...++|.+|+...... ..++..+.+.
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 4566653 556778889999999999988765422 123445566777787889999998754322 3566666655
Q ss_pred C
Q 002301 245 G 245 (940)
Q Consensus 245 g 245 (940)
|
T Consensus 78 ~ 78 (259)
T cd01542 78 N 78 (259)
T ss_pred C
Confidence 5
No 453
>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=40.39 E-value=4.4e+02 Score=27.33 Aligned_cols=118 Identities=11% Similarity=0.016 Sum_probs=62.4
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
=+||.+.+...........|++-++++.|.. .+ ..+..........+...+.+.+.++++.++.||+...+ ..+..
T Consensus 122 ~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~nd-~~A~g 197 (265)
T cd06354 122 GKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VP-DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAAAG-GTGNG 197 (265)
T ss_pred CeEEEEecccChHHHHHHHHHHHHHHHHhcc--CC-CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEECCC-CCchH
Confidence 4577775432222222236888888876521 11 12222222212123455666777888767888887544 44445
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAI 155 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai 155 (940)
+...+.+.++.+|++..+. +.....|.+..+...-..++.-+
T Consensus 198 v~~al~~~gisIvGfD~~~--~~~~~~p~lttv~~~~~~~~~~~ 239 (265)
T cd06354 198 VFQAAKEAGVYAIGVDSDQ--YYLAPGVVLTSMVKRVDVAVYDA 239 (265)
T ss_pred HHHHHHhcCCeEEEecCcc--cccCCCcEEEEEeehhHHHHHHH
Confidence 5566677778888876633 33333465555544433333333
No 454
>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=40.14 E-value=1.4e+02 Score=31.10 Aligned_cols=75 Identities=7% Similarity=0.056 Sum_probs=50.3
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
++++.. +++|.......+.+.+++.|.++.....- .+.......++.+...+.|.||+....... ..++.+.+.
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 455654 47788899999999999999887654322 223445567777777889988876543332 446677665
Q ss_pred C
Q 002301 245 G 245 (940)
Q Consensus 245 g 245 (940)
+
T Consensus 78 ~ 78 (270)
T cd06296 78 G 78 (270)
T ss_pred C
Confidence 5
No 455
>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=39.86 E-value=1.6e+02 Score=28.36 Aligned_cols=77 Identities=12% Similarity=0.058 Sum_probs=50.7
Q ss_pred CCeEEEEEEEcCCcch---hhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh-cCCCeEEEEEecC-----Cc
Q 002301 163 GWREVIAIYVDDDHGR---NGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA-LTESRIIVVHTHY-----NR 233 (940)
Q Consensus 163 ~w~~v~ii~~d~~~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-~~~~~viv~~~~~-----~~ 233 (940)
..-++++|...|+-+. .....+...+++.|+++.....++ .+.+.+.+.+++.. ..+.|+||..+.. +.
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~--Dd~~~i~~~l~~~~~~~~~DlVIttGGtg~g~~D~ 80 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK--DDIYQIRAQVSAWIADPDVQVILITGGTGFTGRDV 80 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCCcCCCCCCC
Confidence 3457788765443222 224567777888999988877777 57778888888764 3578999987543 34
Q ss_pred HHHHHHHH
Q 002301 234 GPVVFHVA 241 (940)
Q Consensus 234 ~~~~l~~a 241 (940)
..+.+..+
T Consensus 81 t~eal~~l 88 (163)
T TIGR02667 81 TPEALEPL 88 (163)
T ss_pred cHHHHHHH
Confidence 44455444
No 456
>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=39.66 E-value=91 Score=34.17 Aligned_cols=84 Identities=10% Similarity=0.020 Sum_probs=56.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY- 231 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~- 231 (940)
..+.+.++.+|.+++.+|+....+-. ..+.+.+.+++.+..+ + ..+.+.++.+.+......+++.++|.||-.+.+
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 45677889999999988875443333 6677888887765432 2 233334566778888888888899999877543
Q ss_pred -CcHHHHHH
Q 002301 232 -NRGPVVFH 239 (940)
Q Consensus 232 -~~~~~~l~ 239 (940)
-+..+++.
T Consensus 89 ~iD~aK~ia 97 (337)
T cd08177 89 TIDLAKAIA 97 (337)
T ss_pred HHHHHHHHH
Confidence 34444443
No 457
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=39.35 E-value=2.1e+02 Score=31.60 Aligned_cols=101 Identities=7% Similarity=0.025 Sum_probs=61.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEe--ecCCCCCChhHHHHHHHHHhcCCC---eEEEE
Q 002301 153 AAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFK--APLSVEATEDEITDLLVKVALTES---RIIVV 227 (940)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~--~~~~~~~~~~~~~~~l~~l~~~~~---~viv~ 227 (940)
..+.+.++.++++++.+|+.... .....+.+.+.+++.|+.+... ....+.++.+.+...++.+++.+. +.||.
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 98 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIA 98 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 34566677778899988885443 4457788888898888765421 122223466778888888876654 88877
Q ss_pred EecC--CcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 228 HTHY--NRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 228 ~~~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
.+.+ -++..++......| ..++-|-|.
T Consensus 99 vGGGsv~D~aK~iA~~~~~g---ip~i~IPTT 127 (358)
T PRK00002 99 LGGGVIGDLAGFAAATYMRG---IRFIQVPTT 127 (358)
T ss_pred EcCcHHHHHHHHHHHHhcCC---CCEEEcCch
Confidence 6543 44544544333333 334444443
No 458
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=39.26 E-value=1.4e+02 Score=32.63 Aligned_cols=80 Identities=6% Similarity=0.005 Sum_probs=57.1
Q ss_pred CeEEEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc-HHHHHHH
Q 002301 164 WREVIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR-GPVVFHV 240 (940)
Q Consensus 164 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~-~~~~l~~ 240 (940)
-..|+++.. +++|....++.+.+++++.|..+..... ..+.......++.+...++|.||+...... ....+..
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~ 101 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKE 101 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHH
Confidence 466777774 5779999999999999999988776422 124455667788888889999998754322 3456667
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.|.
T Consensus 102 ~~~~~i 107 (330)
T PRK10355 102 AKQEGI 107 (330)
T ss_pred HHHCCC
Confidence 766553
No 459
>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=39.24 E-value=1.1e+02 Score=32.44 Aligned_cols=79 Identities=8% Similarity=0.064 Sum_probs=51.2
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHVAQ 242 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~a~ 242 (940)
+|++|..+ +.|.......+.+++++.|..+.... ....+.......+..+...++|.||+..... .....++++.
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 45666778889999999998876331 1112334445667776677899888864332 2356778888
Q ss_pred HcCC
Q 002301 243 YLGM 246 (940)
Q Consensus 243 ~~g~ 246 (940)
+.|.
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 7764
No 460
>PF15179 Myc_target_1: Myc target protein 1
Probab=39.10 E-value=53 Score=31.46 Aligned_cols=38 Identities=5% Similarity=0.175 Sum_probs=27.4
Q ss_pred ccceecccchhHHHH-HHHHHHHHHHHHHHHHHHHhhcc
Q 002301 823 VDRLQLKSFSGLYLL-CGLACLLALFIYLMQIVHQFSRH 860 (940)
Q Consensus 823 ~~~l~l~~~~g~f~i-l~~g~~la~~vf~~e~~~~~~~~ 860 (940)
.+.++++++...|.+ +++|+++..+|+++-.+..|+|.
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRRA 51 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRRA 51 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 445677888888877 46788888888877766555544
No 461
>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=38.99 E-value=1.2e+02 Score=32.50 Aligned_cols=78 Identities=9% Similarity=0.003 Sum_probs=52.2
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~~ 243 (940)
|++|.. ++.|.......+.+++++.|..+....... .+.......++.+...++|.||+.... ......++++.+
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 466788889999999999998876431111 234455667777777789999986432 223567777777
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 664
No 462
>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=38.91 E-value=1.1e+02 Score=29.58 Aligned_cols=67 Identities=18% Similarity=0.044 Sum_probs=37.3
Q ss_pred ccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEeC--CccccCcceeecCCCCcchHHHHHHHH
Q 002301 721 VPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIVG--QVFTKNGWGFAFPRDSPLAVDISTAIL 793 (940)
Q Consensus 721 ~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~~~~il 793 (940)
...++.....+.+.. |...+++.+...... ... ..+..+. .......++++.+|+......+...+.
T Consensus 123 ~~~~~~~~~~~~v~~----g~Gi~~lp~~~~~~~-~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (197)
T cd08470 123 WRCNSGVALLDAALK----GMGLAQLPDYYVDEH-LAA-GRLVPVLEDYRPPDEGIWALYPHNRHLSPKVRLLVD 191 (197)
T ss_pred EEECCHHHHHHHHHc----CCcEEEechHHhHHH-HHc-CCcEEccccccCCCCcEEEEeCCchhccHHHHHHHH
Confidence 456788899999998 555566555333332 222 2333332 122345677888887665555544443
No 463
>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=38.73 E-value=1.5e+02 Score=30.67 Aligned_cols=76 Identities=11% Similarity=0.015 Sum_probs=45.4
Q ss_pred EEEEEEc------CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHH
Q 002301 167 VIAIYVD------DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHV 240 (940)
Q Consensus 167 v~ii~~d------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~ 240 (940)
|++|.++ +.|.....+.+.+.+++.|+.+.....-. ..+......+.+...+.+.||+....... ..+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~ 77 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGYDLVLLPVDP---DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVAL 77 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCceEEEecCCC---cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHH
Confidence 4556554 67888889999999999998876553221 22222333333455678988886543222 23455
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.+.
T Consensus 78 ~~~~~i 83 (268)
T cd06271 78 LLERGF 83 (268)
T ss_pred HHhcCC
Confidence 555553
No 464
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=38.69 E-value=92 Score=32.89 Aligned_cols=68 Identities=15% Similarity=0.099 Sum_probs=34.5
Q ss_pred HHHhhhhcccCCCCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhc
Q 002301 16 LFVYRITAQASGRPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEG 95 (940)
Q Consensus 16 ~~~~~~~~~~~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~ 95 (940)
+++++|+.. +...++|+||..---. . ...+++.+.+-+. .|++++++..++...+..| |.+.
T Consensus 18 l~l~gC~~~-~~~~~~I~IG~~~~~~------~-~~~~~~~~~l~~~----~G~~Vel~~f~~~~~~~~A------La~G 79 (271)
T PRK11063 18 LALVGCGQD-EKDPNHIKVGVIVGAE------Q-QVAEVAQKVAKEK----YGLDVELVTFNDYVLPNEA------LSKG 79 (271)
T ss_pred HHHHhcccc-cCCCCcEEEEeCCCCh------H-HHHHHHHHHHHHh----cCCeEEEEEecCcHHHHHH------HHcC
Confidence 344566432 2333469999873111 1 1133333444333 2689999988754333332 3344
Q ss_pred CcEEEE
Q 002301 96 QTVAII 101 (940)
Q Consensus 96 ~v~aii 101 (940)
.+++-.
T Consensus 80 dID~~~ 85 (271)
T PRK11063 80 DIDANA 85 (271)
T ss_pred Ccceec
Confidence 666643
No 465
>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=38.64 E-value=2.2e+02 Score=30.65 Aligned_cols=79 Identities=8% Similarity=0.030 Sum_probs=52.9
Q ss_pred CeEEEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHH
Q 002301 164 WREVIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVA 241 (940)
Q Consensus 164 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a 241 (940)
-+.|+++.. ++.|.......+.+++.+.|..+.....- .+.......+..+...+.|.||+..........+.++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 136 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSD---DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKL 136 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHH
Confidence 467888875 36677888999999999999887654321 2333345667777778899988865433233556666
Q ss_pred HHcC
Q 002301 242 QYLG 245 (940)
Q Consensus 242 ~~~g 245 (940)
.+.+
T Consensus 137 ~~~~ 140 (327)
T TIGR02417 137 QNEG 140 (327)
T ss_pred HhcC
Confidence 6555
No 466
>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=38.08 E-value=1.2e+02 Score=31.72 Aligned_cols=77 Identities=8% Similarity=-0.069 Sum_probs=50.8
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc-HHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR-GPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~-~~~~l~~a~~ 243 (940)
+++|.. ++.|.......+.+.+++.|.++..... ..+...-.+.++++...++|.||+...... ....+..+.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~ 78 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA---ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQ 78 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC---CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHH
Confidence 566664 4678888889999999999988764321 123344456677777788999987643322 3456677776
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|.
T Consensus 79 ~~i 81 (277)
T cd06319 79 AKI 81 (277)
T ss_pred CCC
Confidence 663
No 467
>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=38.08 E-value=1.3e+02 Score=32.33 Aligned_cols=78 Identities=9% Similarity=0.078 Sum_probs=52.5
Q ss_pred EEEEEEEc--CCcchhhHHHHHHHHhc--CceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEe-cCCcHHHHHHH
Q 002301 166 EVIAIYVD--DDHGRNGIAALGDTLAA--KRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHT-HYNRGPVVFHV 240 (940)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~-~~~~~~~~l~~ 240 (940)
+|++|..+ +.|.......+.+++++ .|..+.... ...+.......+.++...+++.||+.. .+......+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 36666653 56777778899999998 787766542 122344455677778888999888864 33334567788
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 877675
No 468
>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=38.07 E-value=1.6e+02 Score=30.39 Aligned_cols=76 Identities=7% Similarity=0.041 Sum_probs=50.4
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.+ ++.|.......+.+++++.|..+...... .+.+.....+..+...+.+.|++........ .++++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~~~ 77 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD---DDPETERETVETLIARQVDALIVAGSLPPDD-PYYLCQKA 77 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHHhc
Confidence 455554 46677788889999999999887664322 2334455677788888999988875433332 25666665
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (264)
T cd06274 78 GL 79 (264)
T ss_pred CC
Confidence 53
No 469
>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=37.91 E-value=2e+02 Score=28.71 Aligned_cols=86 Identities=10% Similarity=0.011 Sum_probs=48.5
Q ss_pred EEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC----CcHHHHHHHH
Q 002301 166 EVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY----NRGPVVFHVA 241 (940)
Q Consensus 166 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~----~~~~~~l~~a 241 (940)
+|.+....+|.-.-+..-+...++.+|.++.+-.. +.....+++.+++.++|+|.+.+.. .....++++.
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~------~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~l 159 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGR------DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDKL 159 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECCC------CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHHH
Confidence 45444444454455566666677777777765321 1123455566666778887777542 3455566666
Q ss_pred HHcCCCCCCeEEEecC
Q 002301 242 QYLGMLGTGYVWIATS 257 (940)
Q Consensus 242 ~~~g~~~~~~~wi~~~ 257 (940)
++.|....-.+|++..
T Consensus 160 ~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 160 KEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHcCCCCCCEEEEECh
Confidence 6666543334555543
No 470
>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=37.74 E-value=3.4e+02 Score=25.24 Aligned_cols=91 Identities=13% Similarity=-0.017 Sum_probs=55.3
Q ss_pred HHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCC--CCCChhHH---HHHHHHHhcCCCeEEEEEe
Q 002301 155 IAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLS--VEATEDEI---TDLLVKVALTESRIIVVHT 229 (940)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~--~~~~~~~~---~~~l~~l~~~~~~viv~~~ 229 (940)
+.+.+...+-....-+|.+.... .....+.++++..|+++....... ......|. .+.+..+...+.+.||+.+
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 33333333323333444443221 456788999999999887665331 11122222 3334444445789999998
Q ss_pred cCCcHHHHHHHHHHcCC
Q 002301 230 HYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 230 ~~~~~~~~l~~a~~~g~ 246 (940)
...+...+++++++.|.
T Consensus 108 gD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 108 GDSDFVPLVERLRELGK 124 (149)
T ss_pred CCccHHHHHHHHHHcCC
Confidence 88899999999999874
No 471
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=37.73 E-value=2.4e+02 Score=26.70 Aligned_cols=98 Identities=10% Similarity=0.000 Sum_probs=57.9
Q ss_pred ecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCe
Q 002301 144 TTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESR 223 (940)
Q Consensus 144 ~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 223 (940)
..+....|++.+++.++..+..--.++.+.-.-....++.+.+.+.. -..+.....+.+..+..++...+.++...+.+
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~~~ 101 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPCGDIGLVSDYLEALTNEGVA 101 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCCCCHHHHHHHHHHHHhcCCC
Confidence 44555678899999888766543344444444444445555444321 12333333343334556677777777654556
Q ss_pred EEEEEecCCcHHHHHHHHH
Q 002301 224 IIVVHTHYNRGPVVFHVAQ 242 (940)
Q Consensus 224 viv~~~~~~~~~~~l~~a~ 242 (940)
.+++.+..+....++..+.
T Consensus 102 ~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 102 SVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred EEEEEeCCCCHHHHHHHHh
Confidence 7777777788888887775
No 472
>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=37.60 E-value=1.9e+02 Score=30.02 Aligned_cols=76 Identities=5% Similarity=-0.025 Sum_probs=51.6
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++.++ +.|.......+.+.+++.|.++..... ..+.....+.++.+....+|.|++....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANT---GDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELTRR 77 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHHHc
Confidence 5667653 678888899999999999988754221 1233455567777888889988887543333 346677665
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
+.
T Consensus 78 ~i 79 (265)
T cd06285 78 GV 79 (265)
T ss_pred CC
Confidence 53
No 473
>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=37.49 E-value=1.7e+02 Score=30.24 Aligned_cols=76 Identities=18% Similarity=0.081 Sum_probs=51.2
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++.. ++.|.......+.+++++.|..+... ....+.......++++.+.+.+.+|+..... ....++.+.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSGYDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhC
Confidence 566665 46778888899999999999887753 2122344456777778777888888764332 33556667666
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 53
No 474
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=37.43 E-value=2.4e+02 Score=29.24 Aligned_cols=99 Identities=14% Similarity=0.084 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEee--cCCCCCChhHHHHHHHHHhcCCCeEEEE
Q 002301 150 YQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKA--PLSVEATEDEITDLLVKVALTESRIIVV 227 (940)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~~~~l~~l~~~~~~viv~ 227 (940)
+.+.++.+.+..-+ ++|.++....+-.....+.++.... |..|+... .+. ..++ ..++++|+++++|++++
T Consensus 95 Dl~~~Ll~~a~~~~-~~vfllGgkp~V~~~a~~~l~~~~p--~l~ivg~h~GYf~---~~e~-~~i~~~I~~s~pdil~V 167 (253)
T COG1922 95 DLVEALLKRAAEEG-KRVFLLGGKPGVAEQAAAKLRAKYP--GLKIVGSHDGYFD---PEEE-EAIVERIAASGPDILLV 167 (253)
T ss_pred HHHHHHHHHhCccC-ceEEEecCCHHHHHHHHHHHHHHCC--CceEEEecCCCCC---hhhH-HHHHHHHHhcCCCEEEE
Confidence 34666666665554 4566666554433333444444333 33444432 332 2333 68999999999999999
Q ss_pred EecCCcHHHHHHHHHHcCCCCCCeEEEecCc
Q 002301 228 HTHYNRGPVVFHVAQYLGMLGTGYVWIATSW 258 (940)
Q Consensus 228 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~ 258 (940)
.+..+.-..++..-.+.- +.-++++.++
T Consensus 168 gmG~P~QE~wi~~~~~~~---~~~v~igVGg 195 (253)
T COG1922 168 GMGVPRQEIWIARNRQQL---PVAVAIGVGG 195 (253)
T ss_pred eCCCchhHHHHHHhHHhc---CCceEEeccc
Confidence 987766666665544432 3346666554
No 475
>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=37.37 E-value=1.6e+02 Score=31.08 Aligned_cols=79 Identities=13% Similarity=0.043 Sum_probs=53.5
Q ss_pred eEEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc-HHHHHHHH
Q 002301 165 REVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR-GPVVFHVA 241 (940)
Q Consensus 165 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~-~~~~l~~a 241 (940)
+.|++|..+ +.|.......+.+++++.|..+..... ..+.+.....+..+...+.|.||+...... ....++.+
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 567778889999999999988765421 124445567788888889999998753322 23455666
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.+.
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66553
No 476
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=37.24 E-value=1.7e+02 Score=30.75 Aligned_cols=97 Identities=8% Similarity=0.044 Sum_probs=67.7
Q ss_pred CceEEecCChHHHHHHHHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHh
Q 002301 139 PYFVRTTQSDQYQMAAIAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVA 218 (940)
Q Consensus 139 p~~~r~~psd~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~ 218 (940)
.++++-..+. .-+++..++.+++|.+.+.+|...++ ++.+++.|+..|.+.+..+.-- .+.++. -.+..
T Consensus 162 D~vIQNganS-~VG~~ViQlaka~GiktinvVRdR~~-----ieel~~~Lk~lGA~~ViTeeel---~~~~~~--k~~~~ 230 (354)
T KOG0025|consen 162 DSVIQNGANS-GVGQAVIQLAKALGIKTINVVRDRPN-----IEELKKQLKSLGATEVITEEEL---RDRKMK--KFKGD 230 (354)
T ss_pred CeeeecCccc-HHHHHHHHHHHHhCcceEEEeecCcc-----HHHHHHHHHHcCCceEecHHHh---cchhhh--hhhcc
Confidence 4777766554 46889999999999999999986554 8899999999998766543221 111111 11123
Q ss_pred cCCCeEEEEEecCCcHHHHHHHHHHcCC
Q 002301 219 LTESRIIVVHTHYNRGPVVFHVAQYLGM 246 (940)
Q Consensus 219 ~~~~~viv~~~~~~~~~~~l~~a~~~g~ 246 (940)
..+++.-+-+..+..+..+.+.+.+-|.
T Consensus 231 ~~~prLalNcVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 231 NPRPRLALNCVGGKSATEIARYLERGGT 258 (354)
T ss_pred CCCceEEEeccCchhHHHHHHHHhcCce
Confidence 4577777778888888888888876553
No 477
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=37.02 E-value=1.4e+02 Score=32.75 Aligned_cols=81 Identities=7% Similarity=-0.088 Sum_probs=54.5
Q ss_pred CeEEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHH
Q 002301 164 WREVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHV 240 (940)
Q Consensus 164 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~ 240 (940)
=+.|++|..+ +.|.....+.+.+++++.|..+........ .+.+.....++.+.+.++|.||+.... ......+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~-~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY-YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC-CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 3788888855 667778888999999999988876533211 233444567777777889999887543 3323455 6
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.|.
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 666664
No 478
>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=36.98 E-value=1.1e+02 Score=32.16 Aligned_cols=76 Identities=11% Similarity=0.074 Sum_probs=52.6
Q ss_pred EEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC-CcHHHHHHHHHH
Q 002301 167 VIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY-NRGPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~-~~~~~~l~~a~~ 243 (940)
|++|..+ +.|.....+.+.+++++.|..+... ... +.......++++...+++.||+.... .....+++++.+
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 5678888899999999999887643 211 33344556777777889999887543 345567788887
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.|.
T Consensus 78 ~~i 80 (289)
T cd01540 78 YNM 80 (289)
T ss_pred CCC
Confidence 764
No 479
>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=36.78 E-value=1.1e+02 Score=32.46 Aligned_cols=74 Identities=8% Similarity=0.043 Sum_probs=52.7
Q ss_pred eEEEEEEEc--CCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHH
Q 002301 165 REVIAIYVD--DDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQ 242 (940)
Q Consensus 165 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~ 242 (940)
+.+++|.++ +.|....+..+.++++++|..+.....-. + .+....++.+.+.+.|.+|+.+...+...+.....
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~---~-~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~ 77 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD---D-EEKEEYIELLLQRRVDGIILASSENDDEELRRLIK 77 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT---T-HHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC---c-hHHHHHHHHHHhcCCCEEEEecccCChHHHHHHHH
Confidence 467888865 66888899999999999998876543322 2 33338888899999999999966655344443333
No 480
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=36.75 E-value=5.5e+02 Score=30.20 Aligned_cols=129 Identities=18% Similarity=0.176 Sum_probs=78.6
Q ss_pred CCHHHHHHHHHH-HHhcCcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH
Q 002301 80 HSGFLALAEALH-LMEGQTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI 158 (940)
Q Consensus 80 ~~~~~a~~~a~~-li~~~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~ 158 (940)
..-..++..+.+ +..+++++||.-+.++ ..+ -+...||+|... .+.....+++..
T Consensus 47 ~~~~~~v~~~~~~~~~~~~dviIsrG~ta--~~i---~~~~~iPVv~i~------------------~s~~Dil~al~~- 102 (538)
T PRK15424 47 LGFEKAVTYIRKRLATERCDAIIAAGSNG--AYL---KSRLSVPVILIK------------------PSGFDVMQALAR- 102 (538)
T ss_pred hhHHHHHHHHHHHHhhCCCcEEEECchHH--HHH---HhhCCCCEEEec------------------CCHhHHHHHHHH-
Confidence 344566666744 5556899999644433 222 335689999632 122234555533
Q ss_pred HHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHH
Q 002301 159 VDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVF 238 (940)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l 238 (940)
.+.++ .++++|...+. ...++.+.+.+ ++++... .+ .+.+|....++++++.+.++||-.+. ..
T Consensus 103 a~~~~-~~iavv~~~~~--~~~~~~~~~~l---~~~i~~~-~~---~~~~e~~~~v~~lk~~G~~~vvG~~~------~~ 166 (538)
T PRK15424 103 ARKLT-SSIGVVTYQET--IPALVAFQKTF---NLRIEQR-SY---VTEEDARGQINELKANGIEAVVGAGL------IT 166 (538)
T ss_pred HHhcC-CcEEEEecCcc--cHHHHHHHHHh---CCceEEE-Ee---cCHHHHHHHHHHHHHCCCCEEEcCch------HH
Confidence 35554 45777764433 23466666666 4444432 22 36789999999999999999885432 35
Q ss_pred HHHHHcCCCC
Q 002301 239 HVAQYLGMLG 248 (940)
Q Consensus 239 ~~a~~~g~~~ 248 (940)
..|.++||.+
T Consensus 167 ~~A~~~g~~g 176 (538)
T PRK15424 167 DLAEEAGMTG 176 (538)
T ss_pred HHHHHhCCce
Confidence 6788888754
No 481
>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=36.52 E-value=68 Score=35.81 Aligned_cols=79 Identities=4% Similarity=-0.076 Sum_probs=54.2
Q ss_pred HcCCeEEEEEEEcCCcc-hhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecC--CcHHHH
Q 002301 161 HYGWREVIAIYVDDDHG-RNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHY--NRGPVV 237 (940)
Q Consensus 161 ~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~--~~~~~~ 237 (940)
.++.+++.+|+....+- ....+.+.+.|++.|+.+..-..+.+.++.+.+...+..+++.++|.||-.+.+ -++.+.
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~ 99 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKA 99 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 34458888887443322 245678888998889877644445545677888999999999999999987554 344444
Q ss_pred HH
Q 002301 238 FH 239 (940)
Q Consensus 238 l~ 239 (940)
+.
T Consensus 100 ia 101 (375)
T cd08179 100 MW 101 (375)
T ss_pred HH
Confidence 43
No 482
>PRK14804 ornithine carbamoyltransferase; Provisional
Probab=36.44 E-value=5.8e+02 Score=27.54 Aligned_cols=132 Identities=14% Similarity=0.200 Sum_probs=73.5
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
-.|+.+|-..+ ..-+..++.|+.++ +|..+.+....+... ...+..+.+.++..+++|+-=..... .
T Consensus 44 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~~~~-~~~~~dt~~vls~~~D~iv~R~~~~~--~ 110 (311)
T PRK14804 44 RSLAMLFQKTS---TRTRVSFEVAMTEM-------GGHGIYLDWMASNFQ-LSDIDLEARYLSRNVSVIMARLKKHE--D 110 (311)
T ss_pred CEEEEEEcCCc---hhHHHHHHHHHHHc-------CCeEEEeCCCccccc-cccHHHHHHHHHhcCCEEEEeCCChH--H
Confidence 34777777654 35678999999986 455554432212111 12233334555666766653111111 3
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHH---HHcC---C--eEEEEEEEcCCcchhhHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIV---DHYG---W--REVIAIYVDDDHGRNGIAA 183 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l---~~~~---w--~~v~ii~~d~~~g~~~~~~ 183 (940)
+..++....||+|.-+ ++ ...| .+++++++ +++| + .+|+++. | +.+.+..
T Consensus 111 ~~~~a~~~~vPVINag-~~-----~~HP------------tQaL~Dl~Ti~e~~g~~~l~g~~va~vG-d---~~rv~~S 168 (311)
T PRK14804 111 LLVMKNGSQVPVINGC-DN-----MFHP------------CQSLADIMTIALDSPEIPLNQKQLTYIG-V---HNNVVNS 168 (311)
T ss_pred HHHHHHHCCCCEEECC-CC-----CCCh------------HHHHHHHHHHHHHhCCCCCCCCEEEEEC-C---CCcHHHH
Confidence 4456777889999732 22 2233 35677763 5565 2 4676665 2 2355666
Q ss_pred HHHHHhcCceeEEEe
Q 002301 184 LGDTLAAKRCRISFK 198 (940)
Q Consensus 184 l~~~l~~~g~~v~~~ 198 (940)
+...+...|.+|...
T Consensus 169 l~~~~~~~G~~v~~~ 183 (311)
T PRK14804 169 LIGITAALGIHLTLV 183 (311)
T ss_pred HHHHHHHcCCEEEEE
Confidence 667777788877654
No 483
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=36.44 E-value=1.7e+02 Score=29.91 Aligned_cols=90 Identities=16% Similarity=0.249 Sum_probs=61.4
Q ss_pred CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH-HHHhhccCC
Q 002301 42 TNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV-VSHVANELQ 120 (940)
Q Consensus 42 ~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~-va~~~~~~~ 120 (940)
..+|+.-..+|+-.+.+|| |..++ ... +.+...+...+++..+...||-...+-.+.+ +...|...+
T Consensus 79 ~~iGk~Kv~vm~eri~~In------P~c~V--~~~----~~f~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~k 146 (263)
T COG1179 79 GDIGKPKVEVMKERIKQIN------PECEV--TAI----NDFITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNK 146 (263)
T ss_pred hhcccHHHHHHHHHHHhhC------CCceE--eeh----HhhhCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcC
Confidence 3457777788888888888 53333 333 3334445567777888999998777766544 677899999
Q ss_pred ccEEeeecCCCCCCCCCCCceEEecCC
Q 002301 121 VPLLSFSATDPTLSSLQFPYFVRTTQS 147 (940)
Q Consensus 121 vP~Is~~at~~~ls~~~~p~~~r~~ps 147 (940)
+|+||..+..-.+. |.-++++--
T Consensus 147 i~vIss~Gag~k~D----PTri~v~Di 169 (263)
T COG1179 147 IPVISSMGAGGKLD----PTRIQVADI 169 (263)
T ss_pred CCEEeeccccCCCC----CceEEeeec
Confidence 99999776654443 666766543
No 484
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=36.44 E-value=1.5e+02 Score=31.62 Aligned_cols=80 Identities=3% Similarity=-0.036 Sum_probs=53.5
Q ss_pred CeEEEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHHH
Q 002301 164 WREVIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFHV 240 (940)
Q Consensus 164 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~~ 240 (940)
-+.++++.+ ++.|.......+.+++++.|..+...... .+.+.....++++...+.+.+|+..... .....+..
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 567888875 35677888999999999999887653221 2334455667777777888887764332 22356677
Q ss_pred HHHcCC
Q 002301 241 AQYLGM 246 (940)
Q Consensus 241 a~~~g~ 246 (940)
+.+.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 776664
No 485
>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=36.39 E-value=1.7e+02 Score=30.12 Aligned_cols=75 Identities=12% Similarity=0.085 Sum_probs=50.1
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|+++.. ++.|.....+.+.+.+++.|..+.....- ... +....++++...+++.||+....... ..++.+.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~---~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~~~ 76 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINTD---DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECRRN 76 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcCC---CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhc
Confidence 455554 46788888899999999999887654221 222 55667777777889988886543332 447777766
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 77 ~i 78 (266)
T cd06278 77 GI 78 (266)
T ss_pred CC
Confidence 64
No 486
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=36.16 E-value=5.7e+02 Score=27.41 Aligned_cols=85 Identities=9% Similarity=-0.055 Sum_probs=49.3
Q ss_pred ceEEEEecCcccccceEEeCCCcceeeeeHHHHHHHHHhCCCccCeEEeeCCCCCCCCCHhHHHHHHHcCcccEEeecee
Q 002301 468 RHLRIGVPNRVSFREFVSVKGSEMTSGFCIDVFTAAINLLPYAVPYKLIPFGDGHNNPSCTELVRLITAGVYDAAVGDIA 547 (940)
Q Consensus 468 ~~l~v~v~~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~~~~~~~~~~~~~~~~n~~~~~~~~~l~~g~~Di~~~~~~ 547 (940)
..++||+... + ...+-.+++..+.+..+ .+++.... ++. ..++.+.+|++|+++..-.
T Consensus 97 ~~l~I~~~~~--~-----------~~~~~~~~l~~f~~~~P-~v~v~i~~-------~~~-~~~~~l~~g~~D~~i~~~~ 154 (319)
T PRK10216 97 LKFELAAESP--L-----------MMIMLNALSKRIYQRYP-QATIKLRN-------WDY-DSLDAITRGEVDIGFTGRE 154 (319)
T ss_pred CEEEEEecch--h-----------HHHHHHHHHHHHHHHCC-CCEEEEEe-------CCc-chHHHHhcCCccEEEecCC
Confidence 3688887631 1 22455678888877664 23455543 222 3689999999999986321
Q ss_pred eecC-------cceeeeeccccccccEEEEEeccC
Q 002301 548 IITN-------RTKMADFTQPYIESGLVVVAPVRK 575 (940)
Q Consensus 548 ~t~~-------R~~~v~ft~p~~~~~~~~vv~~~~ 575 (940)
.... +...+ -+.|+....+++++++..
T Consensus 155 ~~~~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~h 188 (319)
T PRK10216 155 SHPRSRELLSLLPLAI-DFEVLFSDLPCVWLRKDH 188 (319)
T ss_pred CCcccccccccccccc-ceeeeeecceEEEEeCCC
Confidence 1100 01112 234555677788887654
No 487
>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=36.15 E-value=3.4e+02 Score=29.97 Aligned_cols=99 Identities=11% Similarity=0.045 Sum_probs=61.6
Q ss_pred HHHHHHHcCCeEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEee--cCCCCCChhHHHHHHHHHhcCCCe---EEEEEe
Q 002301 155 IAEIVDHYGWREVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKA--PLSVEATEDEITDLLVKVALTESR---IIVVHT 229 (940)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~~~~l~~l~~~~~~---viv~~~ 229 (940)
+.++++.++-+++.+|++...+ ....+.+.+.+++.|+.+.... ......+.+.+...+..+++.+.+ +||..+
T Consensus 14 l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAvG 92 (355)
T cd08197 14 VLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVALG 92 (355)
T ss_pred HHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEEC
Confidence 4566777777888888755443 3467788899988887643221 222234567788888888888887 777664
Q ss_pred cC--CcHHHHHHHHHHcCCCCCCeEEEecC
Q 002301 230 HY--NRGPVVFHVAQYLGMLGTGYVWIATS 257 (940)
Q Consensus 230 ~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 257 (940)
.+ .++..+.......| ..++.|-|.
T Consensus 93 GGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 93 GGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred CcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 43 44555544333223 456666664
No 488
>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=36.11 E-value=1.5e+02 Score=32.42 Aligned_cols=85 Identities=9% Similarity=0.087 Sum_probs=53.8
Q ss_pred HHHHHHHHHcCC-eEEEEEEEcCCcchhhHHHHHHHHhcCceeEEEee-cCCCCCChhHHHHHHHHHhcCCCeEEEEEec
Q 002301 153 AAIAEIVDHYGW-REVIAIYVDDDHGRNGIAALGDTLAAKRCRISFKA-PLSVEATEDEITDLLVKVALTESRIIVVHTH 230 (940)
Q Consensus 153 ~ai~~~l~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~ 230 (940)
..+.++++.++. +++.+|.....+.. ..+.+.+.+++.|+++.... .....++.+.+......+++ +.++||-.+.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 345566777876 78877775444333 34788889988887554211 22222456778888888887 8899887754
Q ss_pred C--CcHHHHHH
Q 002301 231 Y--NRGPVVFH 239 (940)
Q Consensus 231 ~--~~~~~~l~ 239 (940)
+ -++..++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 4 44444443
No 489
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=36.10 E-value=5.7e+02 Score=27.39 Aligned_cols=78 Identities=18% Similarity=0.182 Sum_probs=41.8
Q ss_pred CcEEEEcCCCchhHHHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHH-HHHHHHHHHH-----HcCCeEEEE
Q 002301 96 QTVAIIGPQDAVTSHVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQY-QMAAIAEIVD-----HYGWREVIA 169 (940)
Q Consensus 96 ~v~aiiGp~~s~~a~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~-~~~ai~~~l~-----~~~w~~v~i 169 (940)
.-+.|||..- +++.....-...+|+++. |...++.+ .+.-++..++ .|+-.++++
T Consensus 77 d~VLIIGGp~-AVs~~yE~~Lks~GitV~------------------RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvv 137 (337)
T COG2247 77 DLVLIIGGPI-AVSPNYENALKSLGITVK------------------RIGGANRYETAEKVAKFFREDYPNAFKNVKVVV 137 (337)
T ss_pred ceEEEECCCC-cCChhHHHHHHhCCcEEE------------------EecCcchHHHHHHHHHHHHhhchhhhcCeEEEE
Confidence 5566666433 333334444555566554 44444443 3444555664 344457777
Q ss_pred EEEcCCcchhhHHHHHHHHhcCceeEEEe
Q 002301 170 IYVDDDHGRNGIAALGDTLAAKRCRISFK 198 (940)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~g~~v~~~ 198 (940)
+|.=| ....+.+.+++ |++.++-
T Consensus 138 v~GwD-----y~~~~~e~~k~-~~~p~~~ 160 (337)
T COG2247 138 VYGWD-----YADALMELMKE-GIVPVIL 160 (337)
T ss_pred Eeccc-----cHHHHHHHHhc-CcceeEe
Confidence 76322 23377777877 8876653
No 490
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=35.74 E-value=6.2e+02 Score=27.66 Aligned_cols=134 Identities=14% Similarity=0.104 Sum_probs=73.9
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhHHH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTSHV 111 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a~~ 111 (940)
-.++.+|...+. .-+.+++.|+.++ +|..+.+...++.-.-.+.+.-+.+.++.-+++|+-= ......
T Consensus 47 k~v~~lF~epST---RTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~DTarvls~y~D~iv~R--~~~~~~ 114 (334)
T PRK01713 47 KNIALIFEKTST---RTRCAFEVAAYDQ-------GAQVTYIDPNSSQIGHKESMKDTARVLGRMYDAIEYR--GFKQSI 114 (334)
T ss_pred CEEEEEeCCCCc---hHHHHHHHHHHHc-------CCeEEEcCCccccCCCCcCHHHHHHHHHHhCCEEEEE--cCchHH
Confidence 347778877643 5688999999886 3444444333332222233444444445434444421 112234
Q ss_pred HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH---HHHcC--C--eEEEEEEEcCCcchhhHHHH
Q 002301 112 VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI---VDHYG--W--REVIAIYVDDDHGRNGIAAL 184 (940)
Q Consensus 112 va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~---l~~~~--w--~~v~ii~~d~~~g~~~~~~l 184 (940)
+..+++...||+|.- .+ +...| .++++++ .+++| . .+|+++. |..+ +.+..+
T Consensus 115 ~~~~a~~~~vPVINa--~~----~~~HP------------tQaL~Dl~Ti~e~~g~~l~gl~ia~vG-D~~~--~v~~Sl 173 (334)
T PRK01713 115 VNELAEYAGVPVFNG--LT----DEFHP------------TQMLADVLTMIENCDKPLSEISYVYIG-DARN--NMGNSL 173 (334)
T ss_pred HHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHcCCCcCCcEEEEEC-CCcc--CHHHHH
Confidence 566777788999973 22 22333 3556665 35565 2 4566553 3223 356666
Q ss_pred HHHHhcCceeEEEe
Q 002301 185 GDTLAAKRCRISFK 198 (940)
Q Consensus 185 ~~~l~~~g~~v~~~ 198 (940)
...+...|.++...
T Consensus 174 ~~~~~~~g~~v~~~ 187 (334)
T PRK01713 174 LLIGAKLGMDVRIC 187 (334)
T ss_pred HHHHHHcCCEEEEE
Confidence 67777888877654
No 491
>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=35.60 E-value=89 Score=32.35 Aligned_cols=88 Identities=15% Similarity=0.044 Sum_probs=41.9
Q ss_pred CcchhHHHHHHHHHHHHHhhhhcccC---CCCceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEec
Q 002301 1 MKLSGVMLLMIFYCELFVYRITAQAS---GRPSVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQD 77 (940)
Q Consensus 1 Mk~~~~~~l~~~~~~~~~~~~~~~~~---~~~~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D 77 (940)
||+...+++++++ ++++++|++..+ ..+++++||..-..+.. ........-.+.+-++- |+++++....
T Consensus 1 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~vg~~~~~~~~---~~~~~~~~l~~~l~~~~----g~~v~~~~~~ 72 (254)
T TIGR01098 1 MKRLLALLAALLG-ASLAAACSKKAAEAAAVPKELNFGILPGENAS---NLTRRWEPLADYLEKKL----GIKVQLFVAT 72 (254)
T ss_pred ChhHHHHHHHHHH-HHHHhhcCCchhhhccCCCceEEEECCCCCHH---HHHHHHHHHHHHHHHHh----CCcEEEEeCC
Confidence 6766554443333 334566653322 25678999997554421 11111122223332332 5677776532
Q ss_pred CCCCHHHHHHHHHHHHhcCcEEEEc
Q 002301 78 CNHSGFLALAEALHLMEGQTVAIIG 102 (940)
Q Consensus 78 ~~~~~~~a~~~a~~li~~~v~aiiG 102 (940)
+ ... ....+...+++.++.
T Consensus 73 ~---~~~---~~~~l~~g~~Di~~~ 91 (254)
T TIGR01098 73 D---YSA---VIEAMRFGRVDIAWF 91 (254)
T ss_pred C---HHH---HHHHHHcCCccEEEE
Confidence 2 111 122344457887774
No 492
>cd08471 PBP2_CrgA_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 2. 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 a
Probab=35.31 E-value=3.1e+02 Score=26.23 Aligned_cols=67 Identities=15% Similarity=0.017 Sum_probs=35.8
Q ss_pred cccCCCHHHHHHHhhcCCCCCceEEEEechhhHHHHHhcCCcEEEe--CCccccCcceeecCCCCcchHHHHHHH
Q 002301 720 LVPLNSPEEYAKALKDGPHKGGVAAVVDDRAYAELFLSTRCEFSIV--GQVFTKNGWGFAFPRDSPLAVDISTAI 792 (940)
Q Consensus 720 ~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~k~spl~~~~~~~i 792 (940)
....++.....+++.. |..-+++.+...... .... .+... ........+.++.+++.+....+...+
T Consensus 126 ~~~~~~~~~~~~~v~~----g~Gi~~~p~~~~~~~-~~~~-~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~ 194 (201)
T cd08471 126 RLTVNTVEAAIAAALA----GLGLTRVLSYQVAEE-LAAG-RLQRVLEDFEPPPLPVHLVHPEGRLAPAKVRAFV 194 (201)
T ss_pred cEEECCHHHHHHHHHc----CCcEEEechhHHHHH-hhcC-ceEEecccccCCCCcEEEEecCcccCCHHHHHHH
Confidence 4456788888999998 555565554333322 2222 33322 222234567777877665444444333
No 493
>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=35.25 E-value=3.2e+02 Score=24.22 Aligned_cols=16 Identities=0% Similarity=0.121 Sum_probs=7.5
Q ss_pred HHHHhcCCCeEEEEEe
Q 002301 214 LVKVALTESRIIVVHT 229 (940)
Q Consensus 214 l~~l~~~~~~viv~~~ 229 (940)
.+.+++.++|+|.+.+
T Consensus 44 ~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 44 VEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHTTCSEEEEEE
T ss_pred HHHHhcCCCcEEEEEc
Confidence 3334444555555544
No 494
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=35.20 E-value=4.4e+02 Score=27.36 Aligned_cols=115 Identities=17% Similarity=0.106 Sum_probs=61.2
Q ss_pred ceEEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEEcCCCchhH
Q 002301 30 SVVNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAIIGPQDAVTS 109 (940)
Q Consensus 30 ~~i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~a 109 (940)
+.=+||++.+.....+.....+++-++++ .|.++...... +.....+.+.+++. +..+|+.+......
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~--------~g~~~~~~~~~---~~~~~~~~~~~~~~-~~dai~~~~d~~a~ 197 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAK--------LGIEVVEATVS---SSNDVQQAAQSLAG-KVDAIYVPTDNTVA 197 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHh--------CCCEEEEEecC---CHHHHHHHHHHhcc-cCCEEEEcCchhHH
Confidence 45578887654433444555677666655 14444432211 22223344445543 45788876654332
Q ss_pred HH---HHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHHHHH
Q 002301 110 HV---VSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEIVDH 161 (940)
Q Consensus 110 ~~---va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~l~~ 161 (940)
.. +.......++|++++.... + ..|-+.....+...+++..++++.+
T Consensus 198 ~~~~~~~~~~~~~~ipvig~d~~~--~---~~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 198 SAMEAVVKVANEAKIPVIASDDDM--V---KRGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred hHHHHHHHHHHHcCCCEEEcCHHH--H---hCCceEEecCCHHHHHHHHHHHHHH
Confidence 22 2222222479999876542 2 1255666666777777777776543
No 495
>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=35.18 E-value=1.8e+02 Score=30.11 Aligned_cols=76 Identities=9% Similarity=0.106 Sum_probs=49.9
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCcHHHHHHHHHHc
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNRGPVVFHVAQYL 244 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~ 244 (940)
|++|.. ++.|.....+.+.+++++.|.++..... . .+.......++++...++|.||+...... ...+..+.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-G--YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAA 77 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-C--CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhc
Confidence 456664 3556777788999999999988765322 1 23445567778888788999888754333 3455556555
Q ss_pred CC
Q 002301 245 GM 246 (940)
Q Consensus 245 g~ 246 (940)
|.
T Consensus 78 ~i 79 (268)
T cd01575 78 GI 79 (268)
T ss_pred CC
Confidence 53
No 496
>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=35.14 E-value=1.4e+02 Score=31.03 Aligned_cols=80 Identities=8% Similarity=-0.026 Sum_probs=50.8
Q ss_pred EEEEEEE--cCCcchhhHHHHHHHHhcC---ceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCC-cHHHHHH
Q 002301 166 EVIAIYV--DDDHGRNGIAALGDTLAAK---RCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYN-RGPVVFH 239 (940)
Q Consensus 166 ~v~ii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~-~~~~~l~ 239 (940)
+|+++.. ++.|.....+.+.+++++. |.++.... +....+.+.....++++...++|.||+..... .....+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 3566663 4557777888898999888 86432221 12112445566778887778999999975432 2345677
Q ss_pred HHHHcCC
Q 002301 240 VAQYLGM 246 (940)
Q Consensus 240 ~a~~~g~ 246 (940)
.+.+.|.
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 497
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=35.13 E-value=38 Score=24.96 Aligned_cols=25 Identities=24% Similarity=0.519 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccC
Q 002301 590 MMWGVTAIFFLAVGAVVWILEHRLN 614 (940)
Q Consensus 590 ~vW~~i~~~~~~~~~~~~~~~~~~~ 614 (940)
..|.+++.+++++++++|...++..
T Consensus 11 ~~~~~v~~~~~F~gi~~w~~~~~~k 35 (49)
T PF05545_consen 11 RSIGTVLFFVFFIGIVIWAYRPRNK 35 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHcccch
Confidence 4677888888899999999965543
No 498
>PRK02255 putrescine carbamoyltransferase; Provisional
Probab=34.92 E-value=6.4e+02 Score=27.59 Aligned_cols=132 Identities=14% Similarity=0.226 Sum_probs=76.7
Q ss_pred EEEEEEeecCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCHHHHHHHHHHHHhcCcEEEE--cCCCchhH
Q 002301 32 VNIGALLSFSTNVGKVAKLAIKAAVDDVNSDPTTLGGTKLKLQMQDCNHSGFLALAEALHLMEGQTVAII--GPQDAVTS 109 (940)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Ave~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~a 109 (940)
-.++.+|-..+. .-+..++.|+.++ +|..+.+...++.-.-.+.+.-+...++.-+++|+ .+...
T Consensus 43 k~v~~lF~epST---RTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dtarvls~y~D~iviR~~~~~--- 109 (338)
T PRK02255 43 KTLGMIFEQSST---RTRVSFETAMTQL-------GGHAQYLAPGQIQLGGHESLEDTARVLSRLVDIIMARVDRHQ--- 109 (338)
T ss_pred CEEEEEeCCCCc---chHHHHHHHHHHc-------CCeEEEeCcccccCCCCcCHHHHHHHHHHhCcEEEEecCChH---
Confidence 447778877643 5678999999886 45555554444433333444444555555454443 33222
Q ss_pred HHHHHhhccCCccEEeeecCCCCCCCCCCCceEEecCChHHHHHHHHHH---HHHcC----C--eEEEEEEEcCCcchhh
Q 002301 110 HVVSHVANELQVPLLSFSATDPTLSSLQFPYFVRTTQSDQYQMAAIAEI---VDHYG----W--REVIAIYVDDDHGRNG 180 (940)
Q Consensus 110 ~~va~~~~~~~vP~Is~~at~~~ls~~~~p~~~r~~psd~~~~~ai~~~---l~~~~----w--~~v~ii~~d~~~g~~~ 180 (940)
.+..++...++|+|. +. + +..+| .++++++ .+++| + .+|+++. |. .+.
T Consensus 110 -~~~~~a~~~~vPVIN-a~-~----~~~HP------------tQaLaDl~Ti~e~~g~g~~l~glkv~~vG-D~---~~v 166 (338)
T PRK02255 110 -TVVELAKYATVPVIN-GM-S----DYNHP------------TQELGDLFTMIEHLPEGKKLEDCKVVFVG-DA---TQV 166 (338)
T ss_pred -HHHHHHHhCCCCEEE-CC-C----CCCCh------------HHHHHHHHHHHHHhCCCCCCCCCEEEEEC-CC---chH
Confidence 345567778999997 22 2 22233 2456665 35664 3 3666665 32 246
Q ss_pred HHHHHHHHhcCceeEEEee
Q 002301 181 IAALGDTLAAKRCRISFKA 199 (940)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~ 199 (940)
+..+...+...|.+|....
T Consensus 167 ~~Sl~~~~~~~g~~v~~~~ 185 (338)
T PRK02255 167 CVSLMFIATKMGMDFVHFG 185 (338)
T ss_pred HHHHHHHHHhCCCEEEEEC
Confidence 6777778888898877654
No 499
>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=34.89 E-value=1.3e+02 Score=31.08 Aligned_cols=77 Identities=4% Similarity=-0.054 Sum_probs=50.9
Q ss_pred EEEEEE--cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcCCCeEEEEEecCCc-HHHHHHHHHH
Q 002301 167 VIAIYV--DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALTESRIIVVHTHYNR-GPVVFHVAQY 243 (940)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~-~~~~l~~a~~ 243 (940)
|++|.. ++.|.......+.+++++.|..+... ....+..+....+.++...+++.||+...... ....+..+.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~---~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVL---DAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEec---CCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Confidence 455554 46688888899999999999887643 21224455567777777788998887543222 2356677766
Q ss_pred cCC
Q 002301 244 LGM 246 (940)
Q Consensus 244 ~g~ 246 (940)
.+.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 553
No 500
>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=34.87 E-value=1.6e+02 Score=31.58 Aligned_cols=77 Identities=6% Similarity=0.034 Sum_probs=0.0
Q ss_pred EEEEE--E-cCCcchhhHHHHHHHHhcCceeEEEeecCCCCCChhHHHHHHHHHhcC--CCeEEEEEecCCcHHHHHHHH
Q 002301 167 VIAIY--V-DDDHGRNGIAALGDTLAAKRCRISFKAPLSVEATEDEITDLLVKVALT--ESRIIVVHTHYNRGPVVFHVA 241 (940)
Q Consensus 167 v~ii~--~-d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viv~~~~~~~~~~~l~~a 241 (940)
|+++. . ++.|.......+.+++++.|..+.....-. +.+.....+..+... ++|.||+.........+++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~~~---~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~ 78 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYAER---DRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLA 78 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeCCC---CHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHH
Q ss_pred HHcCC
Q 002301 242 QYLGM 246 (940)
Q Consensus 242 ~~~g~ 246 (940)
.+.|+
T Consensus 79 ~~~gi 83 (305)
T cd06324 79 EGAGV 83 (305)
T ss_pred HhCCC
Done!