Query 002352
Match_columns 932
No_of_seqs 543 out of 3814
Neff 9.6
Searched_HMMs 46136
Date Thu Mar 28 22:06:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002352.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002352hhsearch_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 1.4E-89 3.1E-94 715.4 50.1 784 13-843 21-847 (897)
2 KOG4440 NMDA selective glutama 100.0 2.1E-78 4.4E-83 634.6 37.8 757 12-842 29-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 1.1E-73 2.5E-78 620.9 58.2 715 55-837 73-852 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 2.3E-67 4.9E-72 628.8 55.9 599 199-841 4-624 (656)
5 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 3.3E-45 7.2E-50 402.5 37.0 359 20-401 1-363 (364)
6 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.9E-44 4.2E-49 395.6 36.9 362 20-402 1-399 (400)
7 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 3.1E-44 6.7E-49 393.2 37.7 364 20-401 1-371 (372)
8 cd06393 PBP1_iGluR_Kainate_Glu 100.0 3.2E-44 7E-49 402.4 37.2 368 18-402 2-382 (384)
9 cd06361 PBP1_GPC6A_like Ligand 100.0 2.1E-43 4.6E-48 395.2 40.0 334 32-401 34-397 (403)
10 cd06374 PBP1_mGluR_groupI Liga 100.0 2E-43 4.3E-48 406.2 38.4 376 15-402 6-468 (472)
11 cd06362 PBP1_mGluR Ligand bind 100.0 2E-43 4.2E-48 406.0 38.3 374 17-401 1-450 (452)
12 cd06364 PBP1_CaSR Ligand-bindi 100.0 7.2E-43 1.6E-47 401.6 42.4 377 15-399 9-495 (510)
13 cd06391 PBP1_iGluR_delta_2 N-t 100.0 4.2E-43 9.2E-48 389.8 38.2 367 20-402 1-399 (400)
14 cd06376 PBP1_mGluR_groupIII Li 100.0 6.5E-43 1.4E-47 401.2 39.4 370 17-397 1-452 (463)
15 cd06365 PBP1_Pheromone_recepto 100.0 4.6E-43 9.9E-48 401.0 37.9 369 18-398 2-453 (469)
16 cd06375 PBP1_mGluR_groupII Lig 100.0 2E-42 4.3E-47 394.1 39.4 368 17-397 1-454 (458)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.8E-42 3.9E-47 389.4 38.5 370 20-401 1-381 (382)
18 cd06366 PBP1_GABAb_receptor Li 100.0 4.8E-42 1E-46 381.8 37.4 338 20-403 1-348 (350)
19 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 5.2E-42 1.1E-46 384.5 36.2 351 11-422 12-377 (377)
20 cd06386 PBP1_NPR_C_like Ligand 100.0 2.4E-41 5.3E-46 378.9 39.0 351 21-398 2-379 (387)
21 cd06367 PBP1_iGluR_NMDA N-term 100.0 6.2E-42 1.3E-46 382.1 34.1 348 18-421 2-362 (362)
22 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3.7E-41 7.9E-46 372.4 38.1 360 20-402 1-370 (371)
23 cd06385 PBP1_NPR_A Ligand-bind 100.0 6.4E-41 1.4E-45 379.5 38.5 355 20-399 1-392 (405)
24 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 6.1E-41 1.3E-45 371.8 36.9 362 20-402 1-369 (370)
25 cd06373 PBP1_NPR_like Ligand b 100.0 1.1E-40 2.3E-45 376.7 36.7 359 20-399 1-390 (396)
26 cd06370 PBP1_Speract_GC_like L 100.0 1E-40 2.2E-45 376.8 35.3 345 19-387 1-383 (404)
27 cd06352 PBP1_NPR_GC_like Ligan 100.0 2.3E-40 4.9E-45 374.0 38.1 361 20-400 1-384 (389)
28 cd06363 PBP1_Taste_receptor Li 100.0 2.4E-40 5.3E-45 374.5 37.7 362 15-421 3-410 (410)
29 cd06372 PBP1_GC_G_like Ligand- 100.0 3.1E-40 6.7E-45 372.3 37.0 357 20-399 1-387 (391)
30 cd06371 PBP1_sensory_GC_DEF_li 100.0 3.7E-40 8E-45 368.3 35.8 345 20-394 1-368 (382)
31 cd06394 PBP1_iGluR_Kainate_KA1 100.0 1.2E-40 2.5E-45 359.3 26.9 324 20-402 1-332 (333)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.8E-39 4E-44 357.2 30.9 319 20-401 1-326 (327)
33 cd06384 PBP1_NPR_B Ligand-bind 100.0 5.5E-38 1.2E-42 354.2 37.9 358 20-399 1-393 (399)
34 PRK15404 leucine ABC transport 100.0 6.7E-38 1.5E-42 348.4 32.1 339 12-389 19-364 (369)
35 KOG1056 Glutamate-gated metabo 100.0 6.6E-37 1.4E-41 348.1 34.8 394 15-432 28-494 (878)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.4E-36 3E-41 336.2 33.7 327 20-385 1-334 (334)
37 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.2E-36 2.5E-41 334.9 31.2 319 20-401 1-323 (324)
38 cd06346 PBP1_ABC_ligand_bindin 100.0 8.9E-37 1.9E-41 333.2 29.8 304 20-382 1-310 (312)
39 PF01094 ANF_receptor: Recepto 100.0 2.2E-36 4.7E-41 336.9 33.1 340 35-386 2-348 (348)
40 cd06381 PBP1_iGluR_delta_like 100.0 4.6E-36 1E-40 329.9 35.0 335 20-401 1-362 (363)
41 cd06345 PBP1_ABC_ligand_bindin 100.0 3.3E-36 7.1E-41 333.9 32.3 322 20-378 1-339 (344)
42 cd06338 PBP1_ABC_ligand_bindin 100.0 3E-36 6.5E-41 334.8 31.0 325 20-385 1-345 (345)
43 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.6E-35 3.4E-40 325.2 31.5 315 57-422 37-362 (362)
44 cd06348 PBP1_ABC_ligand_bindin 100.0 2.9E-35 6.3E-40 326.5 33.7 333 20-381 1-342 (344)
45 cd06355 PBP1_FmdD_like Peripla 100.0 1.4E-34 3.1E-39 320.4 34.5 336 20-392 1-345 (348)
46 cd06340 PBP1_ABC_ligand_bindin 100.0 8.5E-35 1.8E-39 322.5 29.7 322 20-377 1-341 (347)
47 TIGR03669 urea_ABC_arch urea A 100.0 3.7E-34 8E-39 317.4 34.3 340 19-396 1-349 (374)
48 cd06344 PBP1_ABC_ligand_bindin 100.0 2.3E-34 5.1E-39 317.2 30.6 319 20-377 1-326 (332)
49 cd06329 PBP1_SBP_like_3 Peripl 100.0 2.7E-34 5.9E-39 317.9 31.1 312 20-371 1-329 (342)
50 COG0683 LivK ABC-type branched 100.0 3.9E-34 8.5E-39 317.5 32.3 334 16-386 8-353 (366)
51 TIGR03407 urea_ABC_UrtA urea A 100.0 1.9E-33 4E-38 312.6 36.9 330 19-385 1-337 (359)
52 cd06331 PBP1_AmiC_like Type I 100.0 8.2E-34 1.8E-38 313.2 31.7 318 20-375 1-325 (333)
53 cd06343 PBP1_ABC_ligand_bindin 100.0 2.4E-33 5.3E-38 313.4 34.1 339 15-386 3-358 (362)
54 cd06350 PBP1_GPCR_family_C_lik 100.0 1.2E-33 2.5E-38 314.6 31.0 306 20-398 1-340 (348)
55 cd06347 PBP1_ABC_ligand_bindin 100.0 3E-33 6.4E-38 309.6 34.1 320 20-378 1-329 (334)
56 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.1E-33 2.3E-38 312.4 29.8 318 20-376 1-328 (334)
57 cd06349 PBP1_ABC_ligand_bindin 100.0 6.4E-33 1.4E-37 307.2 34.4 328 20-387 1-337 (340)
58 cd06330 PBP1_Arsenic_SBP_like 100.0 2.7E-33 5.9E-38 311.1 30.1 320 20-372 1-332 (346)
59 cd06336 PBP1_ABC_ligand_bindin 100.0 2.4E-33 5.3E-38 310.8 29.0 323 20-380 1-344 (347)
60 cd06357 PBP1_AmiC Periplasmic 100.0 2.8E-32 6.1E-37 303.3 36.2 330 20-385 1-337 (360)
61 cd06328 PBP1_SBP_like_2 Peripl 100.0 1.1E-32 2.5E-37 303.4 32.5 317 20-375 1-326 (333)
62 PF13458 Peripla_BP_6: Peripla 100.0 7.6E-33 1.6E-37 307.6 30.9 334 18-388 1-342 (343)
63 cd06358 PBP1_NHase Type I peri 100.0 1.8E-32 3.8E-37 302.4 32.2 313 20-372 1-321 (333)
64 cd06359 PBP1_Nba_like Type I p 100.0 1.7E-32 3.7E-37 302.5 31.6 325 20-384 1-332 (333)
65 cd06356 PBP1_Amide_Urea_BP_lik 100.0 4.2E-32 9.1E-37 299.0 31.9 312 20-371 1-321 (334)
66 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.2E-32 2.6E-37 303.5 27.5 329 27-378 6-353 (368)
67 cd06360 PBP1_alkylbenzenes_lik 100.0 9.7E-32 2.1E-36 297.6 33.0 324 20-379 1-331 (336)
68 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 5.5E-31 1.2E-35 283.4 36.7 342 15-421 15-382 (382)
69 cd06335 PBP1_ABC_ligand_bindin 100.0 1E-31 2.2E-36 297.8 32.0 320 20-371 1-333 (347)
70 cd06334 PBP1_ABC_ligand_bindin 100.0 2.2E-31 4.8E-36 294.0 29.4 332 20-371 1-343 (351)
71 cd06332 PBP1_aromatic_compound 100.0 1.8E-30 3.8E-35 287.3 32.0 323 20-382 1-330 (333)
72 PF13433 Peripla_BP_5: Peripla 100.0 2.9E-30 6.3E-35 270.7 30.6 314 19-371 1-322 (363)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 3.1E-30 6.7E-35 284.8 31.1 315 20-397 1-322 (328)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 7.9E-30 1.7E-34 283.5 27.3 314 20-372 1-341 (357)
75 cd06326 PBP1_STKc_like Type I 100.0 6.8E-29 1.5E-33 274.9 30.8 320 19-374 1-328 (336)
76 cd06339 PBP1_YraM_LppC_lipopro 100.0 3.4E-28 7.4E-33 267.6 24.8 298 20-375 1-329 (336)
77 KOG1055 GABA-B ion channel rec 100.0 2.9E-28 6.4E-33 267.7 18.7 382 16-423 39-445 (865)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 3E-27 6.4E-32 258.2 25.2 290 32-377 10-308 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 1E-26 2.3E-31 257.7 29.0 309 20-366 1-318 (341)
80 cd06333 PBP1_ABC-type_HAAT_lik 100.0 2E-26 4.4E-31 252.0 28.9 284 20-322 1-298 (312)
81 cd06269 PBP1_glutamate_recepto 99.9 2.9E-26 6.2E-31 249.2 27.0 225 20-249 1-235 (298)
82 cd04509 PBP1_ABC_transporter_G 99.9 5.3E-26 1.1E-30 247.2 27.1 281 20-313 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 3.8E-24 8.2E-29 232.5 28.5 280 20-315 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 4.6E-21 1E-25 200.6 29.2 323 32-399 17-366 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 2E-21 4.3E-26 204.5 20.6 222 436-791 23-245 (247)
86 PRK10797 glutamate and asparta 99.9 1.9E-21 4.2E-26 209.1 19.5 224 436-790 38-272 (302)
87 PF00497 SBP_bac_3: Bacterial 99.8 5.2E-21 1.1E-25 198.6 12.5 223 440-790 1-225 (225)
88 PRK11260 cystine transporter s 99.8 4.3E-20 9.3E-25 196.5 19.8 225 435-791 38-263 (266)
89 PRK11917 bifunctional adhesin/ 99.8 2E-19 4.3E-24 189.6 19.9 219 435-788 35-258 (259)
90 PRK15010 ABC transporter lysin 99.8 3.6E-19 7.7E-24 188.7 20.8 222 436-789 24-254 (260)
91 PRK15007 putative ABC transpor 99.8 4.4E-19 9.6E-24 186.4 20.1 217 437-789 20-242 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.8 6.4E-19 1.4E-23 186.1 18.8 218 438-788 24-250 (250)
93 TIGR02995 ectoine_ehuB ectoine 99.8 5.6E-19 1.2E-23 188.7 17.7 225 435-788 30-260 (275)
94 PRK15437 histidine ABC transpo 99.8 2.1E-18 4.6E-23 182.7 19.9 223 436-790 24-255 (259)
95 PRK09959 hybrid sensory histid 99.8 6.7E-18 1.5E-22 218.1 21.3 217 437-789 301-520 (1197)
96 PRK10859 membrane-bound lytic 99.7 1.5E-17 3.3E-22 190.6 17.3 223 434-790 39-267 (482)
97 PF00060 Lig_chan: Ligand-gate 99.7 5.5E-19 1.2E-23 169.9 2.3 107 567-673 1-115 (148)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 7.7E-17 1.7E-21 168.9 15.8 208 439-787 1-241 (246)
99 COG0834 HisJ ABC-type amino ac 99.7 2E-16 4.4E-21 169.7 19.2 226 436-790 32-265 (275)
100 TIGR02285 conserved hypothetic 99.7 2.1E-16 4.6E-21 168.2 14.0 233 435-791 15-263 (268)
101 TIGR03871 ABC_peri_MoxJ_2 quin 99.7 1.8E-15 3.9E-20 157.8 17.1 210 439-788 1-228 (232)
102 PRK09959 hybrid sensory histid 99.6 1.1E-15 2.4E-20 197.7 16.5 221 436-790 54-278 (1197)
103 cd01391 Periplasmic_Binding_Pr 99.6 3.7E-14 7.9E-19 150.8 21.9 257 20-313 1-261 (269)
104 cd00134 PBPb Bacterial peripla 99.6 2.2E-14 4.9E-19 147.2 19.1 214 440-788 1-218 (218)
105 smart00062 PBPb Bacterial peri 99.6 2.1E-14 4.6E-19 147.3 17.8 216 439-788 1-219 (219)
106 PF04348 LppC: LppC putative l 99.3 1.3E-10 2.9E-15 133.4 24.1 305 16-382 217-530 (536)
107 smart00079 PBPe Eukaryotic hom 99.3 6.8E-12 1.5E-16 118.2 10.3 122 662-789 1-133 (134)
108 COG4623 Predicted soluble lyti 99.3 1E-11 2.3E-16 126.9 11.6 222 435-790 20-248 (473)
109 cd01537 PBP1_Repressors_Sugar_ 98.9 9.3E-08 2E-12 101.4 19.2 206 20-243 1-212 (264)
110 TIGR01098 3A0109s03R phosphate 98.8 3.6E-08 7.8E-13 104.2 12.9 199 437-774 31-254 (254)
111 PF10613 Lig_chan-Glu_bd: Liga 98.8 1.3E-09 2.7E-14 84.9 1.0 61 452-514 1-65 (65)
112 PRK00489 hisG ATP phosphoribos 98.8 2.5E-08 5.4E-13 106.4 9.7 164 504-790 52-220 (287)
113 cd01536 PBP1_ABC_sugar_binding 98.7 9.7E-07 2.1E-11 93.9 21.4 206 20-243 1-214 (267)
114 cd06267 PBP1_LacI_sugar_bindin 98.7 5.1E-07 1.1E-11 95.8 19.0 206 20-243 1-211 (264)
115 cd06325 PBP1_ABC_uncharacteriz 98.6 1.6E-06 3.5E-11 93.1 19.2 201 20-233 1-208 (281)
116 cd06300 PBP1_ABC_sugar_binding 98.6 5E-06 1.1E-10 88.8 21.3 204 20-236 1-211 (272)
117 COG3107 LppC Putative lipoprot 98.5 1.2E-05 2.7E-10 87.0 20.0 254 16-285 255-538 (604)
118 cd06320 PBP1_allose_binding Pe 98.4 2.9E-05 6.4E-10 83.0 22.1 199 20-234 1-207 (275)
119 cd06282 PBP1_GntR_like_2 Ligan 98.4 2.3E-05 5E-10 83.3 19.7 203 20-242 1-209 (266)
120 COG2984 ABC-type uncharacteriz 98.3 5.7E-05 1.2E-09 78.0 18.4 205 14-233 26-240 (322)
121 TIGR03431 PhnD phosphonate ABC 98.3 5.4E-06 1.2E-10 89.3 11.8 117 663-785 127-260 (288)
122 cd06273 PBP1_GntR_like_1 This 98.2 5.9E-05 1.3E-09 80.3 19.0 205 20-242 1-211 (268)
123 cd06323 PBP1_ribose_binding Pe 98.2 0.00014 3E-09 77.4 20.8 204 21-243 2-213 (268)
124 cd06317 PBP1_ABC_sugar_binding 98.2 0.00014 3E-09 77.8 20.9 201 20-234 1-212 (275)
125 cd06319 PBP1_ABC_sugar_binding 98.2 0.00014 3E-09 77.9 20.6 199 20-234 1-210 (277)
126 cd01545 PBP1_SalR Ligand-bindi 98.2 0.0001 2.3E-09 78.5 19.3 203 21-239 2-209 (270)
127 cd06301 PBP1_rhizopine_binding 98.2 0.00021 4.6E-09 76.2 21.0 210 20-245 1-219 (272)
128 cd06312 PBP1_ABC_sugar_binding 98.1 0.00021 4.6E-09 76.1 20.5 199 20-234 1-208 (271)
129 cd06305 PBP1_methylthioribose_ 98.1 0.00021 4.5E-09 76.3 20.3 208 20-244 1-217 (273)
130 cd06310 PBP1_ABC_sugar_binding 98.1 0.00067 1.4E-08 72.4 22.9 209 20-244 1-217 (273)
131 PRK10653 D-ribose transporter 98.0 0.00039 8.5E-09 75.2 20.3 205 12-233 20-231 (295)
132 PF13407 Peripla_BP_4: Peripla 98.0 0.00027 5.9E-09 74.6 18.2 202 21-236 1-209 (257)
133 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.00063 1.4E-08 72.2 19.7 203 21-242 2-209 (267)
134 cd06289 PBP1_MalI_like Ligand- 97.9 0.00047 1E-08 73.3 18.6 206 20-242 1-211 (268)
135 cd06309 PBP1_YtfQ_like Peripla 97.9 0.0011 2.3E-08 70.8 20.7 210 20-244 1-220 (273)
136 cd06298 PBP1_CcpA_like Ligand- 97.9 0.00079 1.7E-08 71.5 19.2 206 20-243 1-211 (268)
137 cd06271 PBP1_AglR_RafR_like Li 97.9 0.0011 2.4E-08 70.4 19.8 205 21-243 2-215 (268)
138 cd01540 PBP1_arabinose_binding 97.8 0.0025 5.4E-08 68.6 21.1 214 20-244 1-229 (289)
139 cd01539 PBP1_GGBP Periplasmic 97.8 0.0031 6.8E-08 68.4 21.8 216 20-244 1-240 (303)
140 cd01542 PBP1_TreR_like Ligand- 97.7 0.0019 4.1E-08 68.2 19.1 201 21-243 2-207 (259)
141 cd06288 PBP1_sucrose_transcrip 97.7 0.0015 3.3E-08 69.3 18.1 205 20-243 1-211 (269)
142 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0025 5.3E-08 67.7 19.6 205 21-243 2-211 (268)
143 cd06275 PBP1_PurR Ligand-bindi 97.7 0.0027 5.8E-08 67.5 19.3 206 21-243 2-212 (269)
144 TIGR01481 ccpA catabolite cont 97.7 0.0029 6.4E-08 69.5 20.1 206 17-242 58-269 (329)
145 cd06270 PBP1_GalS_like Ligand 97.7 0.0048 1.1E-07 65.5 20.8 206 20-243 1-211 (268)
146 cd06283 PBP1_RegR_EndR_KdgR_li 97.7 0.0049 1.1E-07 65.3 20.6 206 20-243 1-212 (267)
147 cd06295 PBP1_CelR Ligand bindi 97.6 0.0032 6.9E-08 67.2 18.8 203 19-242 4-219 (275)
148 cd06322 PBP1_ABC_sugar_binding 97.6 0.008 1.7E-07 63.7 21.8 194 21-233 2-203 (267)
149 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0032 6.9E-08 67.0 18.5 205 20-243 1-210 (269)
150 PRK10703 DNA-binding transcrip 97.6 0.0041 8.9E-08 68.8 20.0 211 17-243 58-273 (341)
151 cd06311 PBP1_ABC_sugar_binding 97.6 0.011 2.4E-07 62.9 22.7 202 21-234 2-210 (274)
152 cd06293 PBP1_LacI_like_11 Liga 97.6 0.0064 1.4E-07 64.6 20.5 206 20-243 1-211 (269)
153 cd06299 PBP1_LacI_like_13 Liga 97.6 0.0046 1E-07 65.5 19.1 206 20-243 1-209 (265)
154 cd06321 PBP1_ABC_sugar_binding 97.6 0.0085 1.8E-07 63.7 21.0 207 20-245 1-215 (271)
155 cd06274 PBP1_FruR Ligand bindi 97.6 0.0073 1.6E-07 63.9 20.2 206 20-243 1-212 (264)
156 cd06303 PBP1_LuxPQ_Quorum_Sens 97.6 0.0094 2E-07 63.8 21.2 211 20-243 1-223 (280)
157 cd06296 PBP1_CatR_like Ligand- 97.5 0.0056 1.2E-07 65.0 19.1 204 21-242 2-211 (270)
158 cd06294 PBP1_ycjW_transcriptio 97.5 0.0049 1.1E-07 65.5 18.6 206 20-242 1-216 (270)
159 cd01538 PBP1_ABC_xylose_bindin 97.5 0.0098 2.1E-07 64.0 21.0 199 20-235 1-216 (288)
160 PF00532 Peripla_BP_1: Peripla 97.5 0.0034 7.5E-08 67.0 17.0 207 20-243 3-215 (279)
161 cd06313 PBP1_ABC_sugar_binding 97.5 0.013 2.9E-07 62.4 21.4 205 21-243 2-215 (272)
162 PRK11553 alkanesulfonate trans 97.5 0.00087 1.9E-08 73.2 12.4 109 663-777 121-236 (314)
163 PRK15395 methyl-galactoside AB 97.5 0.0087 1.9E-07 65.7 20.1 211 13-233 19-249 (330)
164 PRK10014 DNA-binding transcrip 97.5 0.011 2.3E-07 65.5 20.8 203 17-236 63-270 (342)
165 cd06324 PBP1_ABC_sugar_binding 97.4 0.011 2.4E-07 64.2 20.2 209 21-242 2-235 (305)
166 cd06308 PBP1_sensor_kinase_lik 97.4 0.013 2.8E-07 62.3 20.4 208 20-245 1-217 (270)
167 cd06285 PBP1_LacI_like_7 Ligan 97.4 0.01 2.2E-07 62.8 19.5 202 20-242 1-208 (265)
168 PRK11303 DNA-binding transcrip 97.4 0.016 3.5E-07 63.6 21.4 207 17-243 60-272 (328)
169 cd01574 PBP1_LacI Ligand-bindi 97.4 0.016 3.4E-07 61.4 20.5 203 20-243 1-208 (264)
170 cd06292 PBP1_LacI_like_10 Liga 97.4 0.014 3E-07 62.2 20.0 207 21-243 2-215 (273)
171 cd06318 PBP1_ABC_sugar_binding 97.4 0.022 4.8E-07 60.9 21.5 200 20-234 1-215 (282)
172 PRK09701 D-allose transporter 97.4 0.023 5.1E-07 61.8 21.8 204 20-234 26-241 (311)
173 cd06286 PBP1_CcpB_like Ligand- 97.4 0.012 2.6E-07 62.1 19.0 203 20-242 1-208 (260)
174 cd06290 PBP1_LacI_like_9 Ligan 97.4 0.016 3.4E-07 61.4 19.7 201 20-239 1-206 (265)
175 PRK10423 transcriptional repre 97.3 0.018 3.8E-07 63.3 20.7 208 17-243 55-269 (327)
176 cd06278 PBP1_LacI_like_2 Ligan 97.3 0.015 3.2E-07 61.6 19.5 201 21-242 2-208 (266)
177 cd01541 PBP1_AraR Ligand-bindi 97.3 0.013 2.8E-07 62.5 18.9 206 21-243 2-217 (273)
178 cd06291 PBP1_Qymf_like Ligand 97.3 0.013 2.9E-07 61.9 18.9 200 20-242 1-206 (265)
179 cd06316 PBP1_ABC_sugar_binding 97.3 0.022 4.9E-07 61.4 20.9 211 20-244 1-219 (294)
180 cd06307 PBP1_uncharacterized_s 97.3 0.037 8.1E-07 58.9 22.3 210 20-244 1-219 (275)
181 cd06306 PBP1_TorT-like TorT-li 97.3 0.022 4.8E-07 60.5 20.4 194 20-233 1-207 (268)
182 PF04392 ABC_sub_bind: ABC tra 97.3 0.012 2.6E-07 63.5 17.9 186 20-219 1-195 (294)
183 PRK10936 TMAO reductase system 97.3 0.046 9.9E-07 60.4 23.0 209 15-243 43-262 (343)
184 cd06297 PBP1_LacI_like_12 Liga 97.2 0.022 4.9E-07 60.5 18.9 202 21-243 2-214 (269)
185 cd06354 PBP1_BmpA_PnrA_like Pe 97.2 0.016 3.5E-07 61.4 17.7 195 20-232 1-206 (265)
186 PRK10355 xylF D-xylose transpo 97.2 0.018 4E-07 63.2 18.6 204 14-234 21-236 (330)
187 COG1609 PurR Transcriptional r 97.2 0.033 7.1E-07 61.1 20.1 204 16-239 56-267 (333)
188 cd06302 PBP1_LsrB_Quorum_Sensi 97.2 0.063 1.4E-06 58.0 22.0 201 20-234 1-210 (298)
189 PRK10727 DNA-binding transcrip 97.2 0.032 7E-07 61.7 20.1 208 16-242 57-270 (343)
190 cd06272 PBP1_hexuronate_repres 97.1 0.023 5E-07 60.0 17.9 201 20-243 1-206 (261)
191 PF12974 Phosphonate-bd: ABC t 97.1 0.0021 4.5E-08 67.2 9.4 120 662-787 96-230 (243)
192 TIGR02417 fruct_sucro_rep D-fr 97.1 0.037 8.1E-07 60.7 19.8 206 17-243 59-271 (327)
193 cd06314 PBP1_tmGBP Periplasmic 97.1 0.081 1.8E-06 56.2 21.8 205 20-244 1-213 (271)
194 cd06304 PBP1_BmpA_like Peripla 97.1 0.039 8.5E-07 58.3 19.1 195 20-232 1-202 (260)
195 cd06277 PBP1_LacI_like_1 Ligan 97.0 0.045 9.8E-07 58.0 19.3 202 21-242 2-210 (268)
196 cd01543 PBP1_XylR Ligand-bindi 97.0 0.025 5.4E-07 60.0 17.1 201 20-244 1-207 (265)
197 PRK15408 autoinducer 2-binding 97.0 0.048 1E-06 59.8 19.5 202 18-234 23-234 (336)
198 COG1879 RbsB ABC-type sugar tr 96.9 0.1 2.3E-06 57.0 21.5 215 14-242 29-250 (322)
199 cd06279 PBP1_LacI_like_3 Ligan 96.9 0.051 1.1E-06 58.2 18.7 196 21-239 2-225 (283)
200 TIGR02955 TMAO_TorT TMAO reduc 96.9 0.12 2.5E-06 55.9 21.5 203 20-243 1-215 (295)
201 PRK14987 gluconate operon tran 96.9 0.062 1.4E-06 59.1 19.5 208 17-243 62-273 (331)
202 PRK10401 DNA-binding transcrip 96.8 0.1 2.2E-06 57.8 20.6 208 17-243 58-271 (346)
203 PRK11041 DNA-binding transcrip 96.8 0.098 2.1E-06 56.8 20.0 210 16-243 33-247 (309)
204 PRK09526 lacI lac repressor; R 96.7 0.14 3.1E-06 56.5 20.6 206 17-243 62-274 (342)
205 cd06280 PBP1_LacI_like_4 Ligan 96.7 0.11 2.3E-06 54.9 18.7 201 20-243 1-206 (263)
206 PRK09492 treR trehalose repres 96.6 0.16 3.4E-06 55.4 19.6 191 17-233 61-256 (315)
207 TIGR03427 ABC_peri_uca ABC tra 96.5 0.018 4E-07 62.5 10.9 67 663-736 98-170 (328)
208 TIGR02634 xylF D-xylose ABC tr 96.4 0.25 5.5E-06 53.4 19.7 197 21-234 1-209 (302)
209 TIGR01729 taurine_ABC_bnd taur 96.4 0.0095 2.1E-07 64.5 8.1 67 663-735 92-163 (300)
210 cd06353 PBP1_BmpA_Med_like Per 96.3 0.13 2.7E-06 54.2 15.7 195 20-233 1-201 (258)
211 cd01544 PBP1_GalR Ligand-bindi 96.2 0.38 8.3E-06 50.9 19.4 195 20-243 1-213 (270)
212 cd06315 PBP1_ABC_sugar_binding 96.2 0.67 1.5E-05 49.4 21.0 205 20-237 2-217 (280)
213 TIGR02637 RhaS rhamnose ABC tr 96.1 0.86 1.9E-05 49.2 22.0 198 21-234 1-210 (302)
214 PF13379 NMT1_2: NMT1-like fam 95.8 0.019 4.2E-07 60.3 7.0 71 662-737 105-188 (252)
215 cd05466 PBP2_LTTR_substrate Th 95.8 0.32 6.8E-06 47.6 15.3 70 470-553 13-82 (197)
216 TIGR02405 trehalos_R_Ecol treh 95.7 0.83 1.8E-05 49.6 19.6 191 17-233 58-253 (311)
217 PF09084 NMT1: NMT1/THI5 like; 95.1 0.11 2.5E-06 52.9 9.6 57 663-725 85-146 (216)
218 TIGR01728 SsuA_fam ABC transpo 95.1 0.15 3.2E-06 54.7 10.9 70 662-737 92-166 (288)
219 COG3221 PhnD ABC-type phosphat 95.1 0.32 7E-06 51.7 12.9 110 661-776 134-260 (299)
220 PF03466 LysR_substrate: LysR 95.1 0.37 8E-06 48.3 13.2 182 470-776 19-206 (209)
221 TIGR02122 TRAP_TAXI TRAP trans 94.9 0.15 3.2E-06 55.8 10.5 58 663-726 133-197 (320)
222 cd08412 PBP2_PAO1_like The C-t 94.9 2.3 4.9E-05 41.8 18.4 70 469-552 12-81 (198)
223 cd08421 PBP2_LTTR_like_1 The C 94.9 1.7 3.7E-05 42.8 17.4 69 470-552 13-81 (198)
224 cd08438 PBP2_CidR The C-termin 94.5 2.2 4.7E-05 41.9 17.1 69 470-552 13-81 (197)
225 cd08418 PBP2_TdcA The C-termin 94.4 1.6 3.4E-05 43.1 15.8 71 470-552 13-83 (201)
226 cd08433 PBP2_Nac The C-teminal 94.3 2.7 5.8E-05 41.4 17.2 69 470-552 13-81 (198)
227 cd08411 PBP2_OxyR The C-termin 94.2 2.4 5.2E-05 41.8 16.8 69 470-552 14-82 (200)
228 PRK12684 transcriptional regul 94.2 2.3 4.9E-05 46.2 17.6 115 664-788 184-304 (313)
229 cd06287 PBP1_LacI_like_8 Ligan 94.2 1.9 4.1E-05 45.7 16.6 156 80-243 53-212 (269)
230 cd08442 PBP2_YofA_SoxR_like Th 94.2 2.1 4.6E-05 41.9 16.1 69 470-552 13-81 (193)
231 cd08468 PBP2_Pa0477 The C-term 94.1 1.1 2.5E-05 44.5 14.1 73 470-553 13-85 (202)
232 cd08459 PBP2_DntR_NahR_LinR_li 94.1 1 2.2E-05 44.7 13.6 69 470-552 13-81 (201)
233 PRK11151 DNA-binding transcrip 94.0 2.4 5.1E-05 45.9 17.3 70 470-553 104-173 (305)
234 PRK11480 tauA taurine transpor 93.9 0.17 3.7E-06 55.2 8.1 64 662-731 113-181 (320)
235 PRK12679 cbl transcriptional r 93.8 5.9 0.00013 43.1 20.0 194 470-789 106-306 (316)
236 PF07885 Ion_trans_2: Ion chan 93.8 0.27 5.9E-06 40.9 7.2 55 601-655 22-78 (79)
237 cd08426 PBP2_LTTR_like_5 The C 93.8 2.9 6.2E-05 41.2 16.3 69 470-552 13-81 (199)
238 cd08435 PBP2_GbpR The C-termin 93.8 3.5 7.6E-05 40.5 16.9 72 470-553 13-84 (201)
239 cd08440 PBP2_LTTR_like_4 TThe 93.8 3.8 8.2E-05 40.0 17.1 69 470-552 13-81 (197)
240 PRK11242 DNA-binding transcrip 93.6 3.8 8.2E-05 44.0 18.0 70 470-553 104-173 (296)
241 cd08415 PBP2_LysR_opines_like 93.6 4.3 9.4E-05 39.7 17.3 70 469-552 12-81 (196)
242 CHL00180 rbcR LysR transcripti 93.6 2.9 6.3E-05 45.2 17.0 73 470-553 108-180 (305)
243 cd08413 PBP2_CysB_like The C-t 93.3 4.3 9.3E-05 40.1 16.7 72 469-553 12-83 (198)
244 cd08417 PBP2_Nitroaromatics_li 93.2 2.9 6.3E-05 41.2 15.3 69 470-552 13-81 (200)
245 cd08434 PBP2_GltC_like The sub 93.2 4.7 0.0001 39.3 16.6 69 470-552 13-81 (195)
246 cd08461 PBP2_DntR_like_3 The C 92.9 2.3 5.1E-05 41.8 14.0 69 470-552 13-81 (198)
247 cd08436 PBP2_LTTR_like_3 The C 92.8 6.6 0.00014 38.2 17.0 70 470-552 13-82 (194)
248 PRK09791 putative DNA-binding 92.7 4.1 8.9E-05 43.9 16.4 86 437-553 94-179 (302)
249 cd08420 PBP2_CysL_like C-termi 92.4 7.2 0.00016 38.1 16.8 69 470-552 13-81 (201)
250 TIGR00787 dctP tripartite ATP- 92.4 0.45 9.8E-06 50.0 8.1 104 661-776 126-232 (257)
251 cd08441 PBP2_MetR The C-termin 92.3 5.3 0.00011 39.3 15.6 68 471-552 14-81 (198)
252 cd08437 PBP2_MleR The substrat 92.3 7 0.00015 38.4 16.5 71 470-552 13-83 (198)
253 PF12683 DUF3798: Protein of u 92.2 6.1 0.00013 40.6 15.2 206 18-233 2-224 (275)
254 PRK10339 DNA-binding transcrip 92.2 7.2 0.00016 42.5 17.9 150 82-242 113-267 (327)
255 PRK12683 transcriptional regul 92.2 10 0.00022 41.1 18.8 104 664-777 184-294 (309)
256 TIGR02990 ectoine_eutA ectoine 92.2 2.4 5.2E-05 43.6 12.8 93 138-233 107-207 (239)
257 cd08463 PBP2_DntR_like_4 The C 92.1 5.8 0.00012 39.5 15.7 71 470-553 13-83 (203)
258 PRK12681 cysB transcriptional 91.9 5.6 0.00012 43.4 16.4 70 470-552 106-175 (324)
259 cd08449 PBP2_XapR The C-termin 91.9 12 0.00026 36.5 17.7 71 470-552 13-83 (197)
260 cd08425 PBP2_CynR The C-termin 91.8 7.5 0.00016 38.1 16.2 69 470-552 14-82 (197)
261 cd08443 PBP2_CysB The C-termin 91.8 14 0.00031 36.4 18.8 71 469-552 12-82 (198)
262 cd08457 PBP2_OccR The C-termin 91.8 12 0.00025 36.8 17.5 69 470-552 13-81 (196)
263 cd08419 PBP2_CbbR_RubisCO_like 91.7 7 0.00015 38.1 15.7 68 471-552 13-80 (197)
264 cd08444 PBP2_Cbl The C-termina 91.5 11 0.00025 37.0 17.1 72 469-553 12-83 (198)
265 TIGR00035 asp_race aspartate r 91.5 1.5 3.2E-05 45.1 10.6 92 63-183 55-146 (229)
266 cd08458 PBP2_NocR The C-termin 91.4 12 0.00026 36.8 17.0 69 470-552 13-81 (196)
267 PRK10341 DNA-binding transcrip 91.3 6.4 0.00014 42.6 16.1 70 471-552 111-180 (312)
268 PRK11233 nitrogen assimilation 91.3 7.2 0.00016 42.1 16.4 69 470-552 105-173 (305)
269 cd08456 PBP2_LysR The C-termin 91.3 8.1 0.00018 37.7 15.7 69 470-552 13-81 (196)
270 cd08466 PBP2_LeuO The C-termin 91.0 6.9 0.00015 38.5 14.9 70 470-553 13-82 (200)
271 TIGR02424 TF_pcaQ pca operon t 90.9 6.8 0.00015 42.1 15.7 70 471-552 107-176 (300)
272 PF02608 Bmp: Basic membrane p 90.8 11 0.00024 40.8 17.0 197 20-233 3-212 (306)
273 cd08416 PBP2_MdcR The C-termin 90.8 10 0.00022 37.1 16.0 72 469-552 12-83 (199)
274 PRK12680 transcriptional regul 90.8 15 0.00033 40.0 18.4 71 470-553 106-176 (327)
275 PRK15421 DNA-binding transcrip 90.8 9.9 0.00021 41.3 16.9 69 471-553 103-171 (317)
276 cd08462 PBP2_NodD The C-termin 90.7 5.5 0.00012 39.3 13.8 68 471-553 14-81 (200)
277 PF13531 SBP_bac_11: Bacterial 90.6 2.2 4.7E-05 44.0 10.9 117 663-786 93-226 (230)
278 PRK12682 transcriptional regul 90.6 14 0.00031 39.8 17.9 71 470-553 106-176 (309)
279 cd08414 PBP2_LTTR_aromatics_li 90.5 15 0.00033 35.6 16.9 69 470-552 13-81 (197)
280 PRK10837 putative DNA-binding 90.5 9.3 0.0002 40.7 16.3 69 470-552 102-170 (290)
281 cd08460 PBP2_DntR_like_1 The C 90.5 3.8 8.3E-05 40.5 12.5 70 469-553 12-81 (200)
282 TIGR01256 modA molybdenum ABC 90.4 8.3 0.00018 39.1 14.9 72 700-777 134-206 (216)
283 TIGR00363 lipoprotein, YaeC fa 90.4 4.6 9.9E-05 42.2 12.9 120 661-786 106-249 (258)
284 PRK11013 DNA-binding transcrip 90.1 11 0.00024 40.7 16.6 69 470-552 107-175 (309)
285 PF13377 Peripla_BP_3: Peripla 90.1 1.2 2.5E-05 42.8 7.9 99 143-243 1-102 (160)
286 PRK11482 putative DNA-binding 90.0 5.3 0.00011 43.5 13.9 68 470-553 130-197 (317)
287 cd08465 PBP2_ToxR The C-termin 89.7 6.8 0.00015 38.8 13.6 69 470-552 13-81 (200)
288 cd08423 PBP2_LTTR_like_6 The C 89.7 13 0.00028 36.3 15.6 73 470-553 13-87 (200)
289 cd08453 PBP2_IlvR The C-termin 89.5 20 0.00043 35.1 16.8 73 470-553 13-85 (200)
290 cd08467 PBP2_SyrM The C-termin 89.5 11 0.00023 37.3 14.8 69 470-552 13-81 (200)
291 cd08429 PBP2_NhaR The C-termin 89.5 9.3 0.0002 38.1 14.4 71 470-551 13-83 (204)
292 cd06276 PBP1_FucR_like Ligand- 89.2 24 0.00052 36.6 17.6 148 75-242 45-195 (247)
293 cd08448 PBP2_LTTR_aromatics_li 89.2 22 0.00049 34.4 17.1 69 470-552 13-81 (197)
294 cd08430 PBP2_IlvY The C-termin 89.2 18 0.0004 35.2 16.2 71 469-552 12-82 (199)
295 cd08446 PBP2_Chlorocatechol Th 89.0 24 0.00051 34.4 17.3 69 470-552 14-82 (198)
296 cd08486 PBP2_CbnR The C-termin 88.9 24 0.00052 34.7 16.9 69 470-552 14-82 (198)
297 cd08469 PBP2_PnbR The C-termin 88.9 8.7 0.00019 38.6 13.8 70 470-553 13-82 (221)
298 cd08445 PBP2_BenM_CatM_CatR Th 88.9 24 0.00053 34.7 16.9 69 470-552 14-82 (203)
299 cd08451 PBP2_BudR The C-termin 88.8 21 0.00046 34.7 16.4 69 471-552 15-83 (199)
300 PF12727 PBP_like: PBP superfa 88.7 8.2 0.00018 38.4 12.8 102 662-774 82-192 (193)
301 COG4213 XylF ABC-type xylose t 88.4 16 0.00035 38.3 14.6 211 12-236 19-244 (341)
302 cd08427 PBP2_LTTR_like_2 The C 88.0 19 0.00042 34.9 15.4 71 470-552 13-83 (195)
303 COG3473 Maleate cis-trans isom 87.9 21 0.00045 35.1 14.1 91 140-233 107-205 (238)
304 COG1910 Periplasmic molybdate- 87.8 5.1 0.00011 39.6 10.1 105 663-779 89-202 (223)
305 PRK11063 metQ DL-methionine tr 87.8 15 0.00033 38.7 14.8 120 662-788 120-263 (271)
306 PF03480 SBP_bac_7: Bacterial 87.0 0.81 1.8E-05 49.0 4.9 103 661-775 126-231 (286)
307 cd08464 PBP2_DntR_like_2 The C 87.0 18 0.00038 35.4 14.5 69 470-552 13-81 (200)
308 TIGR03339 phn_lysR aminoethylp 86.9 35 0.00075 35.9 17.6 68 472-553 99-166 (279)
309 PRK09508 leuO leucine transcri 86.9 6.8 0.00015 42.5 12.2 69 470-552 125-193 (314)
310 PRK10200 putative racemase; Pr 86.3 5.3 0.00012 41.0 10.2 90 64-182 56-146 (230)
311 PF01177 Asp_Glu_race: Asp/Glu 86.1 28 0.00062 35.1 15.6 124 77-230 59-198 (216)
312 PRK09986 DNA-binding transcrip 84.5 52 0.0011 35.0 17.6 72 470-553 110-181 (294)
313 PRK11716 DNA-binding transcrip 84.0 33 0.00072 35.9 15.5 70 470-552 80-149 (269)
314 cd06353 PBP1_BmpA_Med_like Per 84.0 3.4 7.3E-05 43.4 7.7 88 19-115 121-208 (258)
315 COG0715 TauA ABC-type nitrate/ 83.5 3.4 7.3E-05 45.4 7.9 71 662-738 127-203 (335)
316 PF14503 YhfZ_C: YhfZ C-termin 83.3 1.6 3.5E-05 44.1 4.6 105 673-788 114-224 (232)
317 COG0725 ModA ABC-type molybdat 82.9 45 0.00097 34.9 15.3 115 663-787 124-252 (258)
318 PRK09860 putative alcohol dehy 82.8 5.8 0.00013 44.4 9.3 88 139-226 19-108 (383)
319 cd08485 PBP2_ClcR The C-termin 82.7 50 0.0011 32.3 17.0 69 470-552 14-82 (198)
320 cd08450 PBP2_HcaR The C-termin 82.5 49 0.0011 32.0 16.4 69 470-552 13-81 (196)
321 COG1454 EutG Alcohol dehydroge 82.3 7 0.00015 43.0 9.3 92 139-230 17-110 (377)
322 PRK09906 DNA-binding transcrip 81.9 52 0.0011 35.1 16.3 70 470-553 103-172 (296)
323 COG1794 RacX Aspartate racemas 81.7 20 0.00043 35.9 11.2 88 66-183 58-146 (230)
324 PRK15454 ethanol dehydrogenase 80.4 7.9 0.00017 43.5 9.3 81 139-219 37-117 (395)
325 COG1638 DctP TRAP-type C4-dica 80.3 3.4 7.3E-05 44.9 6.1 102 662-778 158-265 (332)
326 cd08190 HOT Hydroxyacid-oxoaci 80.1 8 0.00017 43.8 9.3 81 139-219 11-91 (414)
327 cd08192 Fe-ADH7 Iron-containin 78.9 9.6 0.00021 42.5 9.4 89 139-227 12-102 (370)
328 PRK11062 nhaR transcriptional 78.5 37 0.00081 36.3 13.7 73 469-552 105-177 (296)
329 cd08189 Fe-ADH5 Iron-containin 78.4 17 0.00037 40.5 11.2 89 139-227 14-104 (374)
330 PRK10624 L-1,2-propanediol oxi 78.0 11 0.00023 42.3 9.4 81 139-219 18-98 (382)
331 PRK07475 hypothetical protein; 77.7 13 0.00028 38.6 9.2 85 65-181 60-146 (245)
332 cd08193 HVD 5-hydroxyvalerate 77.5 11 0.00024 42.1 9.3 89 139-227 14-104 (376)
333 cd08551 Fe-ADH iron-containing 77.4 12 0.00026 41.8 9.6 89 139-227 11-101 (370)
334 KOG1419 Voltage-gated K+ chann 76.8 3.9 8.4E-05 45.8 5.2 88 569-656 235-324 (654)
335 cd08194 Fe-ADH6 Iron-containin 76.0 13 0.00028 41.5 9.4 81 139-219 11-91 (375)
336 PRK11074 putative DNA-binding 75.9 57 0.0012 34.9 14.3 72 470-553 105-176 (300)
337 cd08452 PBP2_AlsR The C-termin 75.8 81 0.0018 30.6 16.7 69 470-552 13-81 (197)
338 TIGR02638 lactal_redase lactal 75.6 13 0.00028 41.6 9.2 81 139-219 17-97 (379)
339 PF00465 Fe-ADH: Iron-containi 75.3 13 0.00028 41.4 9.2 89 140-230 12-102 (366)
340 PLN03192 Voltage-dependent pot 75.2 5.3 0.00011 49.8 6.6 54 603-656 250-305 (823)
341 PF06506 PrpR_N: Propionate ca 75.0 40 0.00088 32.9 11.5 136 57-234 10-145 (176)
342 PRK10677 modA molybdate transp 73.9 87 0.0019 32.8 14.4 69 474-553 43-117 (257)
343 cd08447 PBP2_LTTR_aromatics_li 73.6 90 0.0019 30.1 16.4 69 470-552 13-81 (198)
344 KOG3857 Alcohol dehydrogenase, 73.5 18 0.00038 38.3 8.6 97 123-219 38-138 (465)
345 cd08188 Fe-ADH4 Iron-containin 72.3 19 0.00041 40.2 9.5 81 139-219 16-96 (377)
346 PRK09861 cytoplasmic membrane 71.3 1E+02 0.0022 32.5 14.2 122 660-787 119-264 (272)
347 PF03808 Glyco_tran_WecB: Glyc 71.1 61 0.0013 31.5 11.6 100 137-246 35-136 (172)
348 cd08185 Fe-ADH1 Iron-containin 70.7 20 0.00044 40.1 9.3 86 140-226 15-103 (380)
349 PF13407 Peripla_BP_4: Peripla 70.1 8.6 0.00019 40.1 5.9 78 154-233 1-81 (257)
350 cd08181 PPD-like 1,3-propanedi 69.9 23 0.00049 39.2 9.4 79 140-219 15-94 (357)
351 cd08176 LPO Lactadehyde:propan 68.3 21 0.00047 39.8 8.9 81 139-219 16-96 (377)
352 cd08191 HHD 6-hydroxyhexanoate 68.1 26 0.00057 39.2 9.6 87 140-227 12-100 (386)
353 COG2358 Imp TRAP-type uncharac 67.3 44 0.00095 35.9 10.2 59 663-727 129-194 (321)
354 PRK10094 DNA-binding transcrip 66.9 1.7E+02 0.0036 31.5 15.3 69 472-552 108-176 (308)
355 cd08431 PBP2_HupR The C-termin 66.5 95 0.0021 29.9 12.5 70 470-552 13-82 (195)
356 cd08170 GlyDH Glycerol dehydro 66.1 20 0.00044 39.5 8.0 77 140-219 12-88 (351)
357 cd07766 DHQ_Fe-ADH Dehydroquin 65.8 46 0.001 36.3 10.8 100 140-244 12-113 (332)
358 cd08182 HEPD Hydroxyethylphosp 63.2 33 0.00072 38.1 9.1 85 140-227 12-98 (367)
359 PF04273 DUF442: Putative phos 63.1 74 0.0016 28.3 9.4 85 145-229 22-107 (110)
360 PRK10537 voltage-gated potassi 62.9 16 0.00035 40.8 6.4 56 599-654 164-221 (393)
361 PF13685 Fe-ADH_2: Iron-contai 62.9 30 0.00065 35.9 8.0 99 141-244 9-108 (250)
362 COG0078 ArgF Ornithine carbamo 62.8 2.1E+02 0.0046 30.3 14.7 184 19-249 45-233 (310)
363 PRK14174 bifunctional 5,10-met 62.3 2.2E+02 0.0048 30.4 14.7 178 19-219 32-217 (295)
364 cd06305 PBP1_methylthioribose_ 61.9 29 0.00063 36.4 8.1 77 154-233 2-81 (273)
365 cd08186 Fe-ADH8 Iron-containin 61.6 37 0.00079 38.0 9.1 87 140-226 12-104 (383)
366 COG1744 Med Uncharacterized AB 60.9 2.6E+02 0.0056 30.7 18.3 204 15-234 31-245 (345)
367 PF07287 DUF1446: Protein of u 60.9 1.7E+02 0.0037 32.2 13.6 173 28-236 5-188 (362)
368 cd08187 BDH Butanol dehydrogen 60.8 38 0.00082 37.9 9.0 79 140-219 18-97 (382)
369 COG0426 FpaA Uncharacterized f 60.3 2.7E+02 0.0059 30.8 16.3 150 19-185 213-363 (388)
370 PRK11119 proX glycine betaine 59.8 33 0.00072 37.4 8.1 64 433-525 24-87 (331)
371 PLN02245 ATP phosphoribosyl tr 59.7 53 0.0011 36.3 9.4 46 506-551 121-172 (403)
372 COG1744 Med Uncharacterized AB 59.6 98 0.0021 34.0 11.7 77 16-98 159-235 (345)
373 PRK14498 putative molybdopteri 57.9 51 0.0011 39.7 10.1 65 151-218 186-262 (633)
374 PF14981 FAM165: FAM165 family 57.6 22 0.00048 25.2 3.9 33 808-840 3-35 (51)
375 cd08171 GlyDH-like2 Glycerol d 57.2 39 0.00085 37.2 8.3 78 140-219 12-89 (345)
376 PRK05452 anaerobic nitric oxid 56.8 2.3E+02 0.0051 32.7 14.7 141 87-247 198-349 (479)
377 PRK11139 DNA-binding transcrip 56.8 1.4E+02 0.0031 31.7 12.5 101 664-772 181-286 (297)
378 cd06301 PBP1_rhizopine_binding 56.7 33 0.00072 35.9 7.5 78 153-233 1-82 (272)
379 PRK00865 glutamate racemase; P 56.7 84 0.0018 33.0 10.3 38 75-112 59-96 (261)
380 PF02608 Bmp: Basic membrane p 56.6 33 0.00071 37.0 7.4 91 18-115 126-221 (306)
381 cd08481 PBP2_GcdR_like The C-t 55.8 1.2E+02 0.0025 29.1 10.9 97 665-770 87-190 (194)
382 cd08432 PBP2_GcdR_TrpI_HvrB_Am 55.7 89 0.0019 30.0 10.0 65 471-552 14-78 (194)
383 PRK09423 gldA glycerol dehydro 55.5 41 0.0009 37.3 8.2 78 139-219 18-95 (366)
384 cd06267 PBP1_LacI_sugar_bindin 55.2 36 0.00077 35.2 7.4 76 154-233 2-79 (264)
385 cd08428 PBP2_IciA_ArgP The C-t 55.0 2E+02 0.0043 27.6 13.2 65 472-551 15-79 (195)
386 PRK15424 propionate catabolism 54.2 1.4E+02 0.003 35.0 12.3 137 57-235 40-176 (538)
387 cd06533 Glyco_transf_WecG_TagA 53.9 1.7E+02 0.0036 28.4 11.1 91 135-232 31-123 (171)
388 cd08422 PBP2_CrgA_like The C-t 53.7 94 0.002 29.8 9.8 66 470-552 14-79 (197)
389 TIGR00067 glut_race glutamate 53.3 1.2E+02 0.0027 31.5 10.7 129 75-219 52-183 (251)
390 PF07302 AroM: AroM protein; 53.3 2.2E+02 0.0047 28.9 11.8 75 152-230 126-202 (221)
391 cd01537 PBP1_Repressors_Sugar_ 52.7 39 0.00085 34.8 7.2 77 154-233 2-80 (264)
392 cd06303 PBP1_LuxPQ_Quorum_Sens 52.6 39 0.00084 35.7 7.2 80 154-233 2-85 (280)
393 cd08183 Fe-ADH2 Iron-containin 52.5 62 0.0013 36.1 9.0 82 140-226 12-95 (374)
394 KOG0025 Zn2+-binding dehydroge 52.5 72 0.0016 33.4 8.3 98 125-233 161-258 (354)
395 TIGR02329 propionate_PrpR prop 52.0 1.6E+02 0.0034 34.6 12.3 130 66-235 37-166 (526)
396 PRK03635 chromosome replicatio 51.5 2.1E+02 0.0045 30.5 12.7 65 473-552 106-170 (294)
397 cd06312 PBP1_ABC_sugar_binding 50.6 49 0.0011 34.6 7.6 79 153-233 1-83 (271)
398 TIGR03298 argP transcriptional 50.5 2.8E+02 0.006 29.3 13.5 64 474-552 107-170 (292)
399 cd06306 PBP1_TorT-like TorT-li 50.3 50 0.0011 34.6 7.5 80 153-233 1-82 (268)
400 PRK13348 chromosome replicatio 50.0 3.3E+02 0.0071 28.8 14.0 64 474-552 107-170 (294)
401 cd08550 GlyDH-like Glycerol_de 49.4 59 0.0013 35.8 8.1 77 140-219 12-88 (349)
402 cd06277 PBP1_LacI_like_1 Ligan 49.3 73 0.0016 33.2 8.6 75 154-233 2-81 (268)
403 cd01538 PBP1_ABC_xylose_bindin 48.9 69 0.0015 34.0 8.4 77 154-233 2-81 (288)
404 cd06289 PBP1_MalI_like Ligand- 48.2 61 0.0013 33.7 7.8 77 154-233 2-80 (268)
405 PRK07377 hypothetical protein; 47.7 43 0.00093 32.3 5.5 45 468-522 91-135 (184)
406 cd01324 cbb3_Oxidase_CcoQ Cyto 47.3 23 0.00049 26.1 2.9 28 568-595 11-38 (48)
407 cd06282 PBP1_GntR_like_2 Ligan 47.2 65 0.0014 33.4 7.9 77 154-233 2-80 (266)
408 PRK15408 autoinducer 2-binding 47.2 80 0.0017 34.6 8.7 82 150-233 22-106 (336)
409 TIGR03414 ABC_choline_bnd chol 46.3 3.9E+02 0.0085 28.4 14.2 41 472-523 23-63 (290)
410 cd01536 PBP1_ABC_sugar_binding 46.0 67 0.0015 33.2 7.7 78 153-233 1-81 (267)
411 cd06299 PBP1_LacI_like_13 Liga 45.9 79 0.0017 32.8 8.2 76 154-233 2-79 (265)
412 cd06354 PBP1_BmpA_PnrA_like Pe 45.9 2.7E+02 0.0057 29.0 12.2 118 17-140 120-237 (265)
413 KOG3713 Voltage-gated K+ chann 45.7 28 0.0006 39.0 4.5 62 579-644 357-420 (477)
414 cd08178 AAD_C C-terminal alcoh 45.2 62 0.0013 36.4 7.5 78 149-226 19-98 (398)
415 PF00625 Guanylate_kin: Guanyl 45.1 1.6E+02 0.0036 28.7 9.8 131 82-232 2-136 (183)
416 cd08470 PBP2_CrgA_like_1 The C 45.1 50 0.0011 32.0 6.2 66 470-552 14-79 (197)
417 cd06322 PBP1_ABC_sugar_binding 44.9 69 0.0015 33.3 7.6 77 154-233 2-81 (267)
418 cd06318 PBP1_ABC_sugar_binding 44.4 66 0.0014 33.8 7.4 77 154-233 2-81 (282)
419 cd01391 Periplasmic_Binding_Pr 43.9 70 0.0015 32.7 7.5 78 153-233 1-83 (269)
420 cd08475 PBP2_CrgA_like_6 The C 42.7 1.5E+02 0.0032 28.5 9.2 66 699-771 129-196 (199)
421 PRK03601 transcriptional regul 42.6 42 0.00092 35.4 5.5 70 470-553 102-171 (275)
422 cd06167 LabA_like LabA_like pr 42.6 2.9E+02 0.0062 25.8 11.6 93 140-233 27-124 (149)
423 COG0563 Adk Adenylate kinase a 42.3 60 0.0013 31.8 6.0 29 85-113 3-31 (178)
424 PRK10014 DNA-binding transcrip 42.3 1.1E+02 0.0024 33.4 8.9 80 151-233 64-145 (342)
425 cd08175 G1PDH Glycerol-1-phosp 42.1 96 0.0021 34.2 8.3 78 140-219 12-91 (348)
426 TIGR00696 wecB_tagA_cpsF bacte 42.0 2.3E+02 0.005 27.7 9.9 87 136-230 34-122 (177)
427 PRK13010 purU formyltetrahydro 41.9 4.6E+02 0.01 27.9 13.6 91 84-180 11-119 (289)
428 PRK00002 aroB 3-dehydroquinate 41.8 1.8E+02 0.0039 32.2 10.4 101 140-244 20-127 (358)
429 KOG0498 K+-channel ERG and rel 41.7 24 0.00052 42.3 3.6 70 603-672 294-370 (727)
430 COG0426 FpaA Uncharacterized f 41.7 5.3E+02 0.012 28.6 14.0 143 85-248 193-343 (388)
431 PRK13805 bifunctional acetalde 41.4 2.9E+02 0.0064 34.7 13.3 76 150-225 479-558 (862)
432 KOG0780 Signal recognition par 41.3 2.9E+02 0.0064 30.4 11.0 103 139-245 118-223 (483)
433 TIGR02667 moaB_proteo molybden 41.2 1.6E+02 0.0035 28.3 8.7 65 151-217 4-72 (163)
434 PF01634 HisG: ATP phosphoribo 41.2 29 0.00063 33.3 3.5 101 663-775 58-160 (163)
435 cd06310 PBP1_ABC_sugar_binding 41.2 83 0.0018 32.8 7.5 80 153-233 1-83 (273)
436 cd06300 PBP1_ABC_sugar_binding 41.1 89 0.0019 32.6 7.8 80 153-233 1-86 (272)
437 cd01545 PBP1_SalR Ligand-bindi 41.1 94 0.002 32.3 7.9 78 154-233 2-81 (270)
438 TIGR00854 pts-sorbose PTS syst 41.0 1.4E+02 0.003 28.4 7.9 81 138-226 13-93 (151)
439 cd01540 PBP1_arabinose_binding 40.9 74 0.0016 33.6 7.1 76 154-233 2-80 (289)
440 PRK09756 PTS system N-acetylga 40.4 1.5E+02 0.0033 28.3 8.2 81 137-226 16-97 (158)
441 cd08479 PBP2_CrgA_like_9 The C 40.4 66 0.0014 31.2 6.3 64 470-550 14-77 (198)
442 COG1880 CdhB CO dehydrogenase/ 40.3 2.4E+02 0.0052 26.6 8.8 121 76-205 29-168 (170)
443 cd06304 PBP1_BmpA_like Peripla 40.2 2.8E+02 0.0062 28.6 11.4 128 18-154 120-247 (260)
444 PRK10481 hypothetical protein; 39.9 2.6E+02 0.0056 28.5 10.1 76 142-221 119-195 (224)
445 PRK11303 DNA-binding transcrip 39.9 1.3E+02 0.0028 32.6 9.0 80 151-233 61-142 (328)
446 PRK11070 ssDNA exonuclease Rec 39.9 1.3E+02 0.0028 35.5 9.2 84 152-246 70-160 (575)
447 PF00072 Response_reg: Respons 39.7 1.8E+02 0.0039 25.1 8.4 65 156-232 2-69 (112)
448 PRK09189 uroporphyrinogen-III 39.7 1.3E+02 0.0029 30.9 8.6 88 137-230 102-191 (240)
449 cd06295 PBP1_CelR Ligand bindi 39.7 1.2E+02 0.0026 31.7 8.4 77 151-233 3-88 (275)
450 PRK15395 methyl-galactoside AB 39.6 2.5E+02 0.0054 30.5 11.1 125 16-148 160-293 (330)
451 PF06305 DUF1049: Protein of u 39.5 88 0.0019 24.8 5.6 24 814-837 24-47 (68)
452 cd08197 DOIS 2-deoxy-scyllo-in 39.5 2.3E+02 0.005 31.2 10.7 100 141-244 13-119 (355)
453 cd06316 PBP1_ABC_sugar_binding 39.1 87 0.0019 33.3 7.4 79 153-233 1-82 (294)
454 cd06315 PBP1_ABC_sugar_binding 38.8 1.3E+02 0.0028 31.6 8.6 79 152-233 1-82 (280)
455 cd02071 MM_CoA_mut_B12_BD meth 38.8 2.1E+02 0.0046 25.8 8.7 62 166-233 14-79 (122)
456 cd06281 PBP1_LacI_like_5 Ligan 38.7 1.1E+02 0.0025 31.7 8.1 77 154-233 2-80 (269)
457 cd08179 NADPH_BDH NADPH-depend 38.6 78 0.0017 35.3 7.0 71 149-219 21-92 (375)
458 PRK13583 hisG ATP phosphoribos 38.5 2.3E+02 0.005 28.9 9.5 46 506-551 55-106 (228)
459 COG3114 CcmD Heme exporter pro 38.1 38 0.00082 26.3 2.9 42 815-856 17-60 (67)
460 PRK03692 putative UDP-N-acetyl 37.8 1.8E+02 0.0039 30.1 8.9 87 137-230 92-179 (243)
461 PRK10936 TMAO reductase system 37.8 1.2E+02 0.0025 33.3 8.2 80 152-233 47-129 (343)
462 cd00578 L-fuc_L-ara-isomerases 37.7 4.1E+02 0.009 30.4 12.9 127 19-158 1-133 (452)
463 cd08180 PDD 1,3-propanediol de 37.6 87 0.0019 34.2 7.0 73 146-219 17-89 (332)
464 cd01539 PBP1_GGBP Periplasmic 37.3 1.2E+02 0.0025 32.6 8.0 78 153-233 1-83 (303)
465 PRK08811 uroporphyrinogen-III 37.3 3.8E+02 0.0082 28.2 11.5 115 106-229 94-210 (266)
466 PRK10355 xylF D-xylose transpo 37.2 1.4E+02 0.003 32.6 8.6 79 152-233 26-107 (330)
467 cd00001 PTS_IIB_man PTS_IIB, P 37.1 1.7E+02 0.0036 27.8 7.9 81 138-226 12-92 (151)
468 PF00532 Peripla_BP_1: Peripla 36.9 87 0.0019 33.2 6.8 77 152-233 2-80 (279)
469 cd06278 PBP1_LacI_like_2 Ligan 36.8 1.1E+02 0.0025 31.5 7.7 75 154-233 2-78 (266)
470 KOG1420 Ca2+-activated K+ chan 36.6 19 0.00041 40.4 1.6 62 595-656 280-343 (1103)
471 cd06323 PBP1_ribose_binding Pe 36.4 1.2E+02 0.0025 31.5 7.7 77 154-233 2-81 (268)
472 cd08177 MAR Maleylacetate redu 36.2 89 0.0019 34.2 6.9 85 139-226 11-97 (337)
473 cd06270 PBP1_GalS_like Ligand 36.1 1.4E+02 0.0031 30.9 8.4 76 154-233 2-79 (268)
474 TIGR00070 hisG ATP phosphoribo 36.1 93 0.002 30.5 6.1 75 663-749 101-175 (182)
475 PRK11921 metallo-beta-lactamas 36.0 5.1E+02 0.011 29.0 13.1 140 87-246 194-344 (394)
476 PF00205 TPP_enzyme_M: Thiamin 35.8 31 0.00067 32.0 2.8 52 78-130 8-61 (137)
477 cd06320 PBP1_allose_binding Pe 35.7 1.2E+02 0.0025 31.7 7.6 79 154-233 2-83 (275)
478 PRK11425 PTS system N-acetylga 35.6 2E+02 0.0042 27.5 8.1 81 137-226 14-94 (157)
479 cd06296 PBP1_CatR_like Ligand- 35.6 1.3E+02 0.0029 31.2 8.0 76 154-233 2-79 (270)
480 PF03830 PTSIIB_sorb: PTS syst 35.4 83 0.0018 29.8 5.6 81 139-227 14-94 (151)
481 cd06302 PBP1_LsrB_Quorum_Sensi 35.3 1.3E+02 0.0027 32.2 7.9 78 154-233 2-82 (298)
482 cd06317 PBP1_ABC_sugar_binding 35.2 1.2E+02 0.0027 31.5 7.7 77 154-233 2-82 (275)
483 cd00886 MogA_MoaB MogA_MoaB fa 35.0 2E+02 0.0043 27.2 8.2 63 153-217 2-70 (152)
484 PRK09701 D-allose transporter 34.9 2.6E+02 0.0057 29.9 10.3 85 148-233 21-108 (311)
485 PRK11914 diacylglycerol kinase 34.9 2.6E+02 0.0057 30.0 10.2 80 148-231 5-87 (306)
486 TIGR00249 sixA phosphohistidin 34.9 1.6E+02 0.0035 27.8 7.6 99 131-230 23-121 (152)
487 PRK01686 hisG ATP phosphoribos 34.5 3.8E+02 0.0082 27.1 10.2 91 673-775 115-208 (215)
488 cd06319 PBP1_ABC_sugar_binding 34.0 1.2E+02 0.0026 31.6 7.4 77 154-233 2-81 (277)
489 cd06273 PBP1_GntR_like_1 This 33.8 1.6E+02 0.0034 30.6 8.2 76 154-233 2-79 (268)
490 cd08487 PBP2_BlaA The C-termin 33.5 4.2E+02 0.0091 25.0 13.1 99 665-771 85-186 (189)
491 cd01542 PBP1_TreR_like Ligand- 33.5 1.5E+02 0.0033 30.4 8.0 76 154-233 2-79 (259)
492 TIGR00315 cdhB CO dehydrogenas 33.4 2.7E+02 0.0058 26.7 8.6 46 67-115 16-63 (162)
493 PF02310 B12-binding: B12 bind 33.3 3.3E+02 0.0071 24.2 9.1 58 167-230 16-77 (121)
494 TIGR02417 fruct_sucro_rep D-fr 33.3 2.1E+02 0.0046 30.8 9.3 80 151-233 60-141 (327)
495 PRK15116 sulfur acceptor prote 32.8 4.3E+02 0.0093 27.8 10.8 109 37-161 87-208 (268)
496 COG4126 Hydantoin racemase [Am 32.3 3.7E+02 0.0081 27.1 9.4 49 63-113 46-97 (230)
497 cd08184 Fe-ADH3 Iron-containin 32.0 2.1E+02 0.0046 31.4 8.9 76 140-219 12-92 (347)
498 PRK10653 D-ribose transporter 31.9 1.6E+02 0.0036 31.2 8.1 80 151-233 26-108 (295)
499 PRK10216 DNA-binding transcrip 31.7 6.7E+02 0.015 26.9 15.8 72 470-553 110-188 (319)
500 TIGR02370 pyl_corrinoid methyl 31.4 3.3E+02 0.0071 27.1 9.4 89 153-247 86-178 (197)
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=1.4e-89 Score=715.41 Aligned_cols=784 Identities=18% Similarity=0.283 Sum_probs=647.6
Q ss_pred CCCCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC--CcEEEEEEe--cCCCCHHHHHHHHHHHHhcCCeEEEE
Q 002352 13 KNTTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY--KTRLLLNTR--NSKGDVVAAAAAALDLLNNVLVQAIL 88 (932)
Q Consensus 13 ~~~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~--g~~l~~~~~--D~~~~~~~a~~~a~~li~~~~v~aii 88 (932)
.+-+.+|.||.++|.+.. +...|++.|+...|...... ..++.+++. +. .+......+.|+..++ +|.||+
T Consensus 21 G~f~~tiqigglF~~n~~---qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~-a~Sf~~tnafCsq~s~-Gv~Aif 95 (897)
T KOG1054|consen 21 GAFPNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLES-ANSFAVTNAFCSQFSR-GVYAIF 95 (897)
T ss_pred ccCCCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhh-hhhHHHHHHHHHHHhh-hHhhhe
Confidence 346778999999998873 34788999998888654322 355665553 33 4777888899999987 999999
Q ss_pred ccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChH
Q 002352 89 GPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMI 168 (932)
Q Consensus 89 Gp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 168 (932)
|-........+..+|+..++|.|+++.. ++...++.+++.|+ ...++++++.|++|.+++.+| |.+.|...+
T Consensus 96 g~yd~ks~~~ltsfc~aLh~~~vtpsfp----~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~~rg~s~L 167 (897)
T KOG1054|consen 96 GFYDKKSVNTLTSFCGALHVSFVTPSFP----TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DTDRGLSIL 167 (897)
T ss_pred ecccccchhhhhhhccceeeeeecccCC----cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cccchHHHH
Confidence 9999999999999999999999997651 23457899999886 567899999999999999999 677888999
Q ss_pred HHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccch
Q 002352 169 PSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTN 248 (932)
Q Consensus 169 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~ 248 (932)
+++.+.+.++++.|.....-. ..+..++..+++.|...+.+.++++|..+...+++.++-+.|-...+|++|+.+..-.
T Consensus 168 qai~~~a~~~nw~VtA~~v~~-~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~ 246 (897)
T KOG1054|consen 168 QAIMEAAAQNNWQVTAINVGN-INDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFT 246 (897)
T ss_pred HHHHHHHHhcCceEEEEEcCC-cccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCc
Confidence 999999999999998876532 2344559999999999999999999999999999999999888889999999874332
Q ss_pred hcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccc
Q 002352 249 LLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGF 328 (932)
Q Consensus 249 ~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~ 328 (932)
..++ ..+.....++.|++..+.++|..++|.++|++....++|+....++.+-++++|||+.+.++|++.+..++.+.
T Consensus 247 d~dl--~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~ 324 (897)
T KOG1054|consen 247 DIDL--ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDI 324 (897)
T ss_pred hhhH--HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhch
Confidence 2221 12344566799999999999999999999999877777877766888899999999999999999998776554
Q ss_pred cccccCCCCCccc--cccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCcccc
Q 002352 329 DKTNVSSNATDLE--AFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLTLK 404 (932)
Q Consensus 329 ~~~~~~~~~~~~~--~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~~~ 404 (932)
.+.+..+ ||- +..+|..|..+-.+|++++++|+||+++|| .|.|.+.+.+|+.+. ++.+++|.|++..|+...
T Consensus 325 ~rRG~~G---D~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~fv~~ 401 (897)
T KOG1054|consen 325 SRRGNAG---DCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEGFVPG 401 (897)
T ss_pred hccCCCc---cccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCceeec
Confidence 4433222 342 456899999999999999999999999998 999999999999999 999999999999988643
Q ss_pred ccCCCccCCCccceEeCCCCCCCCCCC-CcCCCCCcEEEEeecccCcccceEEEecC--CCCCCceEEEEeHHHHHHHHH
Q 002352 405 LRSNSTTKSKLRPIIWPGDSTSDPKGW-EIPTNKRKLRIGVPVTKGFSDFVKVTIDP--NTRESASVTGYSIAVFKAVIE 481 (932)
Q Consensus 405 ~~~~~~~~~~~~~i~Wpg~~~~~P~~~-~~~~~~~~l~v~~~~~~~~~~~~~~~~~~--~~~~~~~~~G~~~dl~~~la~ 481 (932)
.+ ..+.+. ......++..|.+....|| ++..++. ..+ +.++.|||+||+.+||+
T Consensus 402 ~t-------------------~a~~~~d~~~~~n~tvvvttiL~spy---vm~kkn~~~~eg-n~ryEGyCvdLa~~iAk 458 (897)
T KOG1054|consen 402 ST-------------------VAQSRNDQASKENRTVVVTTILESPY---VMLKKNHEQLEG-NERYEGYCVDLAAEIAK 458 (897)
T ss_pred cc-------------------cccccccccccccceEEEEEecCCch---hHHHhhHHHhcC-CcccceeHHHHHHHHHH
Confidence 22 000000 0112344455555444444 5554443 355 88999999999999999
Q ss_pred HCCCcccEEEEeccCCCC--CCCCC-HHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCC
Q 002352 482 ELPYAVAYDFVPYAQPDG--TSSGS-YNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKN 558 (932)
Q Consensus 482 ~l~f~~~~~~~~~~~~~g--~~ngs-~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~ 558 (932)
+.++.+++..+..+ .+| ...++ |+||++.|..|++|+++++++||.+|++.+|||.|++..|+++|+++|++..+.
T Consensus 459 hi~~~Y~l~iv~dg-kyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPqKsk~g 537 (897)
T KOG1054|consen 459 HIGIKYKLFIVGDG-KYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPG 537 (897)
T ss_pred hcCceEEEEEecCC-cccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcccCCCC
Confidence 99976666555422 233 25566 999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCC------cc-------cccccchhhhHHHHhhhcCcc-ccc
Q 002352 559 AWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRG------PA-------QHQVGTSFWFSFSTMVFSHRE-RVI 624 (932)
Q Consensus 559 ~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~------~~-------~~~~~~~~~~~~~~l~~~~~~-~~~ 624 (932)
.+.|+.|+..++|+||+..++-+++++++..|+++.+|+- +. -..+.+++||+++++|+||.+ .|+
T Consensus 538 VFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~DI~PR 617 (897)
T KOG1054|consen 538 VFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGCDISPR 617 (897)
T ss_pred eeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCCCCCcc
Confidence 9999999999999999999999999999999999877642 22 136779999999999999965 679
Q ss_pred ccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCC-cEEEEcChhHHHHHHhcCCCc-ccc----
Q 002352 625 SNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGD-NVGYRKDSFVFGILKQLGFDE-KKL---- 698 (932)
Q Consensus 625 s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~-~vg~~~~s~~~~~l~~~~~~~-~~~---- 698 (932)
+.++|++-.+||||.||++++|||||++|||+.++.++|.|.+||.++.+ .+|+..+....+|+++....- .++
T Consensus 618 slSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skiavy~kMW~yM 697 (897)
T KOG1054|consen 618 SLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYEKMWTYM 697 (897)
T ss_pred ccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999988 889988887888887632210 000
Q ss_pred ------cccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEecccccccceEEEecCCCCChHHHHHHH
Q 002352 699 ------IAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAI 771 (932)
Q Consensus 699 ------~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~i 771 (932)
+-..+..|+++.+.+.+ |.+||+.|...-+|.-++. |+ -..|+..+.+.+||++.||||.|+..+|.++
T Consensus 698 ~SaepsVFv~t~aeGv~rVRksK---GkyAfLLEsTmNey~eqRkPCD-TMKVGgNLds~GYGiATp~Gsslr~~vNLAv 773 (897)
T KOG1054|consen 698 KSAEPSVFVRTTAEGVARVRKSK---GKYAFLLESTMNEYIEQRKPCD-TMKVGGNLDSKGYGIATPKGSSLRNAVNLAV 773 (897)
T ss_pred hcCCcceeeehhhhHHHHHHhcC---CceEeehHhhhhhhhhccCCcc-ceecccccCCcceeecCCCCcccccchhhhh
Confidence 12235667888887766 6899999998888877766 98 4568899999999999999999999999999
Q ss_pred HhhhccchHHHHHHHhccCCCCCCCCC--CCCCcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccC
Q 002352 772 LNVTEGNKMKEIEDEWFKKRASCPDAS--NAGSSHSLGLNSFRGLFLIAGTAATSALIIFLAVFVCEHRNVLKR 843 (932)
Q Consensus 772 l~l~e~G~~~~~~~~~~~~~~~~~~~~--~~~~~~~L~l~~~~g~f~il~~g~~ls~~vf~~E~~~~~~~~~~~ 843 (932)
++|.|.|+++++++||+.++++|.... ..++..+|+|.+++|+||||..|+++|.++.++|++|+.|...++
T Consensus 774 LkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eakr 847 (897)
T KOG1054|consen 774 LKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKR 847 (897)
T ss_pred hhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHHh
Confidence 999999999999999999999998765 333457899999999999999999999999999999998877643
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=2.1e-78 Score=634.57 Aligned_cols=757 Identities=20% Similarity=0.322 Sum_probs=609.2
Q ss_pred CCCCCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEE--EEecCCCCHHHHHHHHHHHHhcCCeEEEEc
Q 002352 12 SKNTTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLL--NTRNSKGDVVAAAAAALDLLNNVLVQAILG 89 (932)
Q Consensus 12 ~~~~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~--~~~D~~~~~~~a~~~a~~li~~~~v~aiiG 89 (932)
+...+++++||.++.... ....+.-++.++|++.+- .++.+ .......++.+.+..+|+-+-+..|.+|+-
T Consensus 29 a~~np~t~nig~Vlst~~-----~ee~F~~t~~hln~~~~s--~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 29 AACNPKTVNIGAVLSTRK-----HEEMFRETVNHLNKRHGS--WKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred cCCCccceeeeeeeechh-----HHHHHHHHHHHhhccccc--eEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 445678899999987643 356678889999987653 34433 222233467777777775444458888874
Q ss_pred --cCChh---HHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc
Q 002352 90 --PEKSM---QTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY 163 (932)
Q Consensus 90 --p~~s~---~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~ 163 (932)
|.+|. .-.++..-++.+.+|++.....+..+++ .-++.|.|+.|+.+.|+....+.+.+|.|++|.++.+||.-
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 22222 2346667778899999999988888988 45899999999999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 164 GEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 164 g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
|+.....++..+++...++.....+. +....++..|-..+..++||+++....+++..+++.|-+++|++.|||||++
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 99888888888887666555444443 4456799999999999999999999999999999999999999999999999
Q ss_pred cccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcc
Q 002352 244 EGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGI 323 (932)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~ 323 (932)
...... ....+|++|.+.-... ...+..-|++.++|.|++++..
T Consensus 260 E~a~~~--------nn~PdG~LGlqL~~~~----------------------------~~~~hirDsv~vlasAv~e~~~ 303 (993)
T KOG4440|consen 260 ERAISG--------NNLPDGILGLQLINGK----------------------------NESAHIRDSVGVLASAVHELLE 303 (993)
T ss_pred cccccc--------CCCCCceeeeEeecCc----------------------------cccceehhhHHHHHHHHHHHHh
Confidence 754321 1236899998864321 1234567999999999999875
Q ss_pred ccccccccccCCCCCccccccccCChHHHHHHhhcce-eeeeeeeEEee-CCccccccEEEEEee-cC-eEEEEEEcCCC
Q 002352 324 TSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTR-FKGLTGDYVFV-DGQLQSSAFEIINVN-NG-ARGVGFWTPEK 399 (932)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~-f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g-~~~vG~w~~~~ 399 (932)
.......+. ..|++...|..|..|.+.+...+ .+|.||++.|+ +|+|....|+|+|+. +. ...+|.|+.
T Consensus 304 ~e~I~~~P~-----~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~-- 376 (993)
T KOG4440|consen 304 KENITDPPR-----GCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDG-- 376 (993)
T ss_pred hccCCCCCC-----cccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccccc--
Confidence 532211111 23456678999999999888766 58999999995 999999999999996 43 444444442
Q ss_pred CccccccCCCccCCCccceEeCCCCCCCCCCCCcCCCCCcEEEEeecccCcccceEEEe---------------c-----
Q 002352 400 GLTLKLRSNSTTKSKLRPIIWPGDSTSDPKGWEIPTNKRKLRIGVPVTKGFSDFVKVTI---------------D----- 459 (932)
Q Consensus 400 g~~~~~~~~~~~~~~~~~i~Wpg~~~~~P~~~~~~~~~~~l~v~~~~~~~~~~~~~~~~---------------~----- 459 (932)
+... .+.+.|+|||+.+.+|++..+| .+|||.+.+++|| +++.. |
T Consensus 377 -~r~~--------~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~PF---VYv~p~~sd~~c~eef~~~~d~~~k~ 441 (993)
T KOG4440|consen 377 -TRVI--------PNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQEPF---VYVKPTLSDGTCKEEFTVNGDPVKKV 441 (993)
T ss_pred -eeec--------cCCceeecCCCCcCCCcccccc---ceeEEEEeccCCe---EEEecCCCCcchhhhccccCCcccce
Confidence 2111 2467899999999999999997 7899999988886 55431 1
Q ss_pred ---------CCCC---CCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCC---C-----C-CCCCHHHHHHHHHcCccc
Q 002352 460 ---------PNTR---ESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPD---G-----T-SSGSYNDLMYQVFRGKFD 518 (932)
Q Consensus 460 ---------~~~~---~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~---g-----~-~ngs~~~li~~l~~g~~D 518 (932)
|.++ ...++.|||+|++-.+++.+||+++..+++...-+ + + ...+|+|+++.|.+|++|
T Consensus 442 ~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~AD 521 (993)
T KOG4440|consen 442 ICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQAD 521 (993)
T ss_pred eecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhhhhhhCCccc
Confidence 0000 03456899999999999999999888777633111 1 1 234899999999999999
Q ss_pred EEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCC-CC
Q 002352 519 AVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNED-FR 597 (932)
Q Consensus 519 ~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~-~~ 597 (932)
|++++++|+++|.++++||.||...|+.++.+++. +.+.+-.|++||+..+|+++++++.++++++++++|+++-+ |.
T Consensus 522 MivaplTINpERa~yieFskPfkYqGitILeKk~~-r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk 600 (993)
T KOG4440|consen 522 MIVAPLTINPERAQYIEFSKPFKYQGITILEKKEI-RRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFK 600 (993)
T ss_pred eEeeceeeChhhhhheeccCcccccceEEEeeCCC-CCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccee
Confidence 99999999999999999999999999999999884 44588899999999999999999999999999999998754 43
Q ss_pred Cc-------ccccccchhhhHHHHhhhcC-cc-cccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHH
Q 002352 598 GP-------AQHQVGTSFWFSFSTMVFSH-RE-RVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQM 668 (932)
Q Consensus 598 ~~-------~~~~~~~~~~~~~~~l~~~~-~~-~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~d 668 (932)
.. ...+++.++||++|.|+..| ++ .|+|.++|++-++|+-|++|++++|||||++||...+.+..++.+.|
T Consensus 601 ~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinD 680 (993)
T KOG4440|consen 601 VNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGIND 680 (993)
T ss_pred eccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCCCC
Confidence 32 23478999999999999887 44 67999999999999999999999999999999999999999999988
Q ss_pred HHhCC----CcEEEEcChhHHHHHHhcC-----CCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCc
Q 002352 669 LIKSG----DNVGYRKDSFVFGILKQLG-----FDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCS 739 (932)
Q Consensus 669 L~~~~----~~vg~~~~s~~~~~l~~~~-----~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~ 739 (932)
-.-.+ ..++++++|.+..|+++.- +..-.-..|.+.+|+++++.+|+ .+||+-|..-++|-.++.|.
T Consensus 681 pRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gk----L~AFIWDS~rLEfEAs~~Ce 756 (993)
T KOG4440|consen 681 PRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGK----LHAFIWDSARLEFEASQKCE 756 (993)
T ss_pred ccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCc----eeEEEeecceeeehhhcccc
Confidence 65433 3688999999999987621 11111236778899999999999 99999999999999999998
Q ss_pred ceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhccCCC-CCCCCCCCCCcccccccchhHHHHHH
Q 002352 740 KYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWFKKRA-SCPDASNAGSSHSLGLNSFRGLFLIA 818 (932)
Q Consensus 740 ~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~~~~~-~~~~~~~~~~~~~L~l~~~~g~f~il 818 (932)
+...++.|...+||+.++||||+.+.+..+|++++|+|+|+++.++|....+ .|.. .....+..|+++++.|+|++.
T Consensus 757 -LvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~-~~~k~PatLgl~NMagvFiLV 834 (993)
T KOG4440|consen 757 -LVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECD-SRSKAPATLGLENMAGVFILV 834 (993)
T ss_pred -eEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhh-hhccCcccccccccccEEEEE
Confidence 8889999999999999999999999999999999999999999999997643 2222 233377889999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccc
Q 002352 819 GTAATSALIIFLAVFVCEHRNVLK 842 (932)
Q Consensus 819 ~~g~~ls~~vf~~E~~~~~~~~~~ 842 (932)
+.|+...+.+.++|+.|+||+..+
T Consensus 835 ~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 835 AGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred ecchhheeeEEEEeehhhhhhhhh
Confidence 999999988889999999988764
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=1.1e-73 Score=620.92 Aligned_cols=715 Identities=21% Similarity=0.357 Sum_probs=562.8
Q ss_pred cEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh---HHHHHHHhcCCCCccEEecccCCCC-ccC-CCCCceE
Q 002352 55 TRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM---QTNFIIQLGNKSQVPILSFSATSPS-LTS-IRSSYFF 129 (932)
Q Consensus 55 ~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~---~a~~v~~~~~~~~iP~Is~~a~~~~-l~~-~~~p~~~ 129 (932)
....+..++. .||..-+...|+++...+|++|+=-..|. ++..+--+....+||+|+..+.+.- +++ .....|+
T Consensus 73 ~~~~~l~~N~-tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~fl 151 (1258)
T KOG1053|consen 73 VVPVLLPMNT-TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFL 151 (1258)
T ss_pred ceeeEeecCC-CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEE
Confidence 3344444454 69999999999999999999988544333 3334444556789999999776544 344 3356899
Q ss_pred ecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh--CCceeeeeeecCCCCChhHHHHHHHHHhcC
Q 002352 130 RGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA--IDTRVPYRSVISPLATDDQIEKELYKLFTM 207 (932)
Q Consensus 130 r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~ 207 (932)
++.++-++|+++|.++|+.|+|..++++.+..+..+.+...++..... .|+++......... .++.......+|++-
T Consensus 152 Qlg~Sieqqa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s-~~d~~a~~q~qLkki 230 (1258)
T KOG1053|consen 152 QLGPSIEQQAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS-TDDLLAKLQAQLKKI 230 (1258)
T ss_pred EeCCcHHHHHHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC-CCchHHHHHHHHHhc
Confidence 999999999999999999999999999999888777777777766554 46565554444333 223344445566677
Q ss_pred CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHh
Q 002352 208 QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRK 287 (932)
Q Consensus 208 ~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~ 287 (932)
++.||+++|+.+++..||..|.+.|+++++|+||++...... ++.-.+...|.+.+... .|+
T Consensus 231 ~a~VillyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~----~~~pa~~P~GLisv~~~------------~w~-- 292 (1258)
T KOG1053|consen 231 QAPVILLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL----EPRPAEFPLGLISVSYD------------TWR-- 292 (1258)
T ss_pred CCcEEEEEecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC----CCCCccCccceeeeecc------------chh--
Confidence 799999999999999999999999999999999997654432 11112344566655432 121
Q ss_pred hhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeee
Q 002352 288 FLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGD 367 (932)
Q Consensus 288 ~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~ 367 (932)
..+....-|+|.++|.|...+.........+..+|-... ......+..+...|.|++|+| ++
T Consensus 293 -------------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~---~~~~~~~~~l~r~l~NvT~~g--~~ 354 (1258)
T KOG1053|consen 293 -------------YSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQE---ETRLTSGETLHRFLANVTWDG--RD 354 (1258)
T ss_pred -------------hhHHHHHhhhHHHHHHHHHHHHhhcccCCCccccccccc---Cccccchhhhhhhhheeeecc--cc
Confidence 235566789999999999998776544443333332221 123457889999999999999 89
Q ss_pred EEee-CCccccccEEEEEee-c-CeEEEEEEcCCCCccccccCCCccCCCccceEeCCCCCCCCCCCCcCCCCCcEEEEe
Q 002352 368 YVFV-DGQLQSSAFEIINVN-N-GARGVGFWTPEKGLTLKLRSNSTTKSKLRPIIWPGDSTSDPKGWEIPTNKRKLRIGV 444 (932)
Q Consensus 368 ~~f~-~g~~~~~~~~I~n~~-~-g~~~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wpg~~~~~P~~~~~~~~~~~l~v~~ 444 (932)
+.|. +|-..++...++... + -|..||.|+... + .++..+||.... ...+. ....||+|.+
T Consensus 355 lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L------------~M~y~vWPr~~~---~~q~~-~d~~HL~VvT 417 (1258)
T KOG1053|consen 355 LSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-L------------VMKYPVWPRYHK---FLQPV-PDKLHLTVVT 417 (1258)
T ss_pred eeecCCceeeccceEEEecCCCcchheeceecCCe-E------------EEeccccccccC---ccCCC-CCcceeEEEE
Confidence 9996 888777877777665 3 399999999643 3 357789994432 11222 2455899999
Q ss_pred ecccCcccceEEE-ecCCCCC--------------------------CceEEEEeHHHHHHHHHHCCCcccEEEEeccCC
Q 002352 445 PVTKGFSDFVKVT-IDPNTRE--------------------------SASVTGYSIAVFKAVIEELPYAVAYDFVPYAQP 497 (932)
Q Consensus 445 ~~~~~~~~~~~~~-~~~~~~~--------------------------~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~ 497 (932)
.+++|| +.++ -||.++. +.++.||||||++.||+.+||++++-.+..+ .
T Consensus 418 LeE~PF---Vive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnG-K 493 (1258)
T KOG1053|consen 418 LEERPF---VIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNG-K 493 (1258)
T ss_pred eccCCe---EEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCC-c
Confidence 999887 4443 2333210 4568999999999999999998776554433 4
Q ss_pred CC-CCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHH
Q 002352 498 DG-TSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGC 576 (932)
Q Consensus 498 ~g-~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~ 576 (932)
.| +.||.|+|||++|..+++||+++.++|+++|.+.||||.||.++++++||...+.. .+.-+||.||++.+|+.+++
T Consensus 494 hGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngt-vspsAFLePfs~svWVmmFV 572 (1258)
T KOG1053|consen 494 HGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGT-VSPSAFLEPFSPSVWVMMFV 572 (1258)
T ss_pred ccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCc-cCchhhcCCcchHHHHHHHH
Confidence 44 48999999999999999999999999999999999999999999999999987554 57889999999999999999
Q ss_pred HHHHH-HHHHHhhhcccCCCCC---------CcccccccchhhhHHHHhhhcC--cccccccchhhhHHHHHHHHHhhhh
Q 002352 577 FFIFI-GFVVWVLEHRVNEDFR---------GPAQHQVGTSFWFSFSTMVFSH--RERVISNLARFVMIVWYFVVLILTQ 644 (932)
Q Consensus 577 ~~i~~-~~v~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~ 644 (932)
+++++ ++.++++|++++-.+. +.+...++.++|..++.++... .++|+++.+|+++.+|.||++|+.+
T Consensus 573 m~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLA 652 (1258)
T KOG1053|consen 573 MCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLA 652 (1258)
T ss_pred HHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHH
Confidence 88766 5567799998764432 3346789999999999888665 5688999999999999999999999
Q ss_pred hhhhhhhhhhhccccCCCCCCHHHHHhC-------CCcEEEEcChhHHHHHHhcCCC--cccccccC--CHHHHHHHhhc
Q 002352 645 SYTASLSSLLTVQQLQPTITDFQMLIKS-------GDNVGYRKDSFVFGILKQLGFD--EKKLIAYS--SPEECDELFQK 713 (932)
Q Consensus 645 ~Yta~L~s~Lt~~~~~~~i~s~~dL~~~-------~~~vg~~~~s~~~~~l~~~~~~--~~~~~~~~--~~~~~~~~l~~ 713 (932)
+|||||++||...++..++..+.|-+-+ +.++|++.++..++++++ +++ ...++.|+ ..+++++.|++
T Consensus 653 sYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~-Nyp~MHeYM~kyNq~~v~dal~sLK~ 731 (1258)
T KOG1053|consen 653 SYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRS-NYPEMHEYMVKYNQPGVEDALESLKN 731 (1258)
T ss_pred HHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHh-ccHHHHHHHHHhccCchHHHHHHHhc
Confidence 9999999999999999999999886632 357898888777887776 243 23455554 67899999999
Q ss_pred ccCCCceeEEEecccccccccccC--CcceEEec--ccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhcc
Q 002352 714 GSAGGGIAAAFDEIPYTKPFIGQY--CSKYTLIE--RTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWFK 789 (932)
Q Consensus 714 g~~~~g~~a~~~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~~ 789 (932)
|+ .|||++|...++|...++ |+ |..++ ..|...+||+++|||||++..||.+|++...+|.|+.+++.|+
T Consensus 732 gK----LDAFIyDaAVLnY~agkDegCK-LvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wl- 805 (1258)
T KOG1053|consen 732 GK----LDAFIYDAAVLNYMAGKDEGCK-LVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWL- 805 (1258)
T ss_pred cc----chhHHHHHHHHHHhhccCCCce-EEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHh-
Confidence 99 999999999999999987 97 66776 8999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002352 790 KRASCPDASNAGSSHSLGLNSFRGLFLIAGTAATSALIIFLAVFVCEH 837 (932)
Q Consensus 790 ~~~~~~~~~~~~~~~~L~l~~~~g~f~il~~g~~ls~~vf~~E~~~~~ 837 (932)
.+.|........+.+|++++|.|+|++|++|+++|+++|++|.++++
T Consensus 806 -tgic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw 852 (1258)
T KOG1053|consen 806 -TGICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYW 852 (1258)
T ss_pred -hcccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888766777888999999999999999999999999999977654
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=2.3e-67 Score=628.75 Aligned_cols=599 Identities=33% Similarity=0.573 Sum_probs=508.9
Q ss_pred HHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC-hhhhhhccceEEEeecCCCChhH
Q 002352 199 KELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE-PSVIDSMQGVIGVRPYVPKTKAF 277 (932)
Q Consensus 199 ~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~-~~~~~~~~g~l~~~~~~~~~~~~ 277 (932)
.++.+++....+++++++.+..+..++.+|.+.||+..+|+|+.++......+... ....+.++|.++.+.+.+.+...
T Consensus 4 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 4 KLLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRSELL 83 (656)
T ss_pred hHHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCccHHH
Confidence 34556667899999999998899999999999999999999999998876666544 34567888999999999999999
Q ss_pred HHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhh
Q 002352 278 ENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALS 357 (932)
Q Consensus 278 ~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~ 357 (932)
++|..+|+.. .. ..+.++.++||+++++|.|++..... ... ...|.....|.++..+.+.++
T Consensus 84 ~~~~~~~~~~-~~--------~~~~~~~~~~D~~~~~a~~~~~~~~~----~~~-----~~~~~~~~~~~~~~~~~~~~~ 145 (656)
T KOG1052|consen 84 QNFVTRWQTS-NV--------ELLVYALWAYDAIQALARAVESLLNI----GNL-----SLSCGRNNSWLDALGVFNFGK 145 (656)
T ss_pred HHHHHHHhhc-cc--------cccchhhHHHHHHHHHHHHHHHhhcC----CCC-----ceecCCCCcccchhHHHHHHH
Confidence 9999999876 22 57889999999999999999998741 111 122333455778888888888
Q ss_pred cceee---eeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCccccccCCCccCCCccceEeCCCCCCCCCCCC
Q 002352 358 STRFK---GLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLTLKLRSNSTTKSKLRPIIWPGDSTSDPKGWE 432 (932)
Q Consensus 358 ~~~f~---G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wpg~~~~~P~~~~ 432 (932)
..... |.+|.++++ ++.+....|+|+|+. ++.+.||.|++..| ..|.||+.....|++|.
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~---------------~~i~~~~~~~~~~~~~~ 210 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG---------------ENISWPGKDYFVPKGWF 210 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC---------------ceeeccCCcccCcCCcc
Confidence 77543 566788886 778889999999999 88888999998754 36899999999999999
Q ss_pred cCCCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHH
Q 002352 433 IPTNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQV 512 (932)
Q Consensus 433 ~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l 512 (932)
.|.+|++++|+++..+||..++... +..+++.++.|+|+||+++++++|||++++++++.+.....++|+|+|++++|
T Consensus 211 ~~~~~~~l~v~~~~~~P~~~~~~~~--~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~v~~l 288 (656)
T KOG1052|consen 211 FPTNGKPLRVGVVTEPPFVDLVEDL--AILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGLVGQL 288 (656)
T ss_pred ccCCCceEEEEEeccCCceeeeecc--cccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHHHHHH
Confidence 9999999999999998875444322 23333779999999999999999999988888887653334568999999999
Q ss_pred HcCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhccc
Q 002352 513 FRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRV 592 (932)
Q Consensus 513 ~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~ 592 (932)
.+|++|++ ++++++++|.+++|||.||+..++++++++++.... .|.|++||++++|++++++++++++++|+++|+.
T Consensus 289 ~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~-~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~ 366 (656)
T KOG1052|consen 289 VDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSK-LWNFLAPFSPEVWLLILASLLLVGLLLWILERLS 366 (656)
T ss_pred hcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCccc-ceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 99999999 899999999999999999999999999999987766 9999999999999999999999999999999999
Q ss_pred CCCCCCc----ccccccchhhhHHHHhhhcC-cccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHH
Q 002352 593 NEDFRGP----AQHQVGTSFWFSFSTMVFSH-RERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQ 667 (932)
Q Consensus 593 ~~~~~~~----~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~ 667 (932)
+.+++.+ ......+++|+++++++.++ .+.|++.++|+++++||++++||+++|||+|+|+||++++.++|++++
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~ 446 (656)
T KOG1052|consen 367 PYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLD 446 (656)
T ss_pred cccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHH
Confidence 9888111 11234457899999999887 467899999999999999999999999999999999999999999999
Q ss_pred HHHh-CCCcEEEEcChhHHHHHHhc----CCCcc-cccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC--Cc
Q 002352 668 MLIK-SGDNVGYRKDSFVFGILKQL----GFDEK-KLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY--CS 739 (932)
Q Consensus 668 dL~~-~~~~vg~~~~s~~~~~l~~~----~~~~~-~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~--~~ 739 (932)
||.+ ++..+|...+++...++++. ..... +...+.+.+++.+++.+|.. + ..+++.+.....+...++ |.
T Consensus 447 dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~-~~~~~~~~~~~~~~~~~~~~c~ 524 (656)
T KOG1052|consen 447 DLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS-G-GYAFASDELYLAYLFLRDEICD 524 (656)
T ss_pred HHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC-C-ceEEEeccHHHHHHHhhcCCCc
Confidence 9995 77799999999999999775 12333 56788999999999999975 3 355555555555555544 76
Q ss_pred ceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhccCC---CCCCCCCCCCCcccccccchhHHHH
Q 002352 740 KYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWFKKR---ASCPDASNAGSSHSLGLNSFRGLFL 816 (932)
Q Consensus 740 ~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~~~~---~~~~~~~~~~~~~~L~l~~~~g~f~ 816 (932)
++++++.+...+++ ++||||||+..++++|+++.|.|.+++|.+||+.+. ..|...+ ....|++++++|+|+
T Consensus 525 -~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l~~~~~~g~F~ 599 (656)
T KOG1052|consen 525 -LTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKALDLESFWGLFL 599 (656)
T ss_pred -eEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccccchhhHHHHHH
Confidence 99999999999999 999999999999999999999999999999999875 4454433 567899999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Q 002352 817 IAGTAATSALIIFLAVFVCEHRNVL 841 (932)
Q Consensus 817 il~~g~~ls~~vf~~E~~~~~~~~~ 841 (932)
++++|+++|+++|++|++|++++.+
T Consensus 600 i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 600 ILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999998876
No 5
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.3e-45 Score=402.49 Aligned_cols=359 Identities=16% Similarity=0.231 Sum_probs=299.7
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
+||+|++.+. ...+.|++.|++.+|....+.. ..... +..|+..+.+++|+++++ ||.||+||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~---~~~~~-~~~dsf~~~~~~C~~~~~-gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLP---QIDIV-NISDSFEMTYTFCSQFSK-GVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCccccc---ceEEe-ccccHHHHHHHHHHHhhc-CceEEEccCChhHHHHH
Confidence 4899998764 3468999999999998752221 12223 335899999999999998 99999999999999999
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCC
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAID 179 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g 179 (932)
+.+|+..+||+|++++ |.. ...+|++++.|+ +.+|+++++++|+|++|++||+++ ||...++.|.+++++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999765 322 334679999997 899999999999999999999655 99999999999999999
Q ss_pred ceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhh
Q 002352 180 TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVID 259 (932)
Q Consensus 180 ~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~ 259 (932)
++|......+ .+++++..+|++++++++|+||++|+++.+..+++++.+.+|+..+|+||+|+......+ ..++..
T Consensus 145 ~~I~~~~~~~--~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~--~~~~~~ 220 (364)
T cd06390 145 WQVTAVNILT--TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDID--LTKFRE 220 (364)
T ss_pred ceeeEEEeec--CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCccccc--HHHHhc
Confidence 9998876654 346689999999999999999999999999999999988888999999999983332222 134566
Q ss_pred hccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCc
Q 002352 260 SMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATD 339 (932)
Q Consensus 260 ~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~ 339 (932)
.++|++|++.+.++++.+++|..+|++.+...+|.....+++.+++++|||||++|+|++++..........+. ..+
T Consensus 221 ~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~~---~~~ 297 (364)
T cd06390 221 SGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRGN---AGD 297 (364)
T ss_pred CCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCC---CCC
Confidence 89999999999999999999999999887776666555578899999999999999999998544322221111 123
Q ss_pred ccc--ccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCc
Q 002352 340 LEA--FGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGL 401 (932)
Q Consensus 340 ~~~--~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~ 401 (932)
|.. ..+|..|..|+++|++++|+|+||+++|+ +|+|....|+|+|+. +|+++||+|+++.|+
T Consensus 298 C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 298 CLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred CCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 332 34699999999999999999999999996 899999999999999 999999999998876
No 6
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=1.9e-44 Score=395.56 Aligned_cols=362 Identities=18% Similarity=0.261 Sum_probs=284.3
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEE-ecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNT-RNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~-~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
.||+|++.+. ...+.|+++|++++|.+..++ +.+|.+++ +++.+|++.+..++|+|+++ +|.|||||.++.++.
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~-gV~AI~Gp~s~~~a~ 76 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQ-GILALVTSTGCASAN 76 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhc-CeEEEECCCchhHHH
Confidence 3899998765 235899999999999887565 78999999 99999999999999999976 999999999999999
Q ss_pred HHHHhcCCCCccEEeccc-----------CCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCC
Q 002352 98 FIIQLGNKSQVPILSFSA-----------TSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEE 166 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a-----------~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~ 166 (932)
.++.+|+..+||+|++++ +.|.++..+||++.| |+ ..+.+|+++++++|+|++|++|| |++||..
T Consensus 77 ~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lr--p~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~ 152 (400)
T cd06392 77 ALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAAR--PP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIR 152 (400)
T ss_pred HHHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEec--Cc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHH
Confidence 999999999999999866 234444445555555 44 46788999999999999999999 8999999
Q ss_pred hHHHHHHHHHhCCceeeeeeecCCCCC-------hhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceE
Q 002352 167 MIPSLTDALQAIDTRVPYRSVISPLAT-------DDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCV 239 (932)
Q Consensus 167 ~~~~l~~~l~~~g~~v~~~~~~~~~~~-------~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~ 239 (932)
.++.|.+++.+.+.+|..... ....+ .+...+.|.+++.+. ++||++|+++.+..+|++|.+.||+..+|+
T Consensus 153 ~lq~L~~~~~~~~~~I~~~~v-~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~ 230 (400)
T cd06392 153 GLQSFLDQASRLGLDVSLQKV-DRNISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSH 230 (400)
T ss_pred HHHHHHHHHhhcCceEEEEEc-ccCcchhhhhHHHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeE
Confidence 999999999999999886652 11100 122334444444445 999999999999999999999999999999
Q ss_pred EEEecccchhcccCChhhhhhccceE----EEeecCCCChhHHHHH----HHHHHhhhccCCCCCccccchhhHHHHHHH
Q 002352 240 WIMTEGMTNLLRTLEPSVIDSMQGVI----GVRPYVPKTKAFENFR----VRWKRKFLQENPSLFDVELNILGLFAYDAT 311 (932)
Q Consensus 240 wi~t~~~~~~~~~~~~~~~~~~~g~l----~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 311 (932)
||+|+......+ ..+.++|.+ +++.+.+.+....+|. .+|++.......+. ...++.+++++||||
T Consensus 231 wI~t~~~~~~~d-----l~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~-~~~l~~~aalayDaV 304 (400)
T cd06392 231 WVFVNEEISDTE-----ILELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGY-LQMLQVSNLYLYDSV 304 (400)
T ss_pred EEEecCCccccc-----HHHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhccccccc-ccccchhHHHHHHHH
Confidence 999998776433 334455555 4999888776555554 66764443211111 114788999999999
Q ss_pred HHHHHHHHHhccccccccccccCCCCCcc--ccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee--
Q 002352 312 RALAVAVEKAGITSFGFDKTNVSSNATDL--EAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-- 386 (932)
Q Consensus 312 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-- 386 (932)
|++|+|++.+....... .....+| +...+|..|..|+++|++++|+|+||+++|+ +|+|.++.|+|+|++
T Consensus 305 ~~~A~Al~~ll~~~~~~-----~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~~~ 379 (400)
T cd06392 305 LMLANAFHRKLEDRKWH-----SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTSYS 379 (400)
T ss_pred HHHHHHHHHHhhccccC-----CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEecccc
Confidence 99999999853211111 1122355 4567899999999999999999999999996 999999999999964
Q ss_pred ----cCeEEEEEEcCCCCcc
Q 002352 387 ----NGARGVGFWTPEKGLT 402 (932)
Q Consensus 387 ----~g~~~vG~w~~~~g~~ 402 (932)
+|.++||+|++..|+.
T Consensus 380 ~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 380 ETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred ccCCCCceEeEEecCCCCCC
Confidence 4499999999998874
No 7
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.1e-44 Score=393.22 Aligned_cols=364 Identities=16% Similarity=0.217 Sum_probs=302.5
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCC--cEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYK--TRLLLNTRN-SKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g--~~l~~~~~D-~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
.||+|++.+. ...+.|++.|++.+|....++. .++...+.. ...|+..+.+++|+++++ ||.||+||.++..+
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~-GV~AIfGp~~~~s~ 76 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSR-GVYAIFGFYDQMSM 76 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhc-ccEEEEecCCHhHH
Confidence 3899998654 3468999999999998865543 467664432 256999999999999998 99999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
..+..+|+..+||+|.+... .....+|.+++.|+ ..+|+++++++|+|++|++|| |+++|...++.|.++++
T Consensus 77 ~~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~ 148 (372)
T cd06387 77 NTLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAV 148 (372)
T ss_pred HHHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhc
Confidence 99999999999999987442 12445788999998 799999999999999999999 77889889999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPS 256 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~ 256 (932)
..+..|..+...+.. ...++...+++|++++.++||++|+++.+..++++|.+.||+.++|+||+|+......+..+
T Consensus 149 ~~~~~V~~~~v~~~~-~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl~~-- 225 (372)
T cd06387 149 QNNWQVTARSVGNIK-DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISLER-- 225 (372)
T ss_pred cCCceEEEEEeccCC-chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccHHH--
Confidence 999999877654433 45578999999999999999999999999999999999999999999999985443332211
Q ss_pred hhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCC
Q 002352 257 VIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSN 336 (932)
Q Consensus 257 ~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~ 336 (932)
......+++|++.+.++++.+++|.++|++++...+|+....+++.+++++||||+++|+|++++......+.+.+.
T Consensus 226 ~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~~--- 302 (372)
T cd06387 226 VMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRGS--- 302 (372)
T ss_pred hccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCCC---
Confidence 22223349999999999999999999999887777776555567899999999999999999998654433332221
Q ss_pred CCccc--cccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCc
Q 002352 337 ATDLE--AFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGL 401 (932)
Q Consensus 337 ~~~~~--~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~ 401 (932)
..+|. ...+|..|..|+++|++++|+|+||+++|+ +|+|.+..|+|+|+. +|+++||+|++..|+
T Consensus 303 ~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 303 AGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred CCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 12342 245799999999999999999999999996 799999999999999 999999999999886
No 8
>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=3.2e-44 Score=402.40 Aligned_cols=368 Identities=20% Similarity=0.280 Sum_probs=304.3
Q ss_pred cEEEEEEEe-CCC---ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEccC
Q 002352 18 PVNVGLVLD-MNG---EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKG-DVVAAAAAALDLLNNVLVQAILGPE 91 (932)
Q Consensus 18 ~i~IG~i~~-~s~---~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~-~~~~a~~~a~~li~~~~v~aiiGp~ 91 (932)
.|+||+++| ++| ..|...+.|+++|+++||++++++ +.++.+.+.+.++ ++..++..+|+++. ++|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~-~~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLA-LGVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccc-cCcEEEECCC
Confidence 489999999 776 457788999999999999999886 7888888888555 67678888898876 4999999999
Q ss_pred ChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHH
Q 002352 92 KSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSL 171 (932)
Q Consensus 92 ~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 171 (932)
+|..+.+++++++.++||+|+++++++.+++. .+|++|+.|++..+..++++++++|+|++|++||+++. |...++.+
T Consensus 81 ~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~ 158 (384)
T cd06393 81 QGSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQEL 158 (384)
T ss_pred ChHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHH
Confidence 99999999999999999999999998888754 46788998999999999999999999999999997654 55555678
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcc
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLR 251 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~ 251 (932)
.+.+++.|++|+.. .++ .++.|+..+|++|++.++++||+++..+++..+++||+++||+.+.|+|++++......+
T Consensus 159 ~~~~~~~g~~v~~~-~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~~ 235 (384)
T cd06393 159 IMAPSRYNIRLKIR-QLP--TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYALD 235 (384)
T ss_pred HHhhhccCceEEEE-ECC--CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCcccccc
Confidence 88888899998863 343 346789999999999999999999999999999999999999999999998876543333
Q ss_pred cCChhhhhhccceEEEeecCCCChhHHHHHHHHHHh-hhcc-CCCCCc--cccchhhHHHHHHHHHHHHHHHHhcccccc
Q 002352 252 TLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRK-FLQE-NPSLFD--VELNILGLFAYDATRALAVAVEKAGITSFG 327 (932)
Q Consensus 252 ~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~-~~~~-~~~~~~--~~~~~~a~~~YDav~~la~Al~~~~~~~~~ 327 (932)
. ..+.....++++++...++++.+++|+++|+++ ++.. .++... ..++.+++++||||+++|+|+++++...
T Consensus 236 ~--~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~~-- 311 (384)
T cd06393 236 L--EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQMT-- 311 (384)
T ss_pred c--hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhcC--
Confidence 2 111112233688888888899999999999854 5541 111110 1236789999999999999999875321
Q ss_pred ccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee--CCccccccEEEEEee-cCeEEEEEEcCCCCcc
Q 002352 328 FDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV--DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT 402 (932)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~--~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~ 402 (932)
....+|+...+|..|..|+++|++++|+|+||+++|+ +|+|.+..|+|+|+. +|+++||+|+++.|+.
T Consensus 312 -------~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~g~~ 382 (384)
T cd06393 312 -------VNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNTGLN 382 (384)
T ss_pred -------CCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCCCcC
Confidence 1224566677899999999999999999999999996 578999999999999 9999999999998875
No 9
>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=2.1e-43 Score=395.20 Aligned_cols=334 Identities=19% Similarity=0.239 Sum_probs=286.5
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc------------------CCeEEEEccCCh
Q 002352 32 GKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNN------------------VLVQAILGPEKS 93 (932)
Q Consensus 32 g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~------------------~~v~aiiGp~~s 93 (932)
|.+...|+.+|+|+||+++++.|++|+++++|+|+++..|+.++.+|+++ ++|.|||||.+|
T Consensus 34 g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S 113 (403)
T cd06361 34 GFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYS 113 (403)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCcc
Confidence 66788999999999999997779999999999999999999999999975 589999999999
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLT 172 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 172 (932)
..+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..|++++++++++|+|++|++|+++++||++..+.|+
T Consensus 114 ~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~ 193 (403)
T cd06361 114 EISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETFI 193 (403)
T ss_pred hHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHH
Confidence 99999999999999999999999999986 57899999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCceeeeeeecCCCCCh-----hHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc
Q 002352 173 DALQAIDTRVPYRSVISPLATD-----DQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~-----~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~ 247 (932)
+++++.|+||+..+.++...++ .++..+++.+++.++||||+.+...++..++++|+++|+ +++||.+++|.
T Consensus 194 ~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~ 270 (403)
T cd06361 194 IQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNWS 270 (403)
T ss_pred HHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECccc
Confidence 9999999999998888654322 456666667889999999999999999999999999998 68999999998
Q ss_pred hhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccc
Q 002352 248 NLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFG 327 (932)
Q Consensus 248 ~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~ 327 (932)
.............+.|.+++.+..+. .++|.+.+++.+ ...+||||+++|+||++++...
T Consensus 271 ~~~~~~~~~~~~~~~g~ig~~~~~~~---~~~F~~~~~~~~---------------~~~v~~AVyaiA~Al~~~~~~~-- 330 (403)
T cd06361 271 TAKKILTDPNVKKIGKVVGFTFKSGN---ISSFHQFLKNLL---------------IHSIQLAVFALAHAIRDLCQER-- 330 (403)
T ss_pred CccccccCCcccccceEEEEEecCCc---cchHHHHHHHhh---------------HHHHHHHHHHHHHHHHHhccCC--
Confidence 64443333334567899999986644 455555555543 3457999999999999975431
Q ss_pred ccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee--cC---eEEEEEEcCCCCc
Q 002352 328 FDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN--NG---ARGVGFWTPEKGL 401 (932)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~--~g---~~~vG~w~~~~g~ 401 (932)
.|... ...++++|+++|++++|+|++|++.|+ +|+. ...|+|+||+ +| +.+||.|++.+..
T Consensus 331 -----------~c~~~-~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~~ 397 (403)
T cd06361 331 -----------QCQNP-NAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQNDV 397 (403)
T ss_pred -----------CCCCC-CCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCCE
Confidence 12211 134789999999999999999999997 8985 6789999999 44 8999999998754
No 10
>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=2e-43 Score=406.15 Aligned_cols=376 Identities=19% Similarity=0.268 Sum_probs=310.4
Q ss_pred CCccEEEEEEEeCCC-----------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHH
Q 002352 15 TTIPVNVGLVLDMNG-----------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAAL 76 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~-----------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~ 76 (932)
.++.|.||++||... ..|.....|+.+|+|+||+++.++ |++|+++++|+|+++..|++.+.
T Consensus 6 ~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~ 85 (472)
T cd06374 6 MDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSI 85 (472)
T ss_pred ecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHH
Confidence 467899999999873 236678899999999999999987 69999999999999999999999
Q ss_pred HHHhc-------------------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEe
Q 002352 77 DLLNN-------------------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFR 130 (932)
Q Consensus 77 ~li~~-------------------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r 130 (932)
+++.+ .+|.|||||.+|..+.+++.+++.+++|+|+++++++.+++ ..+|||||
T Consensus 86 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fR 165 (472)
T cd06374 86 EFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLR 165 (472)
T ss_pred HHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEE
Confidence 99962 48999999999999999999999999999999999999987 47999999
Q ss_pred cccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--
Q 002352 131 GSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-- 208 (932)
Q Consensus 131 ~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-- 208 (932)
+.|++..++.++++++++|+|++|++||++++||....+.|.+.+++.|++|+....++...+..++..++.+|++.+
T Consensus 166 t~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~d 245 (472)
T cd06374 166 VVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLPK 245 (472)
T ss_pred cCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCCC
Confidence 999999999999999999999999999999999999999999999999999998887765556789999999999764
Q ss_pred ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHH--------
Q 002352 209 TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENF-------- 280 (932)
Q Consensus 209 ~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f-------- 280 (932)
++||++.+....+..++++|++.|+. ..++||.+++|.......+ ...+..+|++++.+..+..+.+++|
T Consensus 246 a~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~~~~F~~~l~~l~~~~ 323 (472)
T cd06374 246 ARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPEVPSFDDYYLKLRPET 323 (472)
T ss_pred cEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhhh-cchhhhheeEEEEecCCCCccHHHHHHhCCccc
Confidence 55666667777899999999999986 4589999999875322222 2456789999999888877777764
Q ss_pred -------HHHHHHhhhccCCCCCc------------------cccchhhHHHHHHHHHHHHHHHHhccccccccccccCC
Q 002352 281 -------RVRWKRKFLQENPSLFD------------------VELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSS 335 (932)
Q Consensus 281 -------~~~~~~~~~~~~~~~~~------------------~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 335 (932)
.+.|+..|.|..+.... .....++.++|||||++|+||+++....+. .. .
T Consensus 324 ~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~--~~--~- 398 (472)
T cd06374 324 NTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCP--GH--V- 398 (472)
T ss_pred CCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCC--CC--C-
Confidence 55788888886421110 011245668999999999999998644321 00 0
Q ss_pred CCCccccccccCChHHHHHHhhcceeeeeee-eEEee-CCccccccEEEEEee-c-----CeEEEEEEcCCCCcc
Q 002352 336 NATDLEAFGISRNGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAFEIINVN-N-----GARGVGFWTPEKGLT 402 (932)
Q Consensus 336 ~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~~I~n~~-~-----g~~~vG~w~~~~g~~ 402 (932)
..|... .+.+|..|+++|++++|+|++| ++.|+ +|++. ..|+|+|++ . ++++||.|++ +++.
T Consensus 399 --~~c~~~-~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~-~~l~ 468 (472)
T cd06374 399 --GLCDAM-KPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE-GDLG 468 (472)
T ss_pred --CCCcCC-CCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC-Cccc
Confidence 123322 2468999999999999999999 79997 99975 589999999 2 2899999985 3453
No 11
>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=2e-43 Score=406.05 Aligned_cols=374 Identities=22% Similarity=0.294 Sum_probs=311.1
Q ss_pred ccEEEEEEEeCCC-------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhc-
Q 002352 17 IPVNVGLVLDMNG-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNN- 81 (932)
Q Consensus 17 ~~i~IG~i~~~s~-------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~- 81 (932)
+.+.||++||... ..|.....|+++|+++||++++++ |++|+++++|+++++..|+..+.+++.+
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 3588999999984 246677999999999999999987 9999999999999999999999999864
Q ss_pred ---------------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHH
Q 002352 82 ---------------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQV 139 (932)
Q Consensus 82 ---------------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~ 139 (932)
++|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..+|||||+.|++..++
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 58999999999999999999999999999999999999986 57899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEeCh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHMLP 218 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~ 218 (932)
.++++++++++|++|++|+.+++||.+..+.|.+.+++.|++|+....++...+..|+..++++|++ .++|+||+.+..
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 9999999999999999999999999999999999999999999988888655567899999999987 579999999999
Q ss_pred hhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHH---------------HHHH
Q 002352 219 SLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFEN---------------FRVR 283 (932)
Q Consensus 219 ~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~---------------f~~~ 283 (932)
.++..++++|++.|++ ..++||.+++|....... ....+..+|++++.+.....+.+++ |.+.
T Consensus 241 ~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~~~~ 318 (452)
T cd06362 241 DDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWFREF 318 (452)
T ss_pred HHHHHHHHHHHHcCCc-CceEEEEeccccccchhh-cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHHHHH
Confidence 9999999999999997 468999999987532221 2234568899988877665555444 3455
Q ss_pred HHHhhhccCCCCCc----------------cccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccC
Q 002352 284 WKRKFLQENPSLFD----------------VELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISR 347 (932)
Q Consensus 284 ~~~~~~~~~~~~~~----------------~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (932)
|+..|.|..+.... ...+.+++++||||+++|+||+++....+... ...|... .+.
T Consensus 319 w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------~~~c~~~-~~~ 390 (452)
T cd06362 319 WEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------TGLCDAM-KPI 390 (452)
T ss_pred HHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------CCCCcCc-cCC
Confidence 77777765322110 12345889999999999999999864432111 0123322 367
Q ss_pred ChHHHHHHhhcceeeeeee-eEEee-CCccccccEEEEEee-c----CeEEEEEEcCCCCc
Q 002352 348 NGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAFEIINVN-N----GARGVGFWTPEKGL 401 (932)
Q Consensus 348 ~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~~I~n~~-~----g~~~vG~w~~~~g~ 401 (932)
+|.+|++.|++++|+|++| .+.|+ +|++. ..|+|+|++ + ++++||+|++..|+
T Consensus 391 ~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 391 DGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 8999999999999999998 89997 99975 599999998 3 38999999987664
No 12
>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=7.2e-43 Score=401.65 Aligned_cols=377 Identities=18% Similarity=0.238 Sum_probs=311.9
Q ss_pred CCccEEEEEEEeCCC----------------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHH
Q 002352 15 TTIPVNVGLVLDMNG----------------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAA 71 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~----------------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a 71 (932)
.++.|.||++||... ..|.....|+.+|+++||++++++ +++|+++++|+|+++..|
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 467899999999972 346778999999999999999988 579999999999999999
Q ss_pred HHHHHHHHhcCC------------------eEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecc
Q 002352 72 AAAALDLLNNVL------------------VQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGS 132 (932)
Q Consensus 72 ~~~a~~li~~~~------------------v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ 132 (932)
+.++.+++.+++ |.|||||.+|.++.+++++++.++||+|+++++++.+++ ..||||||+.
T Consensus 89 ~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~ 168 (510)
T cd06364 89 LEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTI 168 (510)
T ss_pred HHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcC
Confidence 999999987644 469999999999999999999999999999999999987 5789999999
Q ss_pred cCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEE
Q 002352 133 LNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVF 212 (932)
Q Consensus 133 ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 212 (932)
|++..+++++++++++|+|++|++|+.|++||+...+.|.+.+++.|+||+..+.++...+..++.+++.+|+++++|||
T Consensus 169 psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~vV 248 (510)
T cd06364 169 PNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKVI 248 (510)
T ss_pred CChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeEE
Confidence 99999999999999999999999999999999999999999999999999988877654567899999999999999999
Q ss_pred EEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHH-----------
Q 002352 213 ILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFR----------- 281 (932)
Q Consensus 213 il~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~----------- 281 (932)
|+.+...++..++++|+++|+. +++||++++|............+.+.|++|+.+.....+.+++|.
T Consensus 249 vl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~~~~~ 326 (510)
T cd06364 249 VVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKKSSHN 326 (510)
T ss_pred EEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhcccccccCCccceeeEEEEEEECCCcCccHHHHHHhCCcccCCCC
Confidence 9999999999999999999985 579999999975444333445678899999988877666665554
Q ss_pred ----HHHHHhhhccCCC-------------------------------CCc-------------cccchhhHHHHHHHHH
Q 002352 282 ----VRWKRKFLQENPS-------------------------------LFD-------------VELNILGLFAYDATRA 313 (932)
Q Consensus 282 ----~~~~~~~~~~~~~-------------------------------~~~-------------~~~~~~a~~~YDav~~ 313 (932)
+.|+..|+|..+. ... .....+++.+||||++
T Consensus 327 ~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~AVyA 406 (510)
T cd06364 327 GFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYLAVYS 406 (510)
T ss_pred hHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHHHHHH
Confidence 4578888876321 000 0023456789999999
Q ss_pred HHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeee-eEEee-CCccccccEEEEEee--c--
Q 002352 314 LAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAFEIINVN--N-- 387 (932)
Q Consensus 314 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~~I~n~~--~-- 387 (932)
+|+|||++...+...... .+ ..|... ...++++|++.|++++|.|.+| .+.|| +|+. ...|+|+||+ .
T Consensus 407 vAhaLh~~~~c~~~~~~~-~~---~~c~~~-~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~YdI~n~q~~~~~ 480 (510)
T cd06364 407 IAHALQDIYTCTPGKGLF-TN---GSCADI-KKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNYSIINWHLSPED 480 (510)
T ss_pred HHHHHHHHhcCCCCCCCc-cC---CCCCCC-CCCCHHHHHHHHHhcEEecCCCCEEEEecCCCC-ccceeEEEeeecCCC
Confidence 999999997542111100 00 123321 1346899999999999999987 68997 9995 5789999999 2
Q ss_pred C---eEEEEEEcCCC
Q 002352 388 G---ARGVGFWTPEK 399 (932)
Q Consensus 388 g---~~~vG~w~~~~ 399 (932)
| +++||.|++..
T Consensus 481 ~~~~~v~VG~~~~~~ 495 (510)
T cd06364 481 GSVVFKEVGYYNVYA 495 (510)
T ss_pred CcEEEEEEEEEcCCC
Confidence 2 78999998753
No 13
>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=4.2e-43 Score=389.83 Aligned_cols=367 Identities=18% Similarity=0.253 Sum_probs=292.5
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC-Cc--EEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY-KT--RLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~-g~--~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+|++.++..+ +.|+++|++++|++..++ ++ ++.++..|++ |+..|..++|+|+++ +|.||+||.++..+
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~-gv~ai~Gp~~~~~~ 75 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQ-GILALVSSIGCTSA 75 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhC-CeEEEECCCcchHH
Confidence 4899999988555 569999999999887665 66 4555889995 999999999999966 99999999888889
Q ss_pred HHHHHhcCCCCccEEec----ccCC-----CCccC--CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCC
Q 002352 97 NFIIQLGNKSQVPILSF----SATS-----PSLTS--IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGE 165 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~----~a~~-----~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~ 165 (932)
..++.+|+.++||+|++ ++++ +.+++ .+||+++| |+ ..+.+|+++++++|+|++++++ .++++|.
T Consensus 76 ~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~ 151 (400)
T cd06391 76 GSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDI 151 (400)
T ss_pred HHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccH
Confidence 99999999999999985 4433 33432 45777777 54 6889999999999999998875 4677888
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCCh---hHHHH-HHHHHhc--CCceEEEEEeChhhHHHHHHHHHhCCccccceE
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATD---DQIEK-ELYKLFT--MQTRVFILHMLPSLGSRIFEKANEIGLMNKGCV 239 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~---~~~~~-~l~~l~~--~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~ 239 (932)
..++.+.+.+++.|+||..... .....+ ..+.. .+++|++ .+.++||++|.++.+..+|++|+++||++++|+
T Consensus 152 ~~l~~l~~~~~~~~i~I~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~ 230 (400)
T cd06391 152 RGIQEFLDKVSQQGMDVALQKV-ENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCH 230 (400)
T ss_pred HHHHHHHHHHHHcCCeEEEEec-CcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeE
Confidence 8899999999999999987442 111111 12222 3445554 667999999999999999999999999999999
Q ss_pred EEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccC--CCCCc-cccchhhHHHHHHHHHHHH
Q 002352 240 WIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQEN--PSLFD-VELNILGLFAYDATRALAV 316 (932)
Q Consensus 240 wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~~-~~~~~~a~~~YDav~~la~ 316 (932)
||+|++..+.++..+ .....+.|+.+++++.+.++...+|..+|++++.... |..+. ..++.+++++|||||++|+
T Consensus 231 wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~A~ 309 (400)
T cd06391 231 WIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLLAN 309 (400)
T ss_pred EEEeCccccccccch-HHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHHHH
Confidence 999999998877643 3445677899999999988889999999998874322 32221 1367899999999999999
Q ss_pred HHHHhccccccccccccCCCCCccc--cccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEe-----e-c
Q 002352 317 AVEKAGITSFGFDKTNVSSNATDLE--AFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINV-----N-N 387 (932)
Q Consensus 317 Al~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~-----~-~ 387 (932)
|++++......... ...+|. ...+|..|..|+++|++++|+|+||+++|+ +|+|.++.|+|+|+ . +
T Consensus 310 A~~~l~~~~~~~~~-----~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~~~~~ 384 (400)
T cd06391 310 AFHKKLEDRKWHSM-----ASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNYGEDLGR 384 (400)
T ss_pred HHHHHHhhccccCC-----CCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeeccccCCC
Confidence 99987532111111 112332 345899999999999999999999999996 79999999999999 3 6
Q ss_pred CeEEEEEEcCCCCcc
Q 002352 388 GARGVGFWTPEKGLT 402 (932)
Q Consensus 388 g~~~vG~w~~~~g~~ 402 (932)
|.++||+|++..|+.
T Consensus 385 g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 385 GVRKLGCWNPITGLN 399 (400)
T ss_pred cceEEEEEcCCcCCC
Confidence 899999999998873
No 14
>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=6.5e-43 Score=401.25 Aligned_cols=370 Identities=19% Similarity=0.292 Sum_probs=301.6
Q ss_pred ccEEEEEEEeCC--Cc-----------cchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHH----HH
Q 002352 17 IPVNVGLVLDMN--GE-----------DGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAAL----DL 78 (932)
Q Consensus 17 ~~i~IG~i~~~s--~~-----------~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~----~l 78 (932)
++|+||+++|.+ +. .|.....|+.+|+++||++++++ |++|+++++|+++++..+...+. ++
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 368999999988 31 56667899999999999999998 79999999999998765554444 44
Q ss_pred Hhc------------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHH
Q 002352 79 LNN------------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQV 139 (932)
Q Consensus 79 i~~------------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~ 139 (932)
+.+ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..+|||||+.|++..++
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 432 48999999999999999999999999999999999999986 56899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC-CceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEeC
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI-DTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHML 217 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 217 (932)
+++++++++|+|++|++||.+++||....+.|.+.+++. |++|.....++...++.|+..++++|++ .++|+||+.+.
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 4688766666666677899999999986 79999999999
Q ss_pred hhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHH---------------H
Q 002352 218 PSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFR---------------V 282 (932)
Q Consensus 218 ~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~---------------~ 282 (932)
..++..++++|+++|+++ .|+||.+++|........ ...+.+.|.+++.+.....+.+++|. +
T Consensus 241 ~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~~~~ 318 (463)
T cd06376 241 EDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVWFAE 318 (463)
T ss_pred hHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcHHHH
Confidence 999999999999999875 599999999875433221 12346899999988777766666644 4
Q ss_pred HHHHhhhccCCC--CC---------c---------cccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCcccc
Q 002352 283 RWKRKFLQENPS--LF---------D---------VELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEA 342 (932)
Q Consensus 283 ~~~~~~~~~~~~--~~---------~---------~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~ 342 (932)
.|+..|+|..+. .. . ......++++||||+++|+|||++...++. .. . ..|..
T Consensus 319 ~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~--~~--~---~~C~~ 391 (463)
T cd06376 319 FWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCP--GY--T---GVCPE 391 (463)
T ss_pred HHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCC--CC--C---CCCcc
Confidence 788888886431 10 0 011236889999999999999998654321 00 1 12333
Q ss_pred ccccCChHHHHHHhhcceeeeeee-eEEee-CCccccccEEEEEee-c-----CeEEEEEEcC
Q 002352 343 FGISRNGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAFEIINVN-N-----GARGVGFWTP 397 (932)
Q Consensus 343 ~~~~~~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~~I~n~~-~-----g~~~vG~w~~ 397 (932)
. .+.+|.+|+++|++++|+|++| .+.|| +|++. ..|+|+|++ . ++++||.|++
T Consensus 392 ~-~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 392 M-EPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred C-CCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 2 3678999999999999999999 79997 99964 589999998 2 2899999986
No 15
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=4.6e-43 Score=401.01 Aligned_cols=369 Identities=15% Similarity=0.172 Sum_probs=302.8
Q ss_pred cEEEEEEEeCCC----------------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHH
Q 002352 18 PVNVGLVLDMNG----------------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAA 74 (932)
Q Consensus 18 ~i~IG~i~~~s~----------------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~ 74 (932)
.|.||+++|... ..|.+...|+.+|+++||++..++ |++|+++++|+|+++..|+.+
T Consensus 2 di~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~ 81 (469)
T cd06365 2 DLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALES 81 (469)
T ss_pred CeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHH
Confidence 477888888751 236678889999999999998776 899999999999999999999
Q ss_pred HHHHHhc-------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHH
Q 002352 75 ALDLLNN-------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVG 140 (932)
Q Consensus 75 a~~li~~-------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ 140 (932)
+.+++.. +++.|||||.+|..+.+++.+++.++||+|+++++++.+++ ..||||||+.|++..|+.
T Consensus 82 ~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ 161 (469)
T cd06365 82 SLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPL 161 (469)
T ss_pred HHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHH
Confidence 9999964 57999999999999999999999999999999999999986 568999999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCCh--hHHHHHHHHHhcCCceEEEEEeCh
Q 002352 141 AITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATD--DQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 141 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~--~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
|+++++++|+|++|++|+.|++||....+.|.+++++.|+||+..+.++....+ .++...+++|+++++|+||+++..
T Consensus 162 ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~ 241 (469)
T cd06365 162 GMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDT 241 (469)
T ss_pred HHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCc
Confidence 999999999999999999999999999999999999999999998888765543 478999999999999999999998
Q ss_pred hhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHH---------------H
Q 002352 219 SLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRV---------------R 283 (932)
Q Consensus 219 ~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~---------------~ 283 (932)
+.+..++.++.+.+. .+++||++++|....... ....+.++|++++.++.+..+.+++|.+ .
T Consensus 242 ~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~-~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~~ef 318 (469)
T cd06365 242 DSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK-DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFLEKL 318 (469)
T ss_pred HHHHHHHHHHHHhcc--CceEEEeecccccccccc-ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHHHhh
Confidence 888666555555433 568999999987543222 2345679999999999988888887654 5
Q ss_pred HHHhhhccCCCCC-----------cc--------c--cchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCcccc
Q 002352 284 WKRKFLQENPSLF-----------DV--------E--LNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEA 342 (932)
Q Consensus 284 ~~~~~~~~~~~~~-----------~~--------~--~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~ 342 (932)
|+..|+|..+... .. + ...++...||||+++|+|||++...+... |...+|..
T Consensus 319 we~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~------~~~~~~~~ 392 (469)
T cd06365 319 WWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET------QSENNGKR 392 (469)
T ss_pred HhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC------CCcCCCCC
Confidence 8888877632110 00 0 23467889999999999999998653211 11112211
Q ss_pred ccccCChHHHHHHhhcceeeeeee-eEEee-CCccccccEEEEEee-c-C----eEEEEEEcCC
Q 002352 343 FGISRNGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAFEIINVN-N-G----ARGVGFWTPE 398 (932)
Q Consensus 343 ~~~~~~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~~I~n~~-~-g----~~~vG~w~~~ 398 (932)
....+.+|++.|++++|.|.+| ++.|| +|+. ...|+|+||+ + + +++||.|++.
T Consensus 393 --~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 393 --LIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred --CCccHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 2356889999999999999998 59997 9996 5789999998 2 2 7999999864
No 16
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2e-42 Score=394.08 Aligned_cols=368 Identities=18% Similarity=0.265 Sum_probs=308.4
Q ss_pred ccEEEEEEEeCCC-------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHh--
Q 002352 17 IPVNVGLVLDMNG-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLN-- 80 (932)
Q Consensus 17 ~~i~IG~i~~~s~-------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~-- 80 (932)
+.|.||++||... ..|.....|+.+|+|+||++++++ |++|+++++|+|+++..|++++.+++.
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 3588999999873 247789999999999999999886 999999999999999999999999883
Q ss_pred ----------------------cCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchh
Q 002352 81 ----------------------NVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSS 137 (932)
Q Consensus 81 ----------------------~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~ 137 (932)
.++|.|||||.+|..+.+++++++.++||+|+++++++.|++ ..+|||||+.|++..
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 247999999999999999999999999999999999999987 568999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEe
Q 002352 138 QVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHM 216 (932)
Q Consensus 138 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 216 (932)
|++++++++++|+|++|++||++++||....+.|.+.+++.|+||+..+.++...++.++..++++|++ .++||||+.+
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 999999999999999999999999999999999999999999999998888766667899999999875 6999999999
Q ss_pred ChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHH---------------
Q 002352 217 LPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFR--------------- 281 (932)
Q Consensus 217 ~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~--------------- 281 (932)
...++..++++|+++|++ +.||++++|........ ...+..+|++++.+.....+.+++|.
T Consensus 241 ~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~~-~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~w~~ 316 (458)
T cd06375 241 RSEDARELLAAAKRLNAS---FTWVASDGWGAQESIVK-GSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNPWFK 316 (458)
T ss_pred ChHHHHHHHHHHHHcCCc---EEEEEeccccccchhhh-ccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCcHHH
Confidence 999999999999999985 78999999974322111 13356899999999888888777765
Q ss_pred HHHHHhhhccCCCCCc----------------cccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccc
Q 002352 282 VRWKRKFLQENPSLFD----------------VELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGI 345 (932)
Q Consensus 282 ~~~~~~~~~~~~~~~~----------------~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (932)
+.|+..|+|..+.... ........++||||+++|+|||++....+.-.. ..|... .
T Consensus 317 e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~-------~~c~~~-~ 388 (458)
T cd06375 317 DFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTT-------KLCDAM-K 388 (458)
T ss_pred HHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCC-------CCCCCC-C
Confidence 4688888886532110 012447888999999999999999754332110 123332 2
Q ss_pred cCChHHHH-HHhhcceee-----eeee-eEEee-CCccccccEEEEEee---cC----eEEEEEEcC
Q 002352 346 SRNGPKLL-QALSSTRFK-----GLTG-DYVFV-DGQLQSSAFEIINVN---NG----ARGVGFWTP 397 (932)
Q Consensus 346 ~~~g~~l~-~~L~~~~f~-----G~tG-~~~f~-~g~~~~~~~~I~n~~---~g----~~~vG~w~~ 397 (932)
..++.+|+ +.|++++|. |.+| .+.|| +|+. ...|+|+||+ ++ ++.||.|+.
T Consensus 389 ~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 389 PLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 34788999 599999999 9988 68997 9994 5789999999 33 689999964
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=1.8e-42 Score=389.41 Aligned_cols=370 Identities=20% Similarity=0.282 Sum_probs=297.5
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCC-CCcEEEEEEecCC-CCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRNSK-GDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~-~g~~l~~~~~D~~-~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
.||+|++.++ ...+.|+++|++++|++..+ .+.++.+++.++. +|+..++.++|+|+++ +|.|||||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~-~V~aiiGp~~s~~~~ 76 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSR-GVFAIFGSYDKSSVN 76 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhc-CcEEEEecCcHHHHH
Confidence 4899999984 66799999999999987544 3677777776665 7999999999999976 999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA 177 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 177 (932)
+++.+++.++||+|+++++++.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++
T Consensus 77 ~~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~ 151 (382)
T cd06380 77 TLTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLRE 151 (382)
T ss_pred HHHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhc
Confidence 999999999999999999888774 4579999998863 458999999999999999997665 66667788888888
Q ss_pred CC--ceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 178 ID--TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 178 ~g--~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
.| +.|.... +.....+.|+..+|++|++.++|+||+++..+++..+++||+++||+.++|+||+++......+..
T Consensus 152 ~g~~i~v~~~~-~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~~-- 228 (382)
T cd06380 152 KDNKWQVTARR-VDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDLS-- 228 (382)
T ss_pred cCCceEEEEEE-ecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccHH--
Confidence 88 5665432 222224578999999999999999999999999999999999999999999999987544333221
Q ss_pred hhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccc---cccc
Q 002352 256 SVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGF---DKTN 332 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~---~~~~ 332 (932)
.......++.+++...+..+..++|.++|+++++..+|......++.+++++||||+++|.|+++++...... ....
T Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~~~ 308 (382)
T cd06380 229 KFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRIDIS 308 (382)
T ss_pred HhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccccccc
Confidence 1122234577777777778899999999999987655543333577899999999999999999986532100 0000
Q ss_pred cCCCCCccc--cccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCc
Q 002352 333 VSSNATDLE--AFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGL 401 (932)
Q Consensus 333 ~~~~~~~~~--~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~ 401 (932)
....+..|. ...+|.+|.+|.++|++++|+|++|++.|| +|++....++|++++ ++.+.||+|++..|+
T Consensus 309 ~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 309 RRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred cCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 011122232 456789999999999999999999999996 999988899999999 889999999998876
No 18
>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=4.8e-42 Score=381.78 Aligned_cols=338 Identities=45% Similarity=0.759 Sum_probs=300.7
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCC-CCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSN-SHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~-~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
|||+++|++| ..|.....|+++|+++||+++ ++.|++|+++++|++|+|..+++++++|+.+++|.+||||.+|..+.
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 6999999995 668899999999999999998 44599999999999999999999999999998999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.+++||....+.+.+.++
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 9999999999999999999988854 568999999999999999999999999999999999999999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhc----cc
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLL----RT 252 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~----~~ 252 (932)
+.|++|+....++...+..|+..++++|++.++|+|++.+.+.++..++++++++|+..++|+||.++.+.... ..
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 99999998888765434678999999999999999999999999999999999999998899999998766433 22
Q ss_pred CChhhhhhccceEEEeecCCC-ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 253 LEPSVIDSMQGVIGVRPYVPK-TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 253 ~~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
......+..+|++++.++.+. ++.+++|.++|+++++...+. ...|+.+++.+|||+++
T Consensus 241 ~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 241 TDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred ChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee------------------
Confidence 233455678999999998887 888999999999999753111 11478899999999987
Q ss_pred ccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCccc
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLTL 403 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~~ 403 (932)
+.+|+|++|++.|+ +|++....|.++++. ++++.||+|+++.|+..
T Consensus 301 --------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 --------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred --------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 24799999999997 888878899999999 78999999999887753
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=5.2e-42 Score=384.50 Aligned_cols=351 Identities=20% Similarity=0.284 Sum_probs=279.2
Q ss_pred cCCCCCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCC-CCcEEEEEEecCCCCHHHHHHHHH-HHHhcCCeEEEE
Q 002352 11 TSKNTTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRNSKGDVVAAAAAAL-DLLNNVLVQAIL 88 (932)
Q Consensus 11 ~~~~~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~-~g~~l~~~~~D~~~~~~~a~~~a~-~li~~~~v~aii 88 (932)
.++..+.+|+||+++|.+ ....|+++|++++|++.+. .+.++.-...+-.+++..++.++| +|+++ +|.|||
T Consensus 12 ~~~~~~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~-~V~aii 85 (377)
T cd06379 12 RAGCSPKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISN-QVYAVI 85 (377)
T ss_pred ccCCCCcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhc-ceEEEE
Confidence 344457789999999843 4689999999999995432 222222221111346666555555 67765 999997
Q ss_pred c-cC-Chh---HHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC
Q 002352 89 G-PE-KSM---QTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ 162 (932)
Q Consensus 89 G-p~-~s~---~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~ 162 (932)
| +. ++. .+.+++.+++.++||+|+++++++.+++ ..+||+||+.|++..|+.++++++++++|++|++||++++
T Consensus 86 ~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~ 165 (377)
T cd06379 86 VSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDH 165 (377)
T ss_pred EeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCc
Confidence 4 33 333 4778899999999999999999998876 3589999999999999999999999999999999999999
Q ss_pred cCCChHHHHHHHHHhCCc----eeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccce
Q 002352 163 YGEEMIPSLTDALQAIDT----RVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGC 238 (932)
Q Consensus 163 ~g~~~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~ 238 (932)
||.+..+.+++.+++.|+ +|+....++ .++.|+..++++|++.++|+|++++..+++..++++|+++||++++|
T Consensus 166 ~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~ 243 (377)
T cd06379 166 EGRAAQKRFETLLEEREIEFKIKVEKVVEFE--PGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGY 243 (377)
T ss_pred chhHHHHHHHHHHHhcCCccceeeeEEEecC--CchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCE
Confidence 999999999999999999 888776664 34578999999999999999999999999999999999999999999
Q ss_pred EEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHH
Q 002352 239 VWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAV 318 (932)
Q Consensus 239 ~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al 318 (932)
+||.++.+... .+...|++|+++..+ ..+++++||||+++|+|+
T Consensus 244 ~wi~t~~~~~~--------~~~~~g~~g~~~~~~----------------------------~~~~~~~yDAV~~~A~Al 287 (377)
T cd06379 244 VWIVSEQAGAA--------RNAPDGVLGLQLING----------------------------KNESSHIRDAVAVLASAI 287 (377)
T ss_pred EEEEecccccc--------ccCCCceEEEEECCC----------------------------CCHHHHHHHHHHHHHHHH
Confidence 99999988432 134689999987532 125678999999999999
Q ss_pred HHhccccccccccccCCCCCccccc-cccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEE
Q 002352 319 EKAGITSFGFDKTNVSSNATDLEAF-GISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFW 395 (932)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w 395 (932)
+++..... ...+ ..+|... .+|..|..|+++|++++|+|++|++.|| +|+|....|+|+|++ +++++||+|
T Consensus 288 ~~~~~~~~-~~~~-----~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w 361 (377)
T cd06379 288 QELFEKEN-ITEP-----PRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLY 361 (377)
T ss_pred HHHHcCCC-CCCC-----CccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEE
Confidence 99864211 1111 1233322 2588999999999999999999999997 999887899999999 889999999
Q ss_pred cCCCCccccccCCCccCCCccceEeCC
Q 002352 396 TPEKGLTLKLRSNSTTKSKLRPIIWPG 422 (932)
Q Consensus 396 ~~~~g~~~~~~~~~~~~~~~~~i~Wpg 422 (932)
++. .+. + +.++|.||+
T Consensus 362 ~~~-~l~--~--------~~~~i~W~~ 377 (377)
T cd06379 362 NGD-ILR--L--------NDRSIIWPG 377 (377)
T ss_pred cCc-EEE--e--------cCceeeCCC
Confidence 974 222 1 357799986
No 20
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=2.4e-41 Score=378.88 Aligned_cols=351 Identities=17% Similarity=0.180 Sum_probs=290.5
Q ss_pred EEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCC-CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 21 VGLVLDMNG---EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 21 IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~-~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|-+++|.++ ..+.....|+++|+++||+++++ .|++|+++++|++|++..+..++..++. ++|.|||||.||.++
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~-~~v~aiiGp~~s~~~ 80 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCA-RKPDLILGPVCEYAA 80 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHh-hCCCEEECCCCccHH
Confidence 456788766 33567899999999999998887 5999999999999998777777777765 499999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC--CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCCh---HHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS--IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEM---IPSL 171 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~---~~~l 171 (932)
.+++.+++.++||+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||+++++|++. .+.|
T Consensus 81 ~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l 160 (387)
T cd06386 81 APVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGV 160 (387)
T ss_pred HHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHH
Confidence 99999999999999999999988875 358999999999999999999999999999999999999999876 8899
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc-hhc
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT-NLL 250 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~-~~~ 250 (932)
.+.+++.|++|+.....+ ..+.++..+|+++++.. |+||++++.+.+..++++|++.||+..+|+||.++... ...
T Consensus 161 ~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~ 237 (387)
T cd06386 161 HHVFQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSY 237 (387)
T ss_pred HHHHHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEeccccccc
Confidence 999999999998765432 33568999999999887 99999999999999999999999999999999998663 100
Q ss_pred --------ccCC---hhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCC-ccccchhhHHHHHHHHHHHHHH
Q 002352 251 --------RTLE---PSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLF-DVELNILGLFAYDATRALAVAV 318 (932)
Q Consensus 251 --------~~~~---~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~a~~~YDav~~la~Al 318 (932)
+..+ ....+.++|+.+++++ .+.+++|.+++++++... +..+ ...++.+++++|||++++|+|+
T Consensus 238 ~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~---~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~aa~~yDav~l~A~Al 313 (387)
T cd06386 238 GDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV---KPEFEKFSMEVKSSVEKA-GDLNDCDYVNMFVEGFHDAILLYALAL 313 (387)
T ss_pred CCCCCccCCCcCHHHHHHHHhheEEeccCCC---ChHHHHHHHHHHHHHHhC-CCCcccccchHHHHHHHHHHHHHHHHH
Confidence 1122 1233456666666655 477889999998666442 1111 1256789999999999999999
Q ss_pred HHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee---cC-eEEEE
Q 002352 319 EKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN---NG-ARGVG 393 (932)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~---~g-~~~vG 393 (932)
+++.... +.+.+|..|.++|++++|+|++|++.|| +|+|. ..|.++.++ ++ ++.||
T Consensus 314 ~~~~~~g------------------~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~~ 374 (387)
T cd06386 314 HEVLKNG------------------YSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVVG 374 (387)
T ss_pred HHHhhCC------------------CCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEEe
Confidence 9985321 1256899999999999999999999997 99985 599999997 33 99999
Q ss_pred EEcCC
Q 002352 394 FWTPE 398 (932)
Q Consensus 394 ~w~~~ 398 (932)
.|+..
T Consensus 375 ~~~~~ 379 (387)
T cd06386 375 NYFGK 379 (387)
T ss_pred EEccc
Confidence 99853
No 21
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=6.2e-42 Score=382.14 Aligned_cols=348 Identities=20% Similarity=0.254 Sum_probs=292.0
Q ss_pred cEEEEEEEeCCCccchhHHHHHHHHHHHHhcCC-CCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH-
Q 002352 18 PVNVGLVLDMNGEDGKIALSCINMSLSDFYNSN-SHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ- 95 (932)
Q Consensus 18 ~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~-~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~- 95 (932)
.|+||.++|.++. ..+++.|+..+|.+. +..+++++++..|+++||.+++.++|+++.+++|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSSS-----EPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCcc-----hhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 5899999999853 366666776666554 445899999999999999999999999998889999999999998
Q ss_pred --HHHHHHhcCCCCccEEecccCCCCc-cC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHH
Q 002352 96 --TNFIIQLGNKSQVPILSFSATSPSL-TS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSL 171 (932)
Q Consensus 96 --a~~v~~~~~~~~iP~Is~~a~~~~l-~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 171 (932)
+.+++.+++.++||+|+++++++.+ ++ ..+|||||+.|++..+++++++++++|+|++|++||++++||++..+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999999888 76 5789999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCce--eeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchh
Q 002352 172 TDALQAIDTR--VPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNL 249 (932)
Q Consensus 172 ~~~l~~~g~~--v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~ 249 (932)
++.+++.|++ ++....++... .+++..++.++++.++|+|+++|+..++..++++|+++||++++|+||+++.+...
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~~-~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~ 235 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLSD-DDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGS 235 (362)
T ss_pred HHHHHhcccceeeeeeEEeccCC-CcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccc
Confidence 9999999998 76666554332 22788899999999999999999999999999999999999999999999998742
Q ss_pred cccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccc
Q 002352 250 LRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFD 329 (932)
Q Consensus 250 ~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~ 329 (932)
.. ...+...|++++++... ..+++++||||+++|+|++++........
T Consensus 236 ~~----~~~~~~~G~~g~~~~~~----------------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~ 283 (362)
T cd06367 236 GL----APEGLPVGLLGVGLDTW----------------------------YSLEARVRDAVAIVARAAESLLRDKGALP 283 (362)
T ss_pred cC----CccCCCCeeEEEEeccc----------------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 11 12346789999987532 23678899999999999999865321111
Q ss_pred ccccCCCCCcccccc--ccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee--cCeEEEEEEcCCCCcccc
Q 002352 330 KTNVSSNATDLEAFG--ISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN--NGARGVGFWTPEKGLTLK 404 (932)
Q Consensus 330 ~~~~~~~~~~~~~~~--~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~--~g~~~vG~w~~~~g~~~~ 404 (932)
.. ..+|.... .|..|..|.++|++++|+|++|++.|+ +|++....|+|+|++ .++++||.|++ +.
T Consensus 284 ~~-----~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~---~~-- 353 (362)
T cd06367 284 EP-----PVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN---GK-- 353 (362)
T ss_pred CC-----CCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC---Cc--
Confidence 11 12344432 278999999999999999999999996 999888899999998 57999999985 11
Q ss_pred ccCCCccCCCccceEeC
Q 002352 405 LRSNSTTKSKLRPIIWP 421 (932)
Q Consensus 405 ~~~~~~~~~~~~~i~Wp 421 (932)
...+.|.||
T Consensus 354 --------~~~~~i~w~ 362 (362)
T cd06367 354 --------LVMRYIVWP 362 (362)
T ss_pred --------eecCcCCCC
Confidence 135679998
No 22
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.7e-41 Score=372.40 Aligned_cols=360 Identities=18% Similarity=0.241 Sum_probs=288.7
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC--CcEEEEEEec-CCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY--KTRLLLNTRN-SKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~--g~~l~~~~~D-~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||.|++.+. .....|+++|++.+|.+.... +.++..++.. ...|+..+.+++|+++++ ||.||+||.+|..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~-gV~AI~Gp~ss~~~ 76 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSR-GVFAIFGLYDKRSV 76 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhC-CceEEEecCCHHHH
Confidence 4899998554 235799999999999875332 3566655432 335899999999999998 99999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.+++++|+..+||+|+++++ +...+.|.+++.|+ +..++++++++++|++|++||+ +++|...++.|.++++
T Consensus 77 ~~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~ 148 (371)
T cd06388 77 HTLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAG 148 (371)
T ss_pred HHHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhH
Confidence 99999999999999998654 12334455555555 4678888999999999999995 4455577899999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPS 256 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~ 256 (932)
+.|++|+.....+. ++.|++++|++|+++++++||++|.++.+..+++||+++||+.++|+||+++...... .
T Consensus 149 ~~g~~v~~~~~~~~--~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~-----~ 221 (371)
T cd06388 149 QNGWQVSAICVENF--NDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDI-----S 221 (371)
T ss_pred hcCCeeeeEEeccC--CcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccc-----c
Confidence 99999887655432 3568999999999999999999999999999999999999999999999987532222 2
Q ss_pred hhhhccc---eEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 257 VIDSMQG---VIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 257 ~~~~~~g---~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
..+...| +.|++...+.++.+++|.++|++++...+++... .++.+++++||||+++|.|++++..........
T Consensus 222 l~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~-~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~~-- 298 (371)
T cd06388 222 LERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSES-PPKYTSALTYDGVLVMAEAFRNLRRQKIDISRR-- 298 (371)
T ss_pred HHHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCC-CccchHHHHHHHHHHHHHHHHHHHhcCCCcccC--
Confidence 2233344 8899998888899999999999887666554222 578899999999999999999985432221111
Q ss_pred CCCCCcc--ccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCcc
Q 002352 334 SSNATDL--EAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT 402 (932)
Q Consensus 334 ~~~~~~~--~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~ 402 (932)
++..+| ++..+|..|..|.++|++++|+|+||+++|+ +|+|....++|+++. +|+++||+|++..|+.
T Consensus 299 -~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 299 -GNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred -CCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 111234 3356899999999999999999999999996 899988899999999 9999999999998874
No 23
>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=6.4e-41 Score=379.46 Aligned_cols=355 Identities=17% Similarity=0.177 Sum_probs=289.4
Q ss_pred EEEEEEeCCCc---cc-hhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHH-----HHHHHHHHHhcCCeEEEEc
Q 002352 20 NVGLVLDMNGE---DG-KIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVA-----AAAAALDLLNNVLVQAILG 89 (932)
Q Consensus 20 ~IG~i~~~s~~---~g-~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~-----a~~~a~~li~~~~v~aiiG 89 (932)
+||+++|+++. .| .....|+++|+++||++++++ |++|++++.|+++++.. +...+.++...++|.+|||
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 58999999984 44 678889999999999999888 99999999999665543 4444555445569999999
Q ss_pred cCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEE-EEEcCCc-CCC
Q 002352 90 PEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVP-IYVDNQY-GEE 166 (932)
Q Consensus 90 p~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~i-i~~d~~~-g~~ 166 (932)
|.||.++.+++.+++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++|+|+++++ +|.++.+ ++.
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 999999999999999999999999999988886 5799999999999999999999999999999985 5554433 333
Q ss_pred ---hHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 167 ---MIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 167 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
..+.+.+.+++.|++|+.....+ .+..++..+|+++++.. |+||+++....+..++++|++.||+.++|+||.+
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 237 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEE--DDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFFYI 237 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccC--CchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 46889999999999998875332 23678999999998754 9999999999999999999999999999999999
Q ss_pred cccchhccc------------CChhhhhhccceEEEeecCCCChhHHHHHHHHHHh----hhccCCCCCccccchhhHHH
Q 002352 244 EGMTNLLRT------------LEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRK----FLQENPSLFDVELNILGLFA 307 (932)
Q Consensus 244 ~~~~~~~~~------------~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~~~~~~~~~~a~~~ 307 (932)
+.+...... .+....+.++++++...+.+.++.+++|.++|+++ |++.. +...++.+++++
T Consensus 238 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~---~~~~~~~~aa~~ 314 (405)
T cd06385 238 DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTV---EDSLMNIIAGGF 314 (405)
T ss_pred ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCcc---chhhHHHHHHHH
Confidence 775432221 11234566789988877777788899999999986 33310 011367899999
Q ss_pred HHHHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee
Q 002352 308 YDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN 386 (932)
Q Consensus 308 YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~ 386 (932)
||||+++|.|++++.... +.+.+|.+|.++|++++|+|++|++.|| +|+|. ..|.++.++
T Consensus 315 YDav~l~a~Al~~~~~~~------------------~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~~~ 375 (405)
T cd06385 315 YDGVMLYAHALNETMAKG------------------GTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWDMT 375 (405)
T ss_pred HHHHHHHHHHHHHHHhcC------------------CCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEEcc
Confidence 999999999999974321 1244789999999999999999999997 89984 789888774
Q ss_pred ---cC-eEEEEEEcCCC
Q 002352 387 ---NG-ARGVGFWTPEK 399 (932)
Q Consensus 387 ---~g-~~~vG~w~~~~ 399 (932)
+| +..||+|+..+
T Consensus 376 ~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 376 DTESGDFQVVSVYNGTQ 392 (405)
T ss_pred CCCCCcEEEEEEEcccC
Confidence 33 99999999754
No 24
>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=6.1e-41 Score=371.77 Aligned_cols=362 Identities=18% Similarity=0.228 Sum_probs=293.4
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEe-cCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTR-NSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~-D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||.|++... ...+.|++.|++.+|... .+|..++. =+..|+..+.+++|+++++ ||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~~----~~l~~~~~~~~~~dsf~~~~~~C~~~~~-GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTSE----FRLTPHIDNLEVANSFAVTNAFCSQFSR-GVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhcccC----ceeeeeeEEecccchHHHHHHHHHHhhc-CcEEEEecCCHHHHHH
Confidence 4899998765 235899999999999872 56665442 2446999999999999998 9999999999999999
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI 178 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 178 (932)
++.+|+..+||+|+++++. +..++|.+++.|+ ...++++++++|+|++|++||+ ++||...++.|.+.+++.
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 9999999999999986642 2357888898888 5889999999999999999997 569999999999999999
Q ss_pred Cceeeeeee--cCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChh
Q 002352 179 DTRVPYRSV--ISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPS 256 (932)
Q Consensus 179 g~~v~~~~~--~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~ 256 (932)
|++|+.... +.....+.|++.+|++|++.++++||++|+.+.+..++++|+++||+.++|+||+++......+..+
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~~-- 222 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLSK-- 222 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccchhh--
Confidence 988764432 2223346689999999999999999999999999999999999999999999999875332222211
Q ss_pred hhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCC
Q 002352 257 VIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSN 336 (932)
Q Consensus 257 ~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~ 336 (932)
......++.|++...+..+.+++|.++|++.....+|+.....++..++++||||+++|.|++++........+.. +
T Consensus 223 ~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~~---~ 299 (370)
T cd06389 223 IQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRG---N 299 (370)
T ss_pred hccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC---C
Confidence 1112346888998888899999999999974444444332236788999999999999999999865432222211 1
Q ss_pred CCccc--cccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCcc
Q 002352 337 ATDLE--AFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT 402 (932)
Q Consensus 337 ~~~~~--~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~ 402 (932)
..+|. ...+|.+|..|.++|++++|+|+||+++|+ +|+|....++|++++ +|+++||+|++..|+.
T Consensus 300 ~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 300 AGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred CCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 12342 245799999999999999999999999996 999998899999999 9999999999998874
No 25
>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=1.1e-40 Score=376.73 Aligned_cols=359 Identities=17% Similarity=0.225 Sum_probs=296.4
Q ss_pred EEEEEEeCCC----ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCC----CHHHHHHHHHHHHhcCCeEEEEcc
Q 002352 20 NVGLVLDMNG----EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKG----DVVAAAAAALDLLNNVLVQAILGP 90 (932)
Q Consensus 20 ~IG~i~~~s~----~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~----~~~~a~~~a~~li~~~~v~aiiGp 90 (932)
+||+++|.+| ..|.....|+++|+++||++++++ |++|+++++|+++ ++..++..+.+++.+++|.|||||
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 5899999996 346678899999999999998764 8999999999999 899999999999877799999999
Q ss_pred CChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcC----C
Q 002352 91 EKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYG----E 165 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g----~ 165 (932)
.||..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++||.+++++ .
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 99999999999999999999999999998886 578999999999999999999999999999999999987764 4
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG 245 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~ 245 (932)
...+.+.+.+++.|++|+... +.......|+..+|+++++.. |+||+++...++..++++|+++||+..+|+||..+.
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 467889999999999987543 332211368999999999765 999999999999999999999999999999999765
Q ss_pred cchhc-----------ccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCC-CCCccccchhhHHHHHHHHH
Q 002352 246 MTNLL-----------RTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENP-SLFDVELNILGLFAYDATRA 313 (932)
Q Consensus 246 ~~~~~-----------~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~~a~~~YDav~~ 313 (932)
..... ........+..+|++++..+.++.+.+++|.++|+++...++. ..+...++.+++.+|||+++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 318 (396)
T cd06373 239 FGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLL 318 (396)
T ss_pred chhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHH
Confidence 43211 0011223456778998888888888899999999986322110 11112467899999999999
Q ss_pred HHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee---cC-
Q 002352 314 LAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN---NG- 388 (932)
Q Consensus 314 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~---~g- 388 (932)
+|+|++++.... +.+.++.+|.++|++++|+|++|++.|| +|++. ..|.|+++. +|
T Consensus 319 ~a~Al~~~~~~~------------------~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~~~~~g~ 379 (396)
T cd06373 319 YALALNETLAEG------------------GDPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMTDTETGT 379 (396)
T ss_pred HHHHHHHHHhcc------------------CCCCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeeccCCCCce
Confidence 999999974321 1124789999999999999999999997 89974 788888773 44
Q ss_pred eEEEEEEcCCC
Q 002352 389 ARGVGFWTPEK 399 (932)
Q Consensus 389 ~~~vG~w~~~~ 399 (932)
++.+|++++.+
T Consensus 380 ~~~~~~~~~~~ 390 (396)
T cd06373 380 FEVVANYNGSN 390 (396)
T ss_pred EEEEeeccccc
Confidence 88899998743
No 26
>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=1e-40 Score=376.77 Aligned_cols=345 Identities=15% Similarity=0.271 Sum_probs=286.9
Q ss_pred EEEEEEEeCCC-cc---chhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh
Q 002352 19 VNVGLVLDMNG-ED---GKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS 93 (932)
Q Consensus 19 i~IG~i~~~s~-~~---g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s 93 (932)
|+||++.|++| .. |.....|+++|+++||++++++ |++|+++++|++|++..|+.++++|+.+ +|.+||||.+|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~-~v~aiiGp~~S 79 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKR-GVVAFIGPECT 79 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhc-CceEEECCCch
Confidence 68999999998 24 8889999999999999999885 9999999999999999999999999976 99999999998
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLT 172 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 172 (932)
.. +++.+++.++||+|+++++++.+++ ..+|+|+|+.|++..++.++++++++++|++|++|+.+++||.+..+.|+
T Consensus 80 ~~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~ 157 (404)
T cd06370 80 CT--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLK 157 (404)
T ss_pred hH--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHH
Confidence 54 4567999999999999999988876 46899999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCceeeeeeecCCCC-----ChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCcc-ccceEEEEeccc
Q 002352 173 DALQAIDTRVPYRSVISPLA-----TDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLM-NKGCVWIMTEGM 246 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~-~~~~~wi~t~~~ 246 (932)
+.+.+.|++|+..+.++... ...++...++++++. ++++|+++...++..++++|+++||+ ..+|+||.++..
T Consensus 158 ~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~ 236 (404)
T cd06370 158 EEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIE 236 (404)
T ss_pred HHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchh
Confidence 99999999999888876442 246888888888754 78888888878899999999999998 688999987632
Q ss_pred ch------h------------cccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccC-CC-----CCccccch
Q 002352 247 TN------L------------LRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQEN-PS-----LFDVELNI 302 (932)
Q Consensus 247 ~~------~------------~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~-~~-----~~~~~~~~ 302 (932)
.. . .........+.++|++++.+..+ .+..++|.++|++++.... +. .....++.
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 315 (404)
T cd06370 237 YYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDI 315 (404)
T ss_pred hccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCcccccccccccccce
Confidence 10 0 00111234567899988876655 7778999999998754310 00 01125778
Q ss_pred hhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeee-eEEee-CCccccccE
Q 002352 303 LGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTG-DYVFV-DGQLQSSAF 380 (932)
Q Consensus 303 ~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG-~~~f~-~g~~~~~~~ 380 (932)
+++++|||++++|+|++++.... +...+|.+|.++|++++|+|+|| ++.|| +|++ ...|
T Consensus 316 ~aa~~yDAv~~~a~Al~~~~~~~------------------~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~-~~~y 376 (404)
T cd06370 316 EAAYLYDAVMLYAKALDETLLEG------------------GDIYNGTAIVSHILNRTYRSITGFDMYIDENGDA-EGNY 376 (404)
T ss_pred eeehhHHHHHHHHHHHHHHHHhc------------------CCCCCHHHHHHHHhCcccccccCceEEEcCCCCc-ccce
Confidence 99999999999999999984321 01246899999999999999999 89997 9997 4799
Q ss_pred EEEEeec
Q 002352 381 EIINVNN 387 (932)
Q Consensus 381 ~I~n~~~ 387 (932)
.|+++++
T Consensus 377 ~v~~~~~ 383 (404)
T cd06370 377 SVLALQP 383 (404)
T ss_pred EEEEecc
Confidence 9999973
No 27
>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=2.3e-40 Score=374.00 Aligned_cols=361 Identities=17% Similarity=0.223 Sum_probs=311.3
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCC-CCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNS-HYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~-~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|||+++|++| ..|.....|+++|+++||++++ +.|++|+++++|+++++..++..+.+|+.+++|.+||||.+|..
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 6999999998 5588899999999999999984 56999999999999999999999999999889999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC-cCCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ-YGEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~ 173 (932)
+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
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 999999999999999999999888876 4689999999999999999999999999999999998887 99999999999
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcc--
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLR-- 251 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~-- 251 (932)
++++.|++|+....++......|+..+++++++.+ |+||+.+.+.++..++++++++|+...+++||.++.+.....
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 99999999998887764322578999999999887 999999999999999999999999888999999887664321
Q ss_pred ---------cCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCC--CccccchhhHHHHHHHHHHHHHHHH
Q 002352 252 ---------TLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSL--FDVELNILGLFAYDATRALAVAVEK 320 (932)
Q Consensus 252 ---------~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~a~~~YDav~~la~Al~~ 320 (932)
.......+.++|++++.++.+.++.+++|.++|+++++...... ....++.++..+|||++++++|+++
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 319 (389)
T cd06352 240 NSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNE 319 (389)
T ss_pred CCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHH
Confidence 11223456788999998888788899999999999987421100 1124678999999999999999999
Q ss_pred hccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cC--eEEEEEEc
Q 002352 321 AGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NG--ARGVGFWT 396 (932)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g--~~~vG~w~ 396 (932)
+.... +.+.++..+.+.|++++|.|++|++.|+ +|++. ..|.|++++ ++ ...++.++
T Consensus 320 ~~~~~------------------~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~~~~~~ 380 (389)
T cd06352 320 TLAEG------------------GDYNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEVVYLYD 380 (389)
T ss_pred HHHhC------------------CCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEEEEecc
Confidence 86542 1134688999999999999999999997 99975 789999999 43 78888777
Q ss_pred CCCC
Q 002352 397 PEKG 400 (932)
Q Consensus 397 ~~~g 400 (932)
..++
T Consensus 381 ~~~~ 384 (389)
T cd06352 381 TSSG 384 (389)
T ss_pred ccce
Confidence 7654
No 28
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=2.4e-40 Score=374.47 Aligned_cols=362 Identities=19% Similarity=0.239 Sum_probs=299.4
Q ss_pred CCccEEEEEEEeCCC---------------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHH
Q 002352 15 TTIPVNVGLVLDMNG---------------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAA 72 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~---------------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~ 72 (932)
.++.+.||+++|.+- ..|.....|+++|+++||++++++ |++++++++|+|+ +..++
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 356788999988753 336678899999999999999998 8999999999976 76799
Q ss_pred HHHHHHHhc---------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCch
Q 002352 73 AAALDLLNN---------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDS 136 (932)
Q Consensus 73 ~~a~~li~~---------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~ 136 (932)
+.+.+|+.+ ++|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++.
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 999999864 79999999999999999999999999999999999988876 56899999999999
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCC-CChhHHHHHHHHHhcCCceEEEEE
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQTRVFILH 215 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viil~ 215 (932)
.++.++++++++++|++|++|+.+++||.+..+.+++.+++.|++|+..+.++.. .++.|+.+++.+|+++++|+|++.
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 9999999999999999999999999999999999999999999999988877643 246789999999999999999999
Q ss_pred eChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCC
Q 002352 216 MLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSL 295 (932)
Q Consensus 216 ~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 295 (932)
+.++++..++++|+++||.. .+||.+++|................+++++....+..+.+++|.++
T Consensus 242 ~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~------------ 307 (410)
T cd06363 242 ASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVTIPGFSDFIYS------------ 307 (410)
T ss_pred cChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccccCCccceeeccEEEEEeCCCCCccHHHHHHH------------
Confidence 99999999999999999854 4799988775322111111223455678887777777777777765
Q ss_pred CccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCc
Q 002352 296 FDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQ 374 (932)
Q Consensus 296 ~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~ 374 (932)
+++.+||||+++|+|++++.... ...|.. ..+.+++.|.++|++++|+|++|++.|+ +|+
T Consensus 308 -------~~~~~YDaV~~~a~Al~~a~~~~-----------~~~~~~-~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~ 368 (410)
T cd06363 308 -------FAFSVYAAVYAVAHALHNVLQCG-----------SGGCPK-RVPVYPWQLLEELKKVNFTLLGQTVRFDENGD 368 (410)
T ss_pred -------HHHHHHHHHHHHHHHHHHHhCCC-----------CCCCCC-CCCCCHHHHHHHHhccEEecCCcEEEeCCCCC
Confidence 45679999999999999985321 111221 1235788999999999999999999997 899
Q ss_pred cccccEEEEEee-c----CeEEEEEEcCCC-CccccccCCCccCCCccceEeC
Q 002352 375 LQSSAFEIINVN-N----GARGVGFWTPEK-GLTLKLRSNSTTKSKLRPIIWP 421 (932)
Q Consensus 375 ~~~~~~~I~n~~-~----g~~~vG~w~~~~-g~~~~~~~~~~~~~~~~~i~Wp 421 (932)
+ ...+.|++++ + +.++||+|++.+ .+. .+.++|.|+
T Consensus 369 ~-~~~~~i~~~~~~~~~~~~~~vG~~~~~~~~l~----------~~~~~i~w~ 410 (410)
T cd06363 369 P-NFGYDIVVWWWDNSSGTFEEVGSYSFYPIRLT----------INRSKIQWH 410 (410)
T ss_pred C-ccceEEEEEEEcCCceeEEEEEEEECCCCEEE----------EehHhcccC
Confidence 5 4679999997 4 389999999853 222 134668886
No 29
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=3.1e-40 Score=372.29 Aligned_cols=357 Identities=15% Similarity=0.212 Sum_probs=286.6
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
+||++.|+++ ..+.....|+++|+++||++++++ |++|+++++|++|++..|+.++++++.+++|.|||||.||.+
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 5899999876 346667789999999999998877 589999999999999999999999998889999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC---CcC--CChHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN---QYG--EEMIP 169 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g--~~~~~ 169 (932)
+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++|+|++|++||.++ .++ ....+
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 999999999999999999999999986 568999999999999999999999999999999998643 333 12334
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc----
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG---- 245 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~---- 245 (932)
.+.+.++ .+++++..+.++ .++.++...+.+.++.++|+||+++..+++..++++|+++||+.++|+||.+..
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~--~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~ 237 (391)
T cd06372 161 AVENQLK-FHFNITATVRYS--SSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFEDN 237 (391)
T ss_pred HHHHHHh-hCEEEEEEEecC--CCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhcCc
Confidence 4555553 678888777664 334567766666667899999999999999999999999999888899999633
Q ss_pred -cchhccc-CChhhhhhccceEEEeecCCC-ChhHHHHHHHHHHhhhccCCCC----CccccchhhHHHHHHHHHHHHHH
Q 002352 246 -MTNLLRT-LEPSVIDSMQGVIGVRPYVPK-TKAFENFRVRWKRKFLQENPSL----FDVELNILGLFAYDATRALAVAV 318 (932)
Q Consensus 246 -~~~~~~~-~~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~----~~~~~~~~a~~~YDav~~la~Al 318 (932)
|...... ......+.++|++++.+.... .+...+|.++|++++... |.. .....+.+++++||||+++|+|+
T Consensus 238 ~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~-p~~~~~~~~~~~~~~a~~~yDav~~~A~Al 316 (391)
T cd06372 238 FWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRP-PFQSSLSSEEQVSPYSAYLHDAVLLYALAV 316 (391)
T ss_pred cccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcC-CccccccccccchHHHHHHHHHHHHHHHHH
Confidence 2211111 111234567888888776542 455778999888887531 210 11144788999999999999999
Q ss_pred HHhccccccccccccCCCCCccccccccCChHHHHHHhh---cceeeeeeeeEEee-CCccccccEEEEEee-c-C---e
Q 002352 319 EKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALS---STRFKGLTGDYVFV-DGQLQSSAFEIINVN-N-G---A 389 (932)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~---~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~-g---~ 389 (932)
+++.... ..|.+|..|.+.|+ +++|+|+||++.|+ +|+| .+.|.|++++ + . .
T Consensus 317 ~~~~~~g------------------~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~~~~~~ 377 (391)
T cd06372 317 KEMLKAG------------------KDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSGNSSLF 377 (391)
T ss_pred HHHHhcC------------------CCCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccCCccce
Confidence 9975321 12567899999999 68999999999997 8997 5799999998 2 2 8
Q ss_pred EEEEEEcCCC
Q 002352 390 RGVGFWTPEK 399 (932)
Q Consensus 390 ~~vG~w~~~~ 399 (932)
+.||.|+..+
T Consensus 378 ~~vg~~~~~~ 387 (391)
T cd06372 378 LPFLHYDSHQ 387 (391)
T ss_pred eeEEEecchh
Confidence 8999999754
No 30
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=3.7e-40 Score=368.33 Aligned_cols=345 Identities=17% Similarity=0.178 Sum_probs=280.1
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCC-CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSH-YKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~-~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|||++.|++| ..|...+.|+++|+++||+++++ +|++++++++|++|++..++.++.++ +++|.+||||.||.+
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~ 78 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVNPGY 78 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCCchH
Confidence 6999999998 44777899999999999999988 59999999999999988777655543 458999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
+.++++++++++||+|+++++++.+++ ..+|+|+|+.|++ ..++++++++|+|++|++|++++++|.+..+.+.+.
T Consensus 79 ~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~ 155 (382)
T cd06371 79 CEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASA 155 (382)
T ss_pred HHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHH
Confidence 999999999999999999999999886 6789999999886 567889999999999999999999999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC-ceEEEEEeCh-----hhHHHHHHHHHhCCccccceEEEEecccch
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFILHMLP-----SLGSRIFEKANEIGLMNKGCVWIMTEGMTN 248 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~-----~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~ 248 (932)
+++.|++|+....++ .++.|+..+|++|++.+ +|+||+++.. .++..++++|+++||+..+|+||.+++...
T Consensus 156 l~~~gi~v~~~~~~~--~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~ 233 (382)
T cd06371 156 LRAHGLPVGLVTSMG--PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLLY 233 (382)
T ss_pred HHHCCCcEEEEEEec--CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEeccccc
Confidence 999999998877665 35678999999999987 6999998765 677899999999999999999999986431
Q ss_pred hc-------cc--CChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCC-ccccchhhHHHHHHHHHHHHHH
Q 002352 249 LL-------RT--LEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLF-DVELNILGLFAYDATRALAVAV 318 (932)
Q Consensus 249 ~~-------~~--~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~a~~~YDav~~la~Al 318 (932)
.. .. .+.+..+.+++++++.++.+..+..++|.+.|+.. ..|... ....+.+++++|||++++|+|+
T Consensus 234 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~YDav~~~a~Al 310 (382)
T cd06371 234 SLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERG---EIPSDLEPEQVSPLFGTIYNSIYLLAHAV 310 (382)
T ss_pred cCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcC---CCCCCCCccccchhHHHHHHHHHHHHHHH
Confidence 11 10 12334467888888877655444445555543221 111111 1134567778999999999999
Q ss_pred HHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEE
Q 002352 319 EKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGF 394 (932)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~ 394 (932)
+++++.. ...++.+|.++|++++|+|++|++.|| +|++ .+.|.|+++. +|+|-+-+
T Consensus 311 ~~a~~~g-------------------~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~~ 368 (382)
T cd06371 311 ENARAAG-------------------GGVSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYPT 368 (382)
T ss_pred HHHHHhC-------------------CCccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeeee
Confidence 9986431 123689999999999999999999997 8886 5899999999 88665433
No 31
>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=1.2e-40 Score=359.33 Aligned_cols=324 Identities=18% Similarity=0.270 Sum_probs=264.9
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCC-cEEEEEEecCCCCHH-HHHHHHHHHHhcCCeEEEEccCChhH-H
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRNSKGDVV-AAAAAALDLLNNVLVQAILGPEKSMQ-T 96 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g-~~l~~~~~D~~~~~~-~a~~~a~~li~~~~v~aiiGp~~s~~-a 96 (932)
+||+|++.+...|+..+.|+++|++++|++++++| ++|++++.|.+.++. .++.++|+++++ +|.|||||.+|.. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~-gV~AIiGp~ss~~~~ 79 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPK-GVVSVLGPSSSPASS 79 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhc-CeEEEECCCCchHHH
Confidence 58999999999999999999999999999988876 499999999998775 778888998855 9999999999975 6
Q ss_pred HHHHHhcCCCCccEEecccCC-CCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATS-PSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~-~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.+++++|++.+||+|+++++. +.+...+++ .+++.|++..+.+|+++++++|+|++|++||+++++ +..|++.+
T Consensus 80 ~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~-~i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l 154 (333)
T cd06394 80 SIVSHICGEKEIPHFKVGPEETPKLQYLRFA-SVNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELL 154 (333)
T ss_pred HHHHHHhhccCCceEEeccccCcccccccce-EEEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHH
Confidence 799999999999999987543 333323333 489999999999999999999999999999999886 67777777
Q ss_pred HhCCceeeeeeecCC--CCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccC
Q 002352 176 QAIDTRVPYRSVISP--LATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTL 253 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~--~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~ 253 (932)
+..+. +...++. ..++.|+.++|++|+++++|+||++|+++.+..++++|+++||+.++|+||+|+......+..
T Consensus 155 ~~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L~ 231 (333)
T cd06394 155 RQFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRLD 231 (333)
T ss_pred Hhhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccHH
Confidence 76533 1222221 124568999999999999999999999999999999999999999999999998776533322
Q ss_pred ChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
+ ......++.+++...++.+.+++|.++|+++|.+.....+.......++++||||+++
T Consensus 232 ~--~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~------------------- 290 (333)
T cd06394 232 S--IVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV------------------- 290 (333)
T ss_pred H--hhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-------------------
Confidence 2 2223556889999999999999999999988743221111112234678888888654
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCcc
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGLT 402 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~~ 402 (932)
|+||+++|+ +|+|.+..++|+++. +|.++||+|++..|++
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 999999996 899999999999999 9999999999998874
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.8e-39 Score=357.24 Aligned_cols=319 Identities=18% Similarity=0.270 Sum_probs=273.4
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCC-CCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSK-GDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~-~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
+||+++++ ..|.....|+++|+++||++++++ |++|+++++|++ +++..+++++|+|+.+ +|.+||||.+|..+.
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~~S~~~~ 77 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPSSSEASS 77 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCCChhHHH
Confidence 59999998 557888999999999999999987 899999999999 8999999999999987 999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA 177 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 177 (932)
+++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|++|++||++++++ ..+.+.+++
T Consensus 78 av~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~ 151 (327)
T cd06382 78 IVQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQA 151 (327)
T ss_pred HHHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHh
Confidence 999999999999999988877766 46899999999999999999999999999999999988754 445566665
Q ss_pred CCc---eeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 178 IDT---RVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 178 ~g~---~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
.|. .+.. ..++. .. |+..+|.+|+++++|+|++++.+.++..++++|+++||+.+.|+|++++......+..
T Consensus 152 ~~~~g~~v~~-~~~~~--~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~- 226 (327)
T cd06382 152 FGISGITITV-RQLDD--DL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE- 226 (327)
T ss_pred hccCCCeEEE-EEccC--Cc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh-
Confidence 554 4444 34432 33 8999999999999999999999999999999999999999999999987755443321
Q ss_pred hhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccC
Q 002352 255 PSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVS 334 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 334 (932)
.......++++++.+.++++.+++|.++|+++|+...+......|+.+++.+|||++++
T Consensus 227 -~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~-------------------- 285 (327)
T cd06382 227 -DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF-------------------- 285 (327)
T ss_pred -hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe--------------------
Confidence 12223457888888888889999999999999976433333335888999999999865
Q ss_pred CCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCc
Q 002352 335 SNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGL 401 (932)
Q Consensus 335 ~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~ 401 (932)
|+||+++|+ +|+|.+..|+|+|++ +|++.||+|+++.|+
T Consensus 286 ----------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ----------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ----------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 999999997 899999999999999 889999999998775
No 33
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=5.5e-38 Score=354.19 Aligned_cols=358 Identities=15% Similarity=0.157 Sum_probs=281.7
Q ss_pred EEEEEEeCCCc---cc-hhHHHHHHHHHHHHhcCCCC-CCcEEEEEEecCCCC----HHHHHHHHHHHHhcCCeEEEEcc
Q 002352 20 NVGLVLDMNGE---DG-KIALSCINMSLSDFYNSNSH-YKTRLLLNTRNSKGD----VVAAAAAALDLLNNVLVQAILGP 90 (932)
Q Consensus 20 ~IG~i~~~s~~---~g-~~~~~a~~lAv~~iN~~~~~-~g~~l~~~~~D~~~~----~~~a~~~a~~li~~~~v~aiiGp 90 (932)
+||+++|.+.. ++ .....|+++|+|+||+++++ .|++|++.++|++++ +..+...+.++...+++.+||||
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 48999998762 22 34677999999999999976 599999999998655 33333333332223579999999
Q ss_pred CChhHHHHHHHhcCCCCccEEecccCCCCccC--CCCCceEecccCchhHHHHHHHHHHHcCCe-EEEEEEEcCCcCC--
Q 002352 91 EKSMQTNFIIQLGNKSQVPILSFSATSPSLTS--IRSSYFFRGSLNDSSQVGAITAIIKAFGWR-EAVPIYVDNQYGE-- 165 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~-~v~ii~~d~~~g~-- 165 (932)
.||.++.+++.+++.+++|+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
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 99999999999999999999999999988875 368999999999999999988888999999 6889987543321
Q ss_pred --ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 166 --EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 166 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
...+.+.+.+++.|++|+....+. .++.|+.++|++++. ++|+|++++...++..++++|+++||+.++|+||..
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 135678888899999998765433 346789999999996 899999999999999999999999999999999998
Q ss_pred cccchhcc-------------cCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCC-CccccchhhHHHHH
Q 002352 244 EGMTNLLR-------------TLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSL-FDVELNILGLFAYD 309 (932)
Q Consensus 244 ~~~~~~~~-------------~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~a~~~YD 309 (932)
+.+...+. .......+.+++++++.++.+.++.+++|.++|++++...+... .....+.+++++||
T Consensus 238 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YD 317 (399)
T cd06384 238 DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYD 317 (399)
T ss_pred hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHH
Confidence 76542111 01134455789999999888888889999999998633211100 00023678999999
Q ss_pred HHHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEe---
Q 002352 310 ATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINV--- 385 (932)
Q Consensus 310 av~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~--- 385 (932)
||+++|.|++++... .+.|.+|.+|.++|++++|+|++|++.|+ +|+|. ..|.++.+
T Consensus 318 av~l~a~Al~~~~~~------------------~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~~~~~~ 378 (399)
T cd06384 318 GVMLYAMALNETLAE------------------GGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLWAMTDH 378 (399)
T ss_pred HHHHHHHHHHHHHhc------------------CCCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEEEeecC
Confidence 999999999997432 12356889999999999999999999997 99974 56777444
Q ss_pred ec-CeEEEEEEcCCC
Q 002352 386 NN-GARGVGFWTPEK 399 (932)
Q Consensus 386 ~~-g~~~vG~w~~~~ 399 (932)
++ ++..||+|+..+
T Consensus 379 ~~g~~~~v~~~~~~~ 393 (399)
T cd06384 379 ETGKYEVVAHYNGIT 393 (399)
T ss_pred CCCeEEEEEEEcCCC
Confidence 44 499999999754
No 34
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=6.7e-38 Score=348.39 Aligned_cols=339 Identities=19% Similarity=0.222 Sum_probs=293.1
Q ss_pred CCCCCccEEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE
Q 002352 12 SKNTTIPVNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL 88 (932)
Q Consensus 12 ~~~~~~~i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii 88 (932)
.+...++|+||++.|++| ..|.....|+++|++++|+.||+.|++|+++++|++++|..+++.+.+|+. ++|.+||
T Consensus 19 ~~~~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li~-~~V~~ii 97 (369)
T PRK15404 19 HAALADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVI 97 (369)
T ss_pred ccccCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEE
Confidence 455677899999999999 458889999999999999999999999999999999999999999999997 5999999
Q ss_pred ccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCCh
Q 002352 89 GPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEM 167 (932)
Q Consensus 89 Gp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~ 167 (932)
||.+|..+.+++++++..++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|+++++|+.|+.||++.
T Consensus 98 G~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~ 177 (369)
T PRK15404 98 GHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGL 177 (369)
T ss_pred cCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHH
Confidence 9999999999999999999999999998898887668999999999999999999987 557999999999999999999
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~ 247 (932)
.+.+.+.+++.|.+++....++. +..|+..++.++++.++|+|++.....++..++++++++|+..+ |+.++++.
T Consensus 178 ~~~~~~~~~~~G~~v~~~~~~~~--g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~~---~i~~~~~~ 252 (369)
T PRK15404 178 ARSVKDGLKKAGANVVFFEGITA--GDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKTQ---FMGPEGVG 252 (369)
T ss_pred HHHHHHHHHHcCCEEEEEEeeCC--CCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCCe---EEecCcCC
Confidence 99999999999999998777764 45679999999999999999988888888999999999998655 77665443
Q ss_pred hhcccCChhhhhhccceEEEeecC-CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccc
Q 002352 248 NLLRTLEPSVIDSMQGVIGVRPYV-PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSF 326 (932)
Q Consensus 248 ~~~~~~~~~~~~~~~g~l~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~ 326 (932)
.. . +.....+..+|+++..++. ..++..++|.+.|+++++. +++.++..+||++++++.|++++++.
T Consensus 253 ~~-~-~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~Y~~~~~l~~Al~~aG~~-- 320 (369)
T PRK15404 253 NK-S-LSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQD--------PSGPFVWTTYAAVQSLAAGINRAGSD-- 320 (369)
T ss_pred CH-H-HHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcCC--------CCccchHHHHHHHHHHHHHHHhhCCC--
Confidence 21 1 1111235678888765533 3467889999999998754 55678889999999999999998643
Q ss_pred cccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCe
Q 002352 327 GFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGA 389 (932)
Q Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~ 389 (932)
++..|.++|++.+|+|++|++.|+ +|+.....|.|++|+ +|.
T Consensus 321 ---------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 ---------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ---------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 468999999999999999999996 888777899999998 663
No 35
>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-37 Score=348.07 Aligned_cols=394 Identities=21% Similarity=0.337 Sum_probs=333.6
Q ss_pred CCccEEEEEEEeCCC-------------ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHh
Q 002352 15 TTIPVNVGLVLDMNG-------------EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLN 80 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~-------------~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~ 80 (932)
-++.|.||.++|-.. ..|.+...|+..|+|++|+ ..++ |.|+.+.++|+|.++..|.++..+++.
T Consensus 28 ~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~ 106 (878)
T KOG1056|consen 28 IPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFVR 106 (878)
T ss_pred CCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHHH
Confidence 466799999999752 3466788999999999999 5555 899999999999999999999998887
Q ss_pred c----------------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHH
Q 002352 81 N----------------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAIT 143 (932)
Q Consensus 81 ~----------------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~ 143 (932)
. ..|.++|||..|+.+.+++.+..-++||+|+++++++.|++ .+|+||.|+.|+|..|++||+
T Consensus 107 ~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~ 186 (878)
T KOG1056|consen 107 ASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMV 186 (878)
T ss_pred hcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHH
Confidence 4 46999999999999999999999999999999999999998 689999999999999999999
Q ss_pred HHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEeChhhHH
Q 002352 144 AIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHMLPSLGS 222 (932)
Q Consensus 144 ~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~~~~~ 222 (932)
+++++|+|++|..++++++||+...++|.+..++.|+||+..+.++....+..+...++++.. .+++++|+.+.+++++
T Consensus 187 ~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r 266 (878)
T KOG1056|consen 187 DILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGEDAR 266 (878)
T ss_pred HHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcchHH
Confidence 999999999999999999999999999999999999999999888777777889999999886 8999999999999999
Q ss_pred HHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHH---------------HHHHHHh
Q 002352 223 RIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENF---------------RVRWKRK 287 (932)
Q Consensus 223 ~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f---------------~~~~~~~ 287 (932)
.++++|+.+++.+ .++||++|+|....+.... ..+...|++++....+..+.+++| .+.|.++
T Consensus 267 ~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~~-~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e~w~~~ 344 (878)
T KOG1056|consen 267 RLLKAARRANLTG-EFLWIASDGWASQNSPTEA-PEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAEFWEDK 344 (878)
T ss_pred HHHHHHHHhCCCc-ceEEEecchhhccCChhhh-hhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccchhhhhc
Confidence 9999999999865 5999999999964433221 223688999999888877777665 4579999
Q ss_pred hhccCCCCC-----------c---------cccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccC
Q 002352 288 FLQENPSLF-----------D---------VELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISR 347 (932)
Q Consensus 288 ~~~~~~~~~-----------~---------~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (932)
|.|+++... . .+...-....+|||+++|+||+.+....+.- ....|..+. ..
T Consensus 345 f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~-------~~~~C~~m~-~~ 416 (878)
T KOG1056|consen 345 FNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPG-------TSGLCSAMK-AI 416 (878)
T ss_pred ccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCC-------ccccCcCcc-cc
Confidence 999876321 0 1112234678999999999999997653211 112344433 37
Q ss_pred ChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee--c---CeEEEEEEcCCCCccccccCCCccCCCccceEeC
Q 002352 348 NGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN--N---GARGVGFWTPEKGLTLKLRSNSTTKSKLRPIIWP 421 (932)
Q Consensus 348 ~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~--~---g~~~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wp 421 (932)
+|+.|.+.+.+++|.|..|.+.|| +|| ....|+|+|++ + ....||.|++.+.+ +...+.|.
T Consensus 417 dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l------------~i~~~~w~ 483 (878)
T KOG1056|consen 417 DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSL------------NIEDLDWT 483 (878)
T ss_pred CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeecccccc------------cceeeeec
Confidence 999999999999999999999997 999 46899999999 4 28999999987654 24668899
Q ss_pred CCCCCCCCCCC
Q 002352 422 GDSTSDPKGWE 432 (932)
Q Consensus 422 g~~~~~P~~~~ 432 (932)
++...+|++.|
T Consensus 484 ~~~~~v~~S~C 494 (878)
T KOG1056|consen 484 TKPSGVPKSVC 494 (878)
T ss_pred cCCCCCccccc
Confidence 99999999998
No 36
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=1.4e-36 Score=336.18 Aligned_cols=327 Identities=22% Similarity=0.275 Sum_probs=287.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||++.|++| ..|.....|+++|++++|+++++.|++++++++|+++++..+++.+.+|+++ +|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhH
Confidence 5999999999 5688899999999999999999999999999999999999999999999998 99999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.+++.+++..+||+|+++++++.+.+..+|++||+.|++..++.++++++ ++++|++|++++.+++||....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999887777766668999999999999999999986 57899999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|++|+....++. ...|+...+.++++.++++|++.+.+.++..+++++++.|+.. .|+.++.+... . +..
T Consensus 160 ~~~g~~v~~~~~~~~--~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~-~~~ 232 (334)
T cd06342 160 KAAGGKVVAREGTTD--GATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDP-E-FIK 232 (334)
T ss_pred HHcCCEEEEEecCCC--CCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCH-H-HHH
Confidence 999999998877764 3567999999999999999999999999999999999999854 37776654311 1 111
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|++...++.+ ..+..++|.++|+++++. .++.++..+||+++++++|+++++.
T Consensus 233 ~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~al~~~~~---------- 294 (334)
T cd06342 233 IAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFGD--------PPGAYAPYAYDAANVLAEAIKKAGS---------- 294 (334)
T ss_pred HhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhCC--------CCchhHHHHHHHHHHHHHHHHHhCC----------
Confidence 12346788888877665 478899999999998876 5678999999999999999999752
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEe
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINV 385 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~ 385 (932)
.++..|.++|++.+|+|++|++.|+ +|++.+..|.|+||
T Consensus 295 -------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 2578999999999999999999996 99998999999886
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=1.2e-36 Score=334.94 Aligned_cols=319 Identities=23% Similarity=0.315 Sum_probs=268.9
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCC-cEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYK-TRLLLNTRNS-KGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g-~~l~~~~~D~-~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
+||+|+|.++ .....|+++|+++||+++++++ .++++.+.|+ ++++..++.++|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~ 76 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSAN 76 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHH
Confidence 5999999998 7789999999999999999885 4888999987 5899999999999998 6999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA 177 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 177 (932)
+++++++.++||+|+++++++.++ .++.+++.|++..++.++++++++++|++|++||++++++. ..+.+.+.+.+
T Consensus 77 av~~i~~~~~ip~is~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~-~l~~~~~~~~~ 152 (324)
T cd06368 77 TVQSICDALEIPHITTSWSPNPKP---RQFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGLL-RLQELLDALSP 152 (324)
T ss_pred HHHHHHhccCCCcEEecCCcCCCC---CcceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhHH-HHHHHHHhhcc
Confidence 999999999999999998888775 23445556777799999999999999999999997766544 45667777777
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhh
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSV 257 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~ 257 (932)
.|++|+.....+ ..+|+..+|.+|++.++|+||+.|.++++..++++|+++||+.++|+||+++......+. ...
T Consensus 153 ~g~~v~~~~~~~---~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~--~~~ 227 (324)
T cd06368 153 KGIQVTVRRLDD---DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL--ELF 227 (324)
T ss_pred CCceEEEEEecC---CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch--hhh
Confidence 899988765432 223899999999999999999999999999999999999999999999998765432221 112
Q ss_pred hhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCC
Q 002352 258 IDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNA 337 (932)
Q Consensus 258 ~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~ 337 (932)
.....++.++....++++..++|.++|+++|+..+|......|+.+++.+|||++++
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~----------------------- 284 (324)
T cd06368 228 RYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF----------------------- 284 (324)
T ss_pred hcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe-----------------------
Confidence 233456778877888899999999999999976554333336888999999999865
Q ss_pred CccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cCeEEEEEEcCCCCc
Q 002352 338 TDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NGARGVGFWTPEKGL 401 (932)
Q Consensus 338 ~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g~~~vG~w~~~~g~ 401 (932)
||+++|+ +|+|.+..++|+++. +|++.||+|++..|+
T Consensus 285 ---------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ---------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ---------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 8999997 899999999999999 999999999997765
No 38
>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=8.9e-37 Score=333.16 Aligned_cols=304 Identities=23% Similarity=0.337 Sum_probs=267.4
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|+....|+++|++++|++|++.|++|+++++|++++|..+++++.+|+.+++|.+|+||.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~ 80 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhh
Confidence 6999999999 4578899999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHH-HHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHH
Q 002352 97 NFI-IQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 97 ~~v-~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
.++ ++++++.++|+|+++++++.++. ..++|+||+.|++..++.++++++++++|+++++|+.+++||.+..+.+++.
T Consensus 81 ~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~~ 160 (312)
T cd06346 81 IAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTKA 160 (312)
T ss_pred HhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHHH
Confidence 999 99999999999999999988876 4578999999999999999999999999999999999999999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
+++.|++|+....++. .+.|+..++.++++.++|+|++.+.+.++..+++++++.|+..+ |+.++++... ..+.
T Consensus 161 ~~~~G~~vv~~~~~~~--~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~-~~~~ 234 (312)
T cd06346 161 FEALGGTVTNVVAHEE--GKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK---FLLTDGMKSD-SFLP 234 (312)
T ss_pred HHHcCCEEEEEEeeCC--CCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc---eEeeccccCh-HHHH
Confidence 9999999998877764 46779999999999999999999999999999999999998555 7777664421 1111
Q ss_pred hhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccC
Q 002352 255 PSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVS 334 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 334 (932)
......++|+++..++.+. +..++|.++|+++|+. .|+.+++.+||+++++++|
T Consensus 235 ~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~g~--------~p~~~~~~~Yd~~~~l~~A----------------- 288 (312)
T cd06346 235 ADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAYGE--------SPSAFADQSYDAAALLALA----------------- 288 (312)
T ss_pred hhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHhCC--------CCCccchhhHHHHHHHHHH-----------------
Confidence 1123467888887765544 8889999999999987 6788999999999999877
Q ss_pred CCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEE
Q 002352 335 SNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEI 382 (932)
Q Consensus 335 ~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I 382 (932)
|.|++|++.|+ +|++.. .|+-
T Consensus 289 --------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 --------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred --------------------------hCCCccceeeCCCCCccc-ceee
Confidence 67999999996 888653 5554
No 39
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=2.2e-36 Score=336.90 Aligned_cols=340 Identities=29% Similarity=0.439 Sum_probs=278.9
Q ss_pred HHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEec
Q 002352 35 ALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSF 113 (932)
Q Consensus 35 ~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~ 113 (932)
+..|+++|++++|+++.++ +.+|++++.|+++++..+...+...+..++|.+||||.|+..+.+++.+++.++||+|++
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 5789999999999998854 899999999998666666666666666669999999999999999999999999999999
Q ss_pred ccCCCCccC--CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCC-ceeee-eeecC
Q 002352 114 SATSPSLTS--IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAID-TRVPY-RSVIS 189 (932)
Q Consensus 114 ~a~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g-~~v~~-~~~~~ 189 (932)
+++++.+++ ..+|+++|+.|++..+++++++++++|+|++|++||+++++|.+....+.+.+++.+ .++.. .....
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS 161 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc
Confidence 999999987 479999999999999999999999999999999999999999999999999999965 45544 22322
Q ss_pred CCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEee
Q 002352 190 PLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRP 269 (932)
Q Consensus 190 ~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~ 269 (932)
...+..++...+.+ .+.++++||+++.+..+..++++|.+.||..++|+||.++.+................|++++++
T Consensus 162 ~~~~~~~~~~~l~~-~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (348)
T PF01094_consen 162 SDSDAEELLKKLKE-IKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFREAFQGVLGFTP 240 (348)
T ss_dssp TTSHHHHHHHHHHH-HTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHCCHTTEEEEEE
T ss_pred cccchhhhhhhhhh-ccccceeeeeecccccccccccchhhhhccccceeEEeecccccccccccccccccccceeeeee
Confidence 22223344444444 44999999999999999999999999999999999999998876542333456778999999999
Q ss_pred cCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccCCh
Q 002352 270 YVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNG 349 (932)
Q Consensus 270 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 349 (932)
..+..+.+++|.++|++.............+..+++++|||++++|+|++++........ ...+.|.+|
T Consensus 241 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~-----------~~~~~~~~g 309 (348)
T PF01094_consen 241 PPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT-----------NGRNPWQNG 309 (348)
T ss_dssp STTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT-----------SSSGTSTTH
T ss_pred ecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC-----------CCccccccH
Confidence 999999999999999986432111112236788999999999999999999976532211 111568899
Q ss_pred HHHHHHhhcceeeeeeeeEEee--CCccccccEEEEEee
Q 002352 350 PKLLQALSSTRFKGLTGDYVFV--DGQLQSSAFEIINVN 386 (932)
Q Consensus 350 ~~l~~~L~~~~f~G~tG~~~f~--~g~~~~~~~~I~n~~ 386 (932)
..+.+.|++++|+|++|++.|+ +|+|....|.|+|++
T Consensus 310 ~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 310 SQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 9999999999999999999995 688889999999985
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=4.6e-36 Score=329.91 Aligned_cols=335 Identities=16% Similarity=0.168 Sum_probs=258.7
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
+||+|++.+... ....-++.+|++++|++++..++.+.++.+|+.+||.+|+.++|+|+++ +|.|||||.+|..+.++
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-DDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCChhHHHHH
Confidence 589999987533 3345556666677888888778778889899999999999999999999 99999999999999999
Q ss_pred HHhcCCCCccEEecccCCC--------CccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHH
Q 002352 100 IQLGNKSQVPILSFSATSP--------SLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~--------~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 170 (932)
+++++..+||+|++.+... .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|++++++ ...+.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~g~-~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDYDI-RGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCchH-HHHHH
Confidence 9999999999999754221 1111 2345666666774 6889999999999999999999877644 45577
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHh-------cCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLF-------TMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.+++++.|+.+..... .. .....+.+.++.++ +.+.++||++|+++.+..++++|.+.||+..+|+||++
T Consensus 157 ~~~~~~~~g~~v~~~~~-~~-~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~ 234 (363)
T cd06381 157 FLDQLSRQGIDVLLQKV-DL-NISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLI 234 (363)
T ss_pred HHHHHHhcCceEEEEec-cc-ccchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEe
Confidence 77889888987664322 11 11123333333322 45666899999999999999999999999999999998
Q ss_pred cccchhcccCChhhhhhccceEEEeecCCCChhHH----HHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHH
Q 002352 244 EGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFE----NFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVE 319 (932)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~ 319 (932)
+.+......+ ..+.....|++|++...+..+..+ +|.+.|++.+... ++ ....+...++++||||+++
T Consensus 235 ~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~al~yDaV~~~----- 306 (363)
T cd06381 235 NEEISDTEID-ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPK-DG-YLQMLEISNLYIYDSVLLL----- 306 (363)
T ss_pred ccccccchhh-HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCC-CC-CCCChhHHHHHHHHHHHHH-----
Confidence 8887532222 245667899999999988776666 4555665433222 22 1125677899999999998
Q ss_pred HhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cC-----eEEE
Q 002352 320 KAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NG-----ARGV 392 (932)
Q Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g-----~~~v 392 (932)
+++|++++|+|+||+++|+ +|+|.+..++|+++. +| .+.|
T Consensus 307 ---------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~ 353 (363)
T cd06381 307 ---------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWL 353 (363)
T ss_pred ---------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceEEe
Confidence 4567778999999999996 999999999999999 66 8999
Q ss_pred EEEcCCCCc
Q 002352 393 GFWTPEKGL 401 (932)
Q Consensus 393 G~w~~~~g~ 401 (932)
|+|+|..|+
T Consensus 354 ~~w~~~~~~ 362 (363)
T cd06381 354 ATWNPSKGL 362 (363)
T ss_pred eeccCCCCC
Confidence 999998876
No 41
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.3e-36 Score=333.93 Aligned_cols=322 Identities=21% Similarity=0.258 Sum_probs=277.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|+....|+++|++++|++|++.|+++++.++|++++|..+++++++|+.+++|.+||||.+|..+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 80 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVV 80 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHH
Confidence 6999999998 5689999999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC----CCCCceEecccCchhHHHHHHHHHHH-----cCCeEEEEEEEcCCcCCCh
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS----IRSSYFFRGSLNDSSQVGAITAIIKA-----FGWREAVPIYVDNQYGEEM 167 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~----~~~p~~~r~~ps~~~~~~ai~~~l~~-----~~w~~v~ii~~d~~~g~~~ 167 (932)
.+++++++++++|+|+++++++.++. ..+||+||+.|++..+..++++++++ ++|++|++++.+++||...
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~~ 160 (344)
T cd06345 81 LALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKGI 160 (344)
T ss_pred HHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhHH
Confidence 99999999999999999888887763 46899999999999999999999876 8999999999999999999
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~ 247 (932)
...+++.+++.|++|+....++. +..++..++.+|++.++|+|++.+.+.++..+++++.+.|+..+ ++....+.
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~--~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~ 235 (344)
T cd06345 161 DAGIKALLPEAGLEVVSVERFSP--DTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGISVEG 235 (344)
T ss_pred HHHHHHHHHHcCCeEEEEEecCC--CCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEecCCc
Confidence 99999999999999998777654 35679999999999999999999999999999999999998544 34433222
Q ss_pred hhcccCChhhhhhccceEEEeecCC----CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcc
Q 002352 248 NLLRTLEPSVIDSMQGVIGVRPYVP----KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGI 323 (932)
Q Consensus 248 ~~~~~~~~~~~~~~~g~l~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~ 323 (932)
...... .......+|+++...+.+ .++..++|.++|+++|+. .|+.+++.+||+++++++|+++++.
T Consensus 236 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~--------~p~~~~~~~yda~~~l~~A~~~ag~ 306 (344)
T cd06345 236 NSPAFW-KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFGG--------PPNYMGASTYDSIYILAEAIERAGS 306 (344)
T ss_pred CCHHHH-HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhCC--------CCcccchHHHHHHHHHHHHHHHhcC
Confidence 111100 112234667666554443 467889999999999986 6888999999999999999999864
Q ss_pred ccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccc
Q 002352 324 TSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSS 378 (932)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~ 378 (932)
. ++..+.++|++.+|+|++|++.|+ +|++...
T Consensus 307 ~-----------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 307 T-----------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred C-----------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 3 578999999999999999999997 9996543
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=3e-36 Score=334.80 Aligned_cols=325 Identities=19% Similarity=0.249 Sum_probs=280.4
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCC----CCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSH----YKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~----~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
|||+++|++| ..|+.+..|+++|++++|++|++ .|++++++++|++++|..+++++.+|+++++|.+||||.+
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 6999999998 55888899999999999998764 6899999999999999999999999999889999999999
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcC--CeEEEEEEEcCCcCCChHHH
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFG--WREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~ 170 (932)
|..+.++++++++++||+|+++++++.+....+||+||+.|++..++.++++++++++ |+++++++.+++||....+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999999888877756689999999999999999999999887 99999999999999999999
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEE-ecccch-
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM-TEGMTN- 248 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~-t~~~~~- 248 (932)
+.+.+++.|++|+....++. ...|+..++++|++.++|+|++.+.+.++..+++++++.|+..+ ++. +.+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~--~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 235 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPP--GTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK---ALYMTVGPAFP 235 (345)
T ss_pred HHHHHHHcCCEEEEEeccCC--CccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC---EEEEecCCCcH
Confidence 99999999999998776653 44679999999999999999999999999999999999999765 333 222211
Q ss_pred -hcccCChhhhhhccceEEEeecCCC-------ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHH
Q 002352 249 -LLRTLEPSVIDSMQGVIGVRPYVPK-------TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEK 320 (932)
Q Consensus 249 -~~~~~~~~~~~~~~g~l~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~ 320 (932)
... ......+|+++...+.+. .+..++|.++|+++|+. .|+.++..+||+++++++|+++
T Consensus 236 ~~~~----~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~~~y~a~~~~~~a~~~ 303 (345)
T cd06338 236 AFVK----ALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK--------APDYHAAGAYAAGQVLQEAVER 303 (345)
T ss_pred HHHH----HHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC--------CCCcccHHHHHHHHHHHHHHHH
Confidence 111 223446888887766554 36789999999999986 5677889999999999999999
Q ss_pred hccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEe
Q 002352 321 AGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINV 385 (932)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~ 385 (932)
+++. ++..+.++|++++|+|++|++.|+ +|++. ..+.+++|
T Consensus 304 ag~~-----------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~~ 345 (345)
T cd06338 304 AGSL-----------------------DPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQW 345 (345)
T ss_pred hCCC-----------------------CHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeeeC
Confidence 8743 578999999999999999999997 78864 36666654
No 43
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.6e-35 Score=325.20 Aligned_cols=315 Identities=17% Similarity=0.218 Sum_probs=246.7
Q ss_pred EEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChh--HHHHHHHhcCCCCccEEecccCCC-CccC-CCCCceEec
Q 002352 57 LLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSM--QTNFIIQLGNKSQVPILSFSATSP-SLTS-IRSSYFFRG 131 (932)
Q Consensus 57 l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~--~a~~v~~~~~~~~iP~Is~~a~~~-~l~~-~~~p~~~r~ 131 (932)
..+...+. .||...+.++|+++.+.+|.||| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|||+|+
T Consensus 37 ~~~~~~~~-~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~ 115 (362)
T cd06378 37 VVTLLVNE-TDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQF 115 (362)
T ss_pred ceeeecCC-CCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEe
Confidence 33444444 59999999999999887899766 999997 456888888889999999987765 4555 579999999
Q ss_pred ccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCC-hhHHHHHHHHHhcCCce
Q 002352 132 SLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLAT-DDQIEKELYKLFTMQTR 210 (932)
Q Consensus 132 ~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-~~~~~~~l~~l~~~~~~ 210 (932)
.|++..|+.|+++++++|+|++|++||++++.+..+.+.+++.+...++++.....++.... +..+..+++++++.+++
T Consensus 116 ~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~ar 195 (362)
T cd06378 116 GPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQ 195 (362)
T ss_pred CCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCC
Confidence 99999999999999999999999999999887777777888777766666544433333322 23477889999999999
Q ss_pred EEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhc
Q 002352 211 VFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQ 290 (932)
Q Consensus 211 viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~ 290 (932)
+||++|+.+.+..+|++|++.||++++|+||+++......+.. ..+..+|++++.. ++|++
T Consensus 196 ViVl~~s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~---~~~~~~G~i~v~~------------~~w~~---- 256 (362)
T cd06378 196 VILLYCSKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLG---PSEFPVGLISVSY------------DGWRY---- 256 (362)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccc---cccCCcceEeecc------------ccccc----
Confidence 9999999999999999999999999999999999877553211 1134577777663 23321
Q ss_pred cCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCcccc-cc-ccCChHHHHHHhhcceeeeeeeeE
Q 002352 291 ENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEA-FG-ISRNGPKLLQALSSTRFKGLTGDY 368 (932)
Q Consensus 291 ~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~g~~l~~~L~~~~f~G~tG~~ 368 (932)
.+.+..||||+++|+|++.+........... .+|.. .. +|..|..|+++|++++|+|+ ++
T Consensus 257 -----------~~~a~~~DaV~vva~Al~~l~~~~~~~~~~~-----~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i 318 (362)
T cd06378 257 -----------SLRARVRDGVAIIATGASAMLRQHGFIPEAK-----GSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DL 318 (362)
T ss_pred -----------cHHHHHHHHHHHHHHHHHHHHhccCCCCCCC-----CCcCCCCCCCCCchHHHHHHhhcceECCC--ce
Confidence 1356789999999999998753222222211 23322 22 48899999999999999997 99
Q ss_pred Eee-CCccccccEEEEEee-c-CeEEEEEEcCCCCccccccCCCccCCCccceEeCC
Q 002352 369 VFV-DGQLQSSAFEIINVN-N-GARGVGFWTPEKGLTLKLRSNSTTKSKLRPIIWPG 422 (932)
Q Consensus 369 ~f~-~g~~~~~~~~I~n~~-~-g~~~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wpg 422 (932)
+|+ +|+|.++.|+|+|++ + |+++||+|+. .++. ++.++|||
T Consensus 319 ~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~------------~~~~~wp~ 362 (362)
T cd06378 319 SFTEDGYLVNPKLVVISLNKERVWEEVGKWEN-GSLR------------LKYPVWPR 362 (362)
T ss_pred eECCCCeEccceEEEEEecCCCCceEEEEEcC-CeEE------------EecCCCCC
Confidence 996 999999999999999 4 8999999994 3453 57789997
No 44
>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=2.9e-35 Score=326.50 Aligned_cols=333 Identities=20% Similarity=0.310 Sum_probs=276.2
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|+|| ..|+....|+++|++++|+.|++.|++|+++++|++++|..+++++++|+.+++|.+|+||.+|.++
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~ 80 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQA 80 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHH
Confidence 6999999999 5588999999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHH-HHHHHHHHHc-CCeEEEEEEEcCC-cCCChHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQV-GAITAIIKAF-GWREAVPIYVDNQ-YGEEMIPSLTD 173 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~-~ai~~~l~~~-~w~~v~ii~~d~~-~g~~~~~~l~~ 173 (932)
.++..++++.++|+|+++++++.+.. .++|+||+.+++..+. .++..+++++ +|+++++||.+++ ||.+..+.+++
T Consensus 81 ~a~~~~~~~~~ip~i~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~~ 159 (344)
T cd06348 81 FAADPIAERAGVPVVGPSNTAKGIPE-IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQK 159 (344)
T ss_pred HhhhHHHHhCCCCEEeccCCCCCcCC-CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHHH
Confidence 99999999999999999877666543 4789999987766554 4455567777 9999999997654 99999999999
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccC
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTL 253 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~ 253 (932)
.+++.|++|+....++. ++.|+..++.+|+++++|+|++.+.+.++..+++++++.|+..+ |+.++++... . +
T Consensus 160 ~~~~~g~~v~~~~~~~~--~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~-~ 232 (344)
T cd06348 160 ALRDQGLNLVTVQTFQT--GDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTP-N-V 232 (344)
T ss_pred HHHHcCCEEEEEEeeCC--CCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCH-H-H
Confidence 99999999998877764 45689999999999999999999999999999999999999754 5655544321 1 1
Q ss_pred ChhhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
.....+..+|+++..++.+ +.+..++|.++|+++|+. .++.++..+||+++++++|+++++....
T Consensus 233 ~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~yda~~~~~~A~~~a~~~~~----- 299 (344)
T cd06348 233 FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYGK--------APPQFSAQAFDAVQVVAEALKRLNQKQK----- 299 (344)
T ss_pred HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHCC--------CccHHHHHHHHHHHHHHHHHHHhcCCCc-----
Confidence 1123356788888776654 356789999999999986 6778899999999999999999975310
Q ss_pred ccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEE
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFE 381 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~ 381 (932)
..++ .....+..|.++|++.+|+|++|++.|+ +|++....|.
T Consensus 300 -----~~~~---~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 300 -----LAEL---PLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred -----cccc---hhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 0000 0012357899999999999999999997 8987766654
No 45
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=1.4e-34 Score=320.39 Aligned_cols=336 Identities=15% Similarity=0.125 Sum_probs=278.4
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|.....|+++|++++|+.||++|++|+++++|++++|.++++++.+|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~ 80 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASR 80 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhH
Confidence 6999999999 5588899999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++.+++++.++|+|++.+... ...+||+||+.+++..+...+++++.. .++++|++|+.|++||.+..+.+++.+
T Consensus 81 ~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~~ 157 (348)
T cd06355 81 KAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQL 157 (348)
T ss_pred HHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHHH
Confidence 9999999999999998653221 234789999999999999999998865 579999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|++|+....++ ....|+.+++.+|++.++|+|++...+.++..+++++++.|+..+...++........+....
T Consensus 158 ~~~G~~vv~~~~~~--~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g- 234 (348)
T cd06355 158 ESLGGEVVGEEYLP--LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELRGIG- 234 (348)
T ss_pred HHcCCeEEeeEEec--CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHhhcC-
Confidence 99999999887776 346789999999999999999999999999999999999999754444554432222211111
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
.+...|+++...+.+ +.+..++|.++|+++|+... .++.+++.+||++++++.|++++++.
T Consensus 235 --~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~------~~~~~a~~~Y~a~~~~~~Al~~ag~~--------- 297 (348)
T cd06355 235 --PENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR------VTNDPMEAAYIGVYLWKQAVEKAGSF--------- 297 (348)
T ss_pred --hHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 235678776554433 46788999999999997521 34667889999999999999998753
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeC-CccccccEEEEEee-cC-eEEE
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVD-GQLQSSAFEIINVN-NG-ARGV 392 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~-g~~~~~~~~I~n~~-~g-~~~v 392 (932)
++++|.++|++++|+|+.|.+.|+. ++.....+.|.+++ +| ++.|
T Consensus 298 --------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 --------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred --------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 5789999999999999999999963 33344566777776 55 4443
No 46
>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=8.5e-35 Score=322.45 Aligned_cols=322 Identities=18% Similarity=0.210 Sum_probs=275.5
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCC---CCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNS---HYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS 93 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~---~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s 93 (932)
|||++.|++| ..|.....|+++|++++|+.|| +.|++|+++++|+++++..+++++++|+.+++|.+|+||.+|
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 6999999999 5688899999999999999985 579999999999999999999999999999899999999999
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc------CCeEEEEEEEcCCcCCCh
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF------GWREAVPIYVDNQYGEEM 167 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~v~ii~~d~~~g~~~ 167 (932)
..+.++++++++.++|+|+++++++.++...+||+||+.|++..++.++++++.++ +|+++++|+.+++||...
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 99999999999999999999888888876668999999999999999999999876 469999999999999999
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~ 247 (932)
.+.+++.+++.|++|+....++.. +.|+..++.+|++.++|+|++.+.+.++..+++++++.|+..+ .++....+..
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 237 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN--ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGGAE 237 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC--CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCCcC
Confidence 999999999999999988777644 5689999999999999999999999999999999999999654 2222222111
Q ss_pred hhcccCChhhhhhccceEEEeecCCC-ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccc
Q 002352 248 NLLRTLEPSVIDSMQGVIGVRPYVPK-TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSF 326 (932)
Q Consensus 248 ~~~~~~~~~~~~~~~g~l~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~ 326 (932)
.. . +.....+..+|++...++.+. .+..++|.++|+++|+. .++.++..+||+++++++|++++++.
T Consensus 238 ~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~--------~~~~~~~~~Y~a~~~l~~A~~~ag~~-- 305 (347)
T cd06340 238 DP-S-FVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFGV--------DLSGNSARAYTAVLVIADALERAGSA-- 305 (347)
T ss_pred cH-H-HHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhCC--------CCChHHHHHHHHHHHHHHHHHHhcCC--
Confidence 11 1 111233567899888877665 68899999999999976 67889999999999999999998753
Q ss_pred cccccccCCCCCccccccccCChHHHH--HHhhcceee---eeeeeEEee-CCcccc
Q 002352 327 GFDKTNVSSNATDLEAFGISRNGPKLL--QALSSTRFK---GLTGDYVFV-DGQLQS 377 (932)
Q Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~g~~l~--~~L~~~~f~---G~tG~~~f~-~g~~~~ 377 (932)
++..+. .+|++..+. +++|++.|+ +|+..+
T Consensus 306 ---------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~ 341 (347)
T cd06340 306 ---------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTN 341 (347)
T ss_pred ---------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCccc
Confidence 467788 588877765 578999997 999654
No 47
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=3.7e-34 Score=317.36 Aligned_cols=340 Identities=15% Similarity=0.130 Sum_probs=276.5
Q ss_pred EEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 19 VNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 19 i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|+||++.|++| ..|.....|+++|++++|++||++|++|+++++|++++|..++.++.+|+.+++|.+||||.+|..
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~ 80 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSAT 80 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHH
Confidence 69999999999 568889999999999999999999999999999999999999999999999889999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
+.++.+++++.++|+|...... .....+|+||+.+++..++.++++++....-+++++|+.|++||......+++.+
T Consensus 81 ~~A~~~~~~~~~~~~i~~~~~~---~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~~ 157 (374)
T TIGR03669 81 REAIRPIIDRNEQLYFYTNQYE---GGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVIA 157 (374)
T ss_pred HHHHHHHHHhcCceEEcCcccc---cccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHHH
Confidence 9999999999999999643111 1123689999999999999999999865333689999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|++++....++ .+..||..++.+|++.++|+|++...+.+...+++++++.|+..+ ++.............
T Consensus 158 ~~~G~~vv~~~~~~--~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~~- 231 (374)
T TIGR03669 158 KENGAEVVGEEFIP--LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEHKR- 231 (374)
T ss_pred HHcCCeEEeEEecC--CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhhh-
Confidence 99999999887776 356789999999999999999999988889999999999999765 232222221111000
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
.......|+++..++.+ +.+..++|.++|+++|+.. | .++.+++.+||+++++++|++++++.
T Consensus 232 ~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~-p-----~~~~~a~~~Yda~~~l~~Ai~~AGs~--------- 296 (374)
T TIGR03669 232 FEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDA-P-----YINQEAENNYFSVYMYKQAVEEAGTT--------- 296 (374)
T ss_pred cCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCC-C-----CCChHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 01134567776666554 4678899999999999752 1 34677889999999999999999854
Q ss_pred CCCCCccccccccCChHHHHHHhhc-ceeeeeeeeEEee-CCccccccEEEEEee-cC-eEEEEEEc
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSS-TRFKGLTGDYVFV-DGQLQSSAFEIINVN-NG-ARGVGFWT 396 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~-~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g-~~~vG~w~ 396 (932)
++++|.++|++ .+|+|+.|++.|+ +++.....+.|.++. +| ++.+..|.
T Consensus 297 --------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 --------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred --------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 57899999997 5799999999997 444344556677777 44 55554554
No 48
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.3e-34 Score=317.23 Aligned_cols=319 Identities=17% Similarity=0.185 Sum_probs=271.7
Q ss_pred EEEEEEeCCC--ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNG--EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~--~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
+||++.|++| ..|.....|+++|++++|+.|++.|++|+++++|++++|..+++++.+|+.+++|.+|+|+.+|..+.
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~ 80 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATL 80 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHH
Confidence 4899999998 56788899999999999999999999999999999999999999999999988999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcC-CeEEEEEEEcCC-cCCChHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFG-WREAVPIYVDNQ-YGEEMIPSLTDAL 175 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~v~ii~~d~~-~g~~~~~~l~~~l 175 (932)
++++++++.++|+|+++++++.++ ..+||+||+.+++..++.++++++++.+ |++|++|+.++. ||+...+.+.+.+
T Consensus 81 a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~~ 159 (332)
T cd06344 81 AALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSAL 159 (332)
T ss_pred HHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHHH
Confidence 999999999999999988887777 4589999999999999999999998876 999999998876 9999999999999
Q ss_pred Hh-CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 176 QA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 176 ~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
++ .|.++.....+ ..++.++..++.++++.++++|++.+.......+++++++.|... .++.++.+... +...
T Consensus 160 ~~~~g~~v~~~~~~--~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~---~i~~~~~~~~~-~~~~ 233 (332)
T cd06344 160 LERGGGIVVTPCDL--SSPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGRL---TLLGGDSLYTP-DTLL 233 (332)
T ss_pred HHhcCCeeeeeccC--CCCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCCc---eEEecccccCH-HHHH
Confidence 99 58888765443 334567888999999999999999999888889999999877532 25555544321 1111
Q ss_pred hhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccC
Q 002352 255 PSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVS 334 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 334 (932)
......+|+++..++.++.+..++|.++|+++|+. +++.+++.+||+++++++|++++++.
T Consensus 234 -~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~a~~~Yda~~~l~~A~~~ag~~---------- 294 (332)
T cd06344 234 -DGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWGG--------DVSWRTATAYDATKALIAALSQGPTR---------- 294 (332)
T ss_pred -hchhhhcCeEEEEecccccccchHHHHHHHHHhcC--------CchHHHHhHHHHHHHHHHHHHhCCCh----------
Confidence 12345789999888888777889999999999986 67889999999999999999998643
Q ss_pred CCCCccccccccCChHHHH-HHhhcceeeeeeeeEEee-CCcccc
Q 002352 335 SNATDLEAFGISRNGPKLL-QALSSTRFKGLTGDYVFV-DGQLQS 377 (932)
Q Consensus 335 ~~~~~~~~~~~~~~g~~l~-~~L~~~~f~G~tG~~~f~-~g~~~~ 377 (932)
++..+. .++++..|+|+.|++.|+ +|++..
T Consensus 295 -------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 295 -------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred -------------hhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 234444 677888899999999996 898654
No 49
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=2.7e-34 Score=317.92 Aligned_cols=312 Identities=17% Similarity=0.180 Sum_probs=272.5
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||++.|++| ..|.....|+++|++++|+.||+.|++|+++++|++++|..+++.+++|+++ +|.+||||.+|..+
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 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccchHHH
Confidence 5999999999 5688899999999999999999999999999999999999999999999998 99999999999999
Q ss_pred HHH-------HHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcC-CeEEEEEEEcCCcCCCh
Q 002352 97 NFI-------IQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFG-WREAVPIYVDNQYGEEM 167 (932)
Q Consensus 97 ~~v-------~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~ 167 (932)
.++ +++++.+++|+|+++++++.+.. ..+||+||+.|++..++.+++++++..+ |+++++++.|+.||++.
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 999 78889999999999888888876 4579999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHHh--CCceeeeeeecCCCCCh-hHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 168 IPSLTDALQA--IDTRVPYRSVISPLATD-DQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 168 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~-~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
.+.+.+.+++ .|++|+....++. .. +|+..++.++++.++|+|++...+.++..+++++++.|+..+ ++...
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~--~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 234 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPL--GKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYTPY 234 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCC--CCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEecc
Confidence 9999999999 9999988766653 34 679999999999999999999888889999999999999655 55544
Q ss_pred ccchhcccCChhhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhc
Q 002352 245 GMTNLLRTLEPSVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAG 322 (932)
Q Consensus 245 ~~~~~~~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~ 322 (932)
..... +.....+..+|++...++.+ +++..++|.++|+++++. .++.++..+||++++++.|+++++
T Consensus 235 ~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~y~~~~~~~~a~~~ag 303 (342)
T cd06329 235 LDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYGR--------VPDYYEGQAYNGIQMLADAIEKAG 303 (342)
T ss_pred ccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhCC--------CCCchHHHHHHHHHHHHHHHHHhC
Confidence 33221 11123345678887776654 367899999999999875 677889999999999999999976
Q ss_pred cccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee
Q 002352 323 ITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV 371 (932)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~ 371 (932)
+. ++..|.++|++++|+|+.|++.|+
T Consensus 304 ~~-----------------------~~~~v~~al~~~~~~~~~g~~~~~ 329 (342)
T cd06329 304 ST-----------------------DPEAVAKALEGMEVDTPVGPVTMR 329 (342)
T ss_pred CC-----------------------CHHHHHHHHhCCccccCCCCeEEc
Confidence 43 578999999999999999999996
No 50
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=3.9e-34 Score=317.54 Aligned_cols=334 Identities=23% Similarity=0.287 Sum_probs=280.2
Q ss_pred CccEEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 16 TIPVNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 16 ~~~i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
.++|+||++.|++| .+|+....|+++|+++||+.|+++|.+|+++++|+++||..+++.+.+|+.+++|.+|+|+.+
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~ 87 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPTT 87 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEecc
Confidence 45799999999999 679999999999999999999999989999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCC-CCceEecccCchhHHHHHHHHHH-HcCCeEEEEEEEcCCcCCChHHH
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIR-SSYFFRGSLNDSSQVGAITAIIK-AFGWREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~-~p~~~r~~ps~~~~~~ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~~ 170 (932)
|..+.++.+++++.++|+|+++++++.+.... .+++||+.|++..|+.++++++. ..+.++|++|+.++.||++..+.
T Consensus 88 S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~ 167 (366)
T COG0683 88 SGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLADA 167 (366)
T ss_pred CcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHH
Confidence 99999999999999999999999999877644 45699999999999999999985 45556999999999999999999
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccch--
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTN-- 248 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~-- 248 (932)
+++.+++.|++++....+.+. +.++..++.++++.++|+|++.+..+++..+++++++.|+... .+..++...
T Consensus 168 ~~~~l~~~G~~~~~~~~~~~~--~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~---~~~~~~~~~~~ 242 (366)
T COG0683 168 FKAALKALGGEVVVEEVYAPG--DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK---LIGGDGAGTAE 242 (366)
T ss_pred HHHHHHhCCCeEEEEEeeCCC--CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc---cccccccCchh
Confidence 999999999986554555433 3349999999999999999999999999999999999999765 233332221
Q ss_pred hcccCChhhhhhccc-eEEEee-cCC-CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccc
Q 002352 249 LLRTLEPSVIDSMQG-VIGVRP-YVP-KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITS 325 (932)
Q Consensus 249 ~~~~~~~~~~~~~~g-~l~~~~-~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~ 325 (932)
...... ....+ .+.... +.+ ..|..+.|.++|+++++.. ..++.++..+||++++++.|+++++..
T Consensus 243 ~~~~~~----~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~y~a~~~~~~ai~~a~~~- 311 (366)
T COG0683 243 FEEIAG----AGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDP------AAPSYFAAAAYDAVKLLAKAIEKAGKS- 311 (366)
T ss_pred hhhhcc----cCccccEEEEecccccccCcchHHHHHHHHHHhCCC------CCcccchHHHHHHHHHHHHHHHHHhcC-
Confidence 111111 11222 333332 222 3667888999999999821 166789999999999999999998731
Q ss_pred ccccccccCCCCCccccccccCChHHHHHHhhcce-eeeeeeeEEee-CCccccccEEEEEee
Q 002352 326 FGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTR-FKGLTGDYVFV-DGQLQSSAFEIINVN 386 (932)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~-f~G~tG~~~f~-~g~~~~~~~~I~n~~ 386 (932)
.+.+++.++|+... +++.+|.+.|+ +|++....+.|+.|.
T Consensus 312 ---------------------~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~ 353 (366)
T COG0683 312 ---------------------SDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQ 353 (366)
T ss_pred ---------------------CCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEE
Confidence 13688999999887 79999999997 799888999999988
No 51
>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=1.9e-33 Score=312.63 Aligned_cols=330 Identities=14% Similarity=0.118 Sum_probs=269.3
Q ss_pred EEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 19 VNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 19 i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|+||++.|++| ..|..+..|+++|++++|++||++|++|+++++|++++|..++.++++|+++++|.+|+||.+|..
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~ 80 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSAS 80 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHH
Confidence 68999999998 567788999999999999999999999999999999999999999999999889999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCeEEEEEEEcCCcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
+.++.++++..++|++.+.... .....||+||+.+++..++.++++++.. .|.+++++++.|++||.+..+.+++.
T Consensus 81 ~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~~ 157 (359)
T TIGR03407 81 RKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKAY 157 (359)
T ss_pred HHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHHH
Confidence 9999999999999999754211 1245789999999999999999998866 59999999999999999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
+++.|++|+....++ .+..|+..++.+|++.++|+|++...+..+..+++++++.|+..+...++.+......+..+.
T Consensus 158 ~~~~G~~vv~~~~~~--~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g 235 (359)
T TIGR03407 158 LKSLGGTVVGEDYTP--LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIRGIG 235 (359)
T ss_pred HHHcCCEEEeeEEec--CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHhhcC
Confidence 999999998877765 456789999999999999999988888888899999999999654333444332222221111
Q ss_pred hhhhhhccceEEEeecC--CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccc
Q 002352 255 PSVIDSMQGVIGVRPYV--PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTN 332 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~ 332 (932)
.+.++|+++...+. ...+..++|.++|+++|+... .++.+++.+||++++++.|++++++.
T Consensus 236 ---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~~A~~~ag~~-------- 298 (359)
T TIGR03407 236 ---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDR------VTNDPMEAAYLGVYLWKAAVEKAGSF-------- 298 (359)
T ss_pred ---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 23568876654332 346788999999999987521 23456678999999999999998743
Q ss_pred cCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeC-CccccccEEEEEe
Q 002352 333 VSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVD-GQLQSSAFEIINV 385 (932)
Q Consensus 333 ~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~-g~~~~~~~~I~n~ 385 (932)
++..+.++|++++|+++.|++.|+. ++.....+.+.++
T Consensus 299 ---------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 299 ---------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred ---------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 5789999999999999999999962 3323334444444
No 52
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=8.2e-34 Score=313.19 Aligned_cols=318 Identities=16% Similarity=0.169 Sum_probs=270.1
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++| ..|.....|+++|++++|+.||+.|++++++++|+++||..+++++++|+.+++|.+|+||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASR 80 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHH
Confidence 5999999998 4588899999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.++++++++.++|+|++++... ....||+||+.|++..+..++++++...+|++|++|+.|+.||+...+.+++.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~~ 157 (333)
T cd06331 81 KAVLPVVERGRGLLFYPTQYEG---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALLE 157 (333)
T ss_pred HHHHHHHHhcCceEEeCCCCCC---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHHH
Confidence 9999999999999999754322 1236899999999999999999998666699999999999999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc-hhcccCCh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT-NLLRTLEP 255 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~-~~~~~~~~ 255 (932)
+.|.+|+....++. +..|+..++.++++.++|+|++.+.+.++..+++++.+.|+..... ++.+.... ..+...
T Consensus 158 ~~G~~vv~~~~~~~--~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~~~~~~-- 232 (333)
T cd06331 158 ELGGEVVGEEYLPL--GTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDENELAAI-- 232 (333)
T ss_pred HcCCEEEEEEEecC--CcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchhhhhcc--
Confidence 99999998877764 4677999999999999999999999999999999999999964333 33333222 211111
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
.....+|+++..++.+ +.+..++|.++|+++++... .++.+++.+||++++++.|++++++.
T Consensus 233 -~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~A~~~ag~~--------- 296 (333)
T cd06331 233 -GAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDA------VINSPAEAAYEAVYLWAAAVEKAGST--------- 296 (333)
T ss_pred -ChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCc------CCCchhHHHHHHHHHHHHHHHHcCCC---------
Confidence 1235688888877654 36788999999999887520 36788999999999999999997642
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCcc
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQL 375 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~ 375 (932)
++..|.++|++++|+|++|.+.|+ ++++
T Consensus 297 --------------~~~~l~~al~~~~~~~~~G~i~f~~~~~~ 325 (333)
T cd06331 297 --------------DPEAVRAALEGVSFDAPQGPVRIDPDNHH 325 (333)
T ss_pred --------------CHHHHHHHhhcCcccCCCCceEecCCCCc
Confidence 578999999999999999999996 4544
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=2.4e-33 Score=313.43 Aligned_cols=339 Identities=14% Similarity=0.197 Sum_probs=284.0
Q ss_pred CCccEEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccC
Q 002352 15 TTIPVNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPE 91 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~ 91 (932)
++++|+||+++|++| ..|.....++++|++++|+.|++.|++|+++++|+++++..+++.+.+|+.+++|.+||||.
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 467899999999999 45888999999999999999999999999999999999999999999999988999999999
Q ss_pred ChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHH
Q 002352 92 KSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIP 169 (932)
Q Consensus 92 ~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~ 169 (932)
+|..+.+++++++..++|+|++.++++.+++ ..+||+||+.|++..++.++++++ ++++|++|++|+.++.||.+..+
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 378999999999999999999975 67899999999999999999999
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchh
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNL 249 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~ 249 (932)
.+++.+++.|++++....++. ...|+..++.++++.++|+|++.+.+.++..+++++++.|+..+ ++.++++...
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~~--~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~ 237 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYEV--TEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSASV 237 (362)
T ss_pred HHHHHHHHcCCeEEEEeeecC--CCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccccc
Confidence 999999999999998877764 45679999999999999999999999999999999999998754 5666544322
Q ss_pred cccCChhhhhhccceEEEeecC-------CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhc
Q 002352 250 LRTLEPSVIDSMQGVIGVRPYV-------PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAG 322 (932)
Q Consensus 250 ~~~~~~~~~~~~~g~l~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~ 322 (932)
...+.....+..+|+++...+. ..++..++|.+.|+++++... .++.++..+||++.++++|+++++
T Consensus 238 ~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~~a~~~ag 311 (362)
T cd06343 238 ASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGD------PPDTYAVYGYAAAETLVKVLKQAG 311 (362)
T ss_pred HHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCC------CCchhhhHHHHHHHHHHHHHHHhC
Confidence 1101111224578887765442 246788999999999887521 378899999999999999999986
Q ss_pred cccccccccccCCCCCccccccccCChHHHHHHhhccee---ee-eeeeEEee-CCccccccEEEEEee
Q 002352 323 ITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRF---KG-LTGDYVFV-DGQLQSSAFEIINVN 386 (932)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f---~G-~tG~~~f~-~g~~~~~~~~I~n~~ 386 (932)
.. .+++.|.++|+++++ .+ ..|++.|+ ++++....+.|+.++
T Consensus 312 ~~----------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 358 (362)
T cd06343 312 DD----------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFE 358 (362)
T ss_pred CC----------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEe
Confidence 32 257899999999987 32 44588886 444445567777766
No 54
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=1.2e-33 Score=314.58 Aligned_cols=306 Identities=27% Similarity=0.434 Sum_probs=262.5
Q ss_pred EEEEEEeCCCc-------------cchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhc----
Q 002352 20 NVGLVLDMNGE-------------DGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNN---- 81 (932)
Q Consensus 20 ~IG~i~~~s~~-------------~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~---- 81 (932)
.||+++|+++. .|.....++.+|++++|++++++ |++|+++++|+++++.+|+.++.+|+.+
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 37899998872 24567789999999999997665 8999999999999999999999999998
Q ss_pred ---------CCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCC
Q 002352 82 ---------VLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGW 151 (932)
Q Consensus 82 ---------~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w 151 (932)
++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|
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 79999999999999999999999999999999999998865 56899999999999999999999999999
Q ss_pred eEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 152 REAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 152 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
++|++++.+++||....+.+.+.+++.|++|+....++......|+..++++|++.++|+|++.+.+.++..+++++++.
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 99999999999999999999999999999999988886544467899999999999999999999999999999999999
Q ss_pred CccccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHH
Q 002352 232 GLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDAT 311 (932)
Q Consensus 232 g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 311 (932)
|+ .+. .|+.+++|....... ....+.++|++++.++.+.....++|.+.+++ +++++|||+
T Consensus 241 g~-~~~-~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------------~~~~~YDav 301 (348)
T cd06350 241 GM-TGK-YWIISTDWDTSTCLL-LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------------YAYNVYDAV 301 (348)
T ss_pred CC-CCe-EEEEEccccCccccc-cCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------------HHHHHHhhe
Confidence 99 444 455665655321111 12335689999999888765556667776664 678999999
Q ss_pred HHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-c--
Q 002352 312 RALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-N-- 387 (932)
Q Consensus 312 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~-- 387 (932)
++ .+.|+ +|++. ..|.|++++ .
T Consensus 302 ~~-----------------------------------------------------~v~f~~~gd~~-~~~~i~~~~~~~~ 327 (348)
T cd06350 302 YA-----------------------------------------------------EVKFDENGDRL-ASYDIINWQIFPG 327 (348)
T ss_pred eE-----------------------------------------------------EEEecCCCCcc-cceeEEEEEEcCC
Confidence 86 67886 79964 678999887 2
Q ss_pred --CeEEEEEEcCC
Q 002352 388 --GARGVGFWTPE 398 (932)
Q Consensus 388 --g~~~vG~w~~~ 398 (932)
+++.||.|++.
T Consensus 328 ~~~~~~vg~~~~~ 340 (348)
T cd06350 328 GGGFVKVGFWDPQ 340 (348)
T ss_pred cEEEEEEEEEcCC
Confidence 39999999974
No 55
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3e-33 Score=309.64 Aligned_cols=320 Identities=23% Similarity=0.306 Sum_probs=274.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||++.|++| ..|.....|+++|++++|++|++.|++|+++++|+++++..+++.+++|+.+++|.+||||.++..+
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~ 80 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGAT 80 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhH
Confidence 6999999999 5577889999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcC-CcCCChHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDN-QYGEEMIPSLTDA 174 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 174 (932)
.+++++++..+||+|+++++.+.+++. .+|+||+.+++..++.++++++ +.++|++|++|+.++ +|+....+.+++.
T Consensus 81 ~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~~ 159 (334)
T cd06347 81 LAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKEA 159 (334)
T ss_pred HHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHHH
Confidence 999999999999999998887776543 4599999999999999999997 667999999999875 8999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
+++.|++++....++.. ..++...+.++++.++++|++.+.......+++++++.|+..+ |+.++.|..... .
T Consensus 160 ~~~~g~~v~~~~~~~~~--~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~---i~~~~~~~~~~~--~ 232 (334)
T cd06347 160 FKKLGGEIVAEETFNAG--DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKVP---ILGGDGWDSPKL--E 232 (334)
T ss_pred HHHcCCEEEEEEEecCC--CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCCc---EEecccccCHHH--H
Confidence 99999999887776533 4569999999999999999999999999999999999998543 777776653211 1
Q ss_pred hhhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccc
Q 002352 255 PSVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTN 332 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~ 332 (932)
.......+|++...++.+. .+..++|.++|+++++. .++.++..+||++++++.|+++++..
T Consensus 233 ~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~Al~~ag~~-------- 296 (334)
T cd06347 233 EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYGK--------EPDAFAALGYDAYYLLADAIERAGST-------- 296 (334)
T ss_pred HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC--------CcchhHHHHHHHHHHHHHHHHHhCCC--------
Confidence 1223567888887776654 67899999999998874 67888999999999999999987632
Q ss_pred cCCCCCccccccccCChHHHHHHhhcc-eeeeeeeeEEee-CCccccc
Q 002352 333 VSSNATDLEAFGISRNGPKLLQALSST-RFKGLTGDYVFV-DGQLQSS 378 (932)
Q Consensus 333 ~~~~~~~~~~~~~~~~g~~l~~~L~~~-~f~G~tG~~~f~-~g~~~~~ 378 (932)
++..+.++|.+. .|+|++|++.|+ +|+....
T Consensus 297 ---------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 297 ---------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred ---------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 468899998765 699999999997 7886543
No 56
>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=1.1e-33 Score=312.44 Aligned_cols=318 Identities=18% Similarity=0.188 Sum_probs=273.7
Q ss_pred EEEEEEeCCCcc----chhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNGED----GKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~~~----g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
+||+++|++|.. |.....|+++|++++| |++.|++++++++|++++|..+++++.+|+.+++|.+||||.+|..
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~ 78 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAV 78 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHH
Confidence 599999999855 6788999999999999 8899999999999999999999999999999889999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCC-CCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSI-RSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
+.++++++++.++|+|+++++++.++.. .+||+||+.+++..++.++++++...+++++++++.++.||+.....+++.
T Consensus 79 ~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~~ 158 (334)
T cd06327 79 ALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARKV 158 (334)
T ss_pred HHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHHH
Confidence 9999999999999999999888888764 479999999999999999999987778999999999999999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCC
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLE 254 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~ 254 (932)
+++.|++|+....++. ...|+..++.++++.++|+|++.+.+.++..+++++++.|+.. ...++....+.......
T Consensus 159 ~~~~G~~vv~~~~~~~--~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~~- 234 (334)
T cd06327 159 VKANGGKVVGSVRHPL--GTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDVHSL- 234 (334)
T ss_pred HHhcCCEEcCcccCCC--CCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHHHhh-
Confidence 9999999998877764 4567999999999999999999999999999999999999862 22233332222211111
Q ss_pred hhhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccc
Q 002352 255 PSVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTN 332 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~ 332 (932)
..+..+|+++..++.++ .+..++|.++|+++|+. .++.+++.+||+++++++|++++++.
T Consensus 235 --~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~Y~~~~~~~~A~~~ag~~-------- 296 (334)
T cd06327 235 --GLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK--------MPSMVQAGAYSAVLHYLKAVEAAGTD-------- 296 (334)
T ss_pred --chhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCc--------CCCcHHHHHHHHHHHHHHHHHHHCCC--------
Confidence 22457888888776543 77899999999999976 57788999999999999999999864
Q ss_pred cCCCCCccccccccCChHHHHHHhhcce-eeeeeeeEEee--CCccc
Q 002352 333 VSSNATDLEAFGISRNGPKLLQALSSTR-FKGLTGDYVFV--DGQLQ 376 (932)
Q Consensus 333 ~~~~~~~~~~~~~~~~g~~l~~~L~~~~-f~G~tG~~~f~--~g~~~ 376 (932)
++.++.++|++++ ++++.|.+.|+ +|+..
T Consensus 297 ---------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 ---------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred ---------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 4577999999985 68899999995 66644
No 57
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6.4e-33 Score=307.19 Aligned_cols=328 Identities=18% Similarity=0.250 Sum_probs=275.0
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|.....|+++|++++|++|++.|++|+++++|+++++..+.+.+.+|+++++|.+|+||.+|..+
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~ 80 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVS 80 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhH
Confidence 6999999999 5588999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++++++++.++|+|+++++.+.+++ ..+|+||+.|++..+..++++++ ++++|+++++++.+++||....+.+++.+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~ 159 (340)
T cd06349 81 MAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKAA 159 (340)
T ss_pred HHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHHH
Confidence 99999999999999999887777654 36999999999999999999996 67899999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|++|+....+++. ..|+..++.+++++++|+|++.+.+.++..+++++++.|+..+ ++.+...... ....
T Consensus 160 ~~~g~~v~~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~~~- 232 (340)
T cd06349 160 EKLGGQVVAHEEYVPG--EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSP-KFIE- 232 (340)
T ss_pred HHcCCEEEEEEEeCCC--CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCH-HHHH-
Confidence 9999999987776543 5679999999999999999999999999999999999999765 5544333211 1111
Q ss_pred hhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|++...++.++ .+..++|.++|+++|+. .++.++..+||++.++++|++++++.
T Consensus 233 ~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~~~y~~~~~~~~a~~~ag~~--------- 295 (340)
T cd06349 233 LGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGA--------QPDAFAAQAYDAVGILAAAVRRAGTD--------- 295 (340)
T ss_pred HhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC--------CcchhhhhHHHHHHHHHHHHHHhCCC---------
Confidence 122457888887777654 57789999999999875 67889999999999999999998753
Q ss_pred CCCCCccccccccCChHHHHHH-hhcceeeeeeeeEEee-C-CccccccEEEEEeec
Q 002352 334 SSNATDLEAFGISRNGPKLLQA-LSSTRFKGLTGDYVFV-D-GQLQSSAFEIINVNN 387 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~-L~~~~f~G~tG~~~f~-~-g~~~~~~~~I~n~~~ 387 (932)
+...+... +.+..+.|++|++.|+ + |+.. ..|.++.+++
T Consensus 296 --------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~ 337 (340)
T cd06349 296 --------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRN 337 (340)
T ss_pred --------------CHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeC
Confidence 12223333 2455688999999996 4 5544 4677766553
No 58
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=2.7e-33 Score=311.10 Aligned_cols=320 Identities=20% Similarity=0.187 Sum_probs=270.6
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||++.|++| ..|.....|+++|++++|+++++.|++++++++|+++++..+++++++|+.+++|.+||||.++..+
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~ 80 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVA 80 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHH
Confidence 6999999999 4478899999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCcCCChHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQYGEEMIPSLTD 173 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~~~~~l~~ 173 (932)
.+++++++..++|+|++.++++.+.+ ..++|+||+.|++..+..+++++++.+ +|++|++|+.+++||....+.+++
T Consensus 81 ~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~ 160 (346)
T cd06330 81 LAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFKA 160 (346)
T ss_pred HHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHHH
Confidence 99999999999999999888777765 568999999999999999999999877 499999999999999999999999
Q ss_pred HHHhCC--ceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcc
Q 002352 174 ALQAID--TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLR 251 (932)
Q Consensus 174 ~l~~~g--~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~ 251 (932)
.+++.| ++++....++ ...+|+..++.+|++.++|+|++.+.+.+...+++++++.|+.. +..|+.+.+....+.
T Consensus 161 ~~~~~g~~~~~v~~~~~~--~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~ 237 (346)
T cd06330 161 ALKRLRPDVEVVSEQWPK--LGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPELA 237 (346)
T ss_pred HHHHhCCCCeecccccCC--CCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchhhhh
Confidence 999985 5555444333 34678999999999999999999999999999999999999864 556777765443211
Q ss_pred cCChhhhhhccceEEEee--cCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccc
Q 002352 252 TLEPSVIDSMQGVIGVRP--YVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFG 327 (932)
Q Consensus 252 ~~~~~~~~~~~g~l~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~ 327 (932)
....+..+|++.... +.. +++..++|.++|+++|+. .++.++..+||+++++++|+++++....
T Consensus 238 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~y~a~~~l~~a~~~a~~~~~- 305 (346)
T cd06330 238 ---PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYGD--------YPTYGAYGAYQAVMALAAAVEKAGATDG- 305 (346)
T ss_pred ---hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHCC--------CCChHHHHHHHHHHHHHHHHHHhcCCCC-
Confidence 112245677765442 222 478899999999999975 6778899999999999999999875420
Q ss_pred ccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeC
Q 002352 328 FDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVD 372 (932)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~ 372 (932)
.. ..+.|.++|++++|+|+.|++.|+.
T Consensus 306 -----------------~~-~~~~v~~al~~~~~~~~~G~~~f~~ 332 (346)
T cd06330 306 -----------------GA-PPEQIAAALEGLSFETPGGPITMRA 332 (346)
T ss_pred -----------------CC-cHHHHHHHHcCCCccCCCCceeeec
Confidence 01 1167999999999999999999963
No 59
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.4e-33 Score=310.78 Aligned_cols=323 Identities=20% Similarity=0.213 Sum_probs=273.2
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCC--C--cEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHY--K--TRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~--g--~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
+||++.|++| ..|.....++++|++++|++||++ | ++|+++++|++++|..+.+.+.+|+.+++|.+|+||.+
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 6999999999 457889999999999999999887 6 48999999999999999999999999889999999999
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHH
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLT 172 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 172 (932)
+..+.. ++++++.++|+|++.++++.+....++|+||+.|++..++.+++++++..+|++|++|+.|++||+...+.++
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 999988 9999999999999999888887556799999999999999999999988999999999999999999999999
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHhCCccccceEEEEecccchhcc
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKANEIGLMNKGCVWIMTEGMTNLLR 251 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~ 251 (932)
+.+++.|++|+....++. +..|++.++.+|++.++|+|++.+... ++..+++++++.|+..+ ++........ .
T Consensus 160 ~~l~~~G~~vv~~~~~~~--~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~ 233 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDP--GTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG---FLSCTGDKYD-E 233 (347)
T ss_pred HHHHHcCCEEeeecccCC--CCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc---EEeccCCCch-H
Confidence 999999999998877764 467799999999999999999999988 99999999999998765 3332222110 1
Q ss_pred cCChhhhhhccceEEEeecCC----CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccc
Q 002352 252 TLEPSVIDSMQGVIGVRPYVP----KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFG 327 (932)
Q Consensus 252 ~~~~~~~~~~~g~l~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~ 327 (932)
.......+.++|+++..++.+ .++..++|.++|+++|+. .++.++..+||+++++++|++++++.
T Consensus 234 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~~~y~~~~~~~~Al~~ag~~--- 302 (347)
T cd06336 234 LLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--------PPNSEAAVSYDAVYILKAAMEAAGSV--- 302 (347)
T ss_pred HHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--------CCcHHHHHHHHHHHHHHHHHHhcCCC---
Confidence 011112346789988887655 477889999999999976 57889999999999999999998754
Q ss_pred ccccccCCCCCccccccccCChHHHHHHh-h-------cceeeeeeeeEEee-CCccccccE
Q 002352 328 FDKTNVSSNATDLEAFGISRNGPKLLQAL-S-------STRFKGLTGDYVFV-DGQLQSSAF 380 (932)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~L-~-------~~~f~G~tG~~~f~-~g~~~~~~~ 380 (932)
++..+.+++ + ...|+++.|.+.|+ +||...+.+
T Consensus 303 --------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 303 --------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred --------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 233444443 3 25689999999997 999766543
No 60
>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=2.8e-32 Score=303.30 Aligned_cols=330 Identities=15% Similarity=0.124 Sum_probs=272.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|+|| ..|+....|+++|++++|++||++|++|+++++|++++|..++.++++|+.+++|.+|+||.+|..+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~ 80 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSR 80 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHH
Confidence 6999999998 5688999999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.+++++++..++|++.+++... + ...+++|++.++...+..++++++...+-+++++|+.|++||.+....+.+.++
T Consensus 81 ~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~~ 157 (360)
T cd06357 81 KAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLLE 157 (360)
T ss_pred HHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHHH
Confidence 9999999999999998654221 1 224788888888877788899998765558999999999999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccch-hcccCCh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTN-LLRTLEP 255 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~-~~~~~~~ 255 (932)
+.|++++....++.+.++.||.+++.++++.++|+|++...+..+..++++++++|+..+. ..+.+..... .+. .
T Consensus 158 ~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~~~~---~ 233 (360)
T cd06357 158 QRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEAEVA---A 233 (360)
T ss_pred HcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHHHHh---h
Confidence 9999998766666555578899999999999999999999999999999999999997542 2233332221 111 1
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|+++..++.+ +++..++|.++|+++|+.. + .++.+++.+||+++++++|++++++.
T Consensus 234 ~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~-~-----~~~~~~~~~yda~~~l~~Al~~ag~~--------- 298 (360)
T cd06357 234 MGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGED-A-----PVSACAEAAYFQVHLFARALQRAGSD--------- 298 (360)
T ss_pred cchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCC-C-----CCCcHHHHHHHHHHHHHHHHHHcCCC---------
Confidence 12346789888876643 4688999999999999752 1 35778999999999999999998643
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEe
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINV 385 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~ 385 (932)
++..|.++|++++|+|+.|.+.|+ .++.......+.++
T Consensus 299 --------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~ 337 (360)
T cd06357 299 --------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARV 337 (360)
T ss_pred --------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEE
Confidence 468999999999999999999997 44433334445555
No 61
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.1e-32 Score=303.37 Aligned_cols=317 Identities=17% Similarity=0.197 Sum_probs=266.6
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHH-hcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDF-YNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~i-N~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|||++.|++| ..|.....|+++|++++ |+.+++.|++|+++++|++++|..++.++.+|+.+++|.+|+||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~ 80 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGV 80 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHH
Confidence 6999999999 55888999999999999 4567888999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCC-CCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSI-RSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
+.++++++++.++|+|+++++++.++.. .++|+||+.+++..+..++++++... +++|++|+.|++||++..+.+++.
T Consensus 81 ~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~~ 159 (333)
T cd06328 81 ALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKAA 159 (333)
T ss_pred HHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHHH
Confidence 9999999999999999988888888764 36999999998888899888888666 899999999999999999999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHhCCccccceEEEEecccchhcccC
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTL 253 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~ 253 (932)
+++.|++++....++. +..|+.+++.+|++.++|+|++...+. .+..+++++.+.|+..+ ............
T Consensus 160 ~~~~G~~vv~~~~~~~--~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~-- 232 (333)
T cd06328 160 LEKLGAAIVTEEYAPT--DTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANLT-- 232 (333)
T ss_pred HHhCCCEEeeeeeCCC--CCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCccc--
Confidence 9999999998877764 566799999999999999998876555 67788888888877533 222222211111
Q ss_pred ChhhhhhccceEEEeecC-CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYV-PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTN 332 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~ 332 (932)
........+|++....+. +.++..++|.++|+++|+. .|+.+++.+||++.++++|++++++.
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~--------~p~~~~~~~y~a~~~l~~Ai~~ag~~-------- 296 (333)
T cd06328 233 MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFGS--------PPDLFTAGGMSAAIAVVEALEETGDT-------- 296 (333)
T ss_pred cccccccccceeeeecCCCCCCHHHHHHHHHHHHHhCC--------CcchhhHHHHHHHHHHHHHHHHhCCC--------
Confidence 011223456766655554 6678889999999999976 68889999999999999999998732
Q ss_pred cCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee--CCcc
Q 002352 333 VSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV--DGQL 375 (932)
Q Consensus 333 ~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~--~g~~ 375 (932)
++..+.++|++.+|+|+.|++.|+ +++.
T Consensus 297 ---------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~ 326 (333)
T cd06328 297 ---------------DTEALIAAMEGMSFETPKGTMTFRKEDHQA 326 (333)
T ss_pred ---------------CHHHHHHHHhCCeeecCCCceEECcccchh
Confidence 578999999999999999999996 4443
No 62
>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=7.6e-33 Score=307.59 Aligned_cols=334 Identities=25% Similarity=0.378 Sum_probs=280.6
Q ss_pred cEEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 18 PVNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 18 ~i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
+|+||++.|++| ..|.....|+++|++++|++|+++|++|+++++|+++++..+++.+.+|+.+++|.+|+||.++.
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~ 80 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSA 80 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcH
Confidence 599999999999 45788999999999999999999999999999999999999999999999988999999999999
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTD 173 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~ 173 (932)
.+.+++++++..++|+|++++.++ ...++|+||+.|++..++.++++++ ++++.+++++|+.++++|....+.+++
T Consensus 81 ~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~~ 157 (343)
T PF13458_consen 81 QAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFRK 157 (343)
T ss_dssp HHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHHH
Confidence 999999999999999999654332 3568999999999999999999996 558999999999999999999999999
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccC
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTL 253 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~ 253 (932)
.+++.|++++....++. +..|+...+.++++.++++|++.+.+.+...+++++.+.|+..+.+....+..+...+..
T Consensus 158 ~~~~~G~~vv~~~~~~~--~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~- 234 (343)
T PF13458_consen 158 ALEAAGGKVVGEIRYPP--GDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASLQQ- 234 (343)
T ss_dssp HHHHTTCEEEEEEEE-T--TSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHHHH-
T ss_pred HHhhcCceeccceeccc--ccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHHHH-
Confidence 99999999887777763 447799999999999999999999999999999999999987654444444333322221
Q ss_pred ChhhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
-..+.++|+++..++.+ +.+..++|.++|+++|+... .++.++..+||++.+++.|++++++.
T Consensus 235 --~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~al~~~g~~------- 299 (343)
T PF13458_consen 235 --LGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP------PPSLYAAQGYDAARLLAQALERAGSL------- 299 (343)
T ss_dssp --HHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG------GTCHHHHHHHHHHHHHHHHHHHHTSH-------
T ss_pred --hhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC------CCchhHHHHHHHHHHHHHHHHHhCCC-------
Confidence 12246889998888766 47889999999999998620 37899999999999999999998632
Q ss_pred ccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee-cC
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN-NG 388 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~-~g 388 (932)
++..+.++|++++|+|+.|++.|+ .+......+.|++++ +|
T Consensus 300 ----------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 300 ----------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp ----------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred ----------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 579999999999999999999995 333356788898887 65
No 63
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=1.8e-32 Score=302.42 Aligned_cols=313 Identities=18% Similarity=0.214 Sum_probs=265.5
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|.....|+++|++++|+.||+.|+++++.++|++++|..+++++.+|+.+++|.+||||.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a 80 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVR 80 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHH
Confidence 6999999999 4688899999999999999999999999999999999999999999999999899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++.++++ .++|+|++.+.+.. ...||+||+.+++..++.++++++ +..+|++|++++.++.||+...+.+++.+
T Consensus 81 ~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~~ 156 (333)
T cd06358 81 NAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRYI 156 (333)
T ss_pred HHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHHH
Confidence 99999999 99999997543321 246899999999999988888876 55799999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe-cccch-hcccC
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT-EGMTN-LLRTL 253 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t-~~~~~-~~~~~ 253 (932)
++.|++|+....++ .+..|+..++.++++.++|+|++...+.+...+++++++.|+..+ ++.. ..+.. .....
T Consensus 157 ~~~G~~v~~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~~~~ 231 (333)
T cd06358 157 AELGGEVVGEEYVP--LGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENMLLAS 231 (333)
T ss_pred HHcCCEEeeeeeec--CChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHHHhc
Confidence 99999999877776 447789999999999999999999888888999999999999765 3332 22221 11111
Q ss_pred ChhhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
.....+|++...++.+ ..+..++|.++|+++|+...+ .++.++..+||+++++++|++++++.
T Consensus 232 ---~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~-----~~~~~~~~~yda~~~~~~A~~~ag~~------- 296 (333)
T cd06358 232 ---GAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAP-----PLNSLSESCYEAVHALAAAAERAGSL------- 296 (333)
T ss_pred ---ChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCC-----CCChHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 1235688877766544 568899999999999976311 46788999999999999999987643
Q ss_pred ccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeC
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVD 372 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~ 372 (932)
++..|.++|++++|+|++|++.|+.
T Consensus 297 ----------------~~~~v~~al~~~~~~~~~G~~~~~~ 321 (333)
T cd06358 297 ----------------DPEALIAALEDVSYDGPRGTVTMRG 321 (333)
T ss_pred ----------------CHHHHHHHhccCeeeCCCcceEEcc
Confidence 5789999999999999999999973
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=1.7e-32 Score=302.52 Aligned_cols=325 Identities=18% Similarity=0.202 Sum_probs=269.9
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++| ..|.....|+++|++++| +++.|++|+++++|++++|..+++++.+|+.+++|.+|+||.+|..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~ 78 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVL 78 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--CccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHH
Confidence 6999999999 557789999999999998 67889999999999999999999999999988899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++++++++.++|+|+++++++.+.+ ..+||+||+.+++..+..+++++++..+|+++++++.|++||++..+.+++.+
T Consensus 79 ~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~~ 158 (333)
T cd06359 79 LAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRTF 158 (333)
T ss_pred HHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHHh
Confidence 99999999999999998776666654 34799999999999999999999988999999999999999999888888877
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
+ .+++....++ .+.+|+..++.++++.++|+|++...+..+..+++++++.|+.. ...++.+...... +.. .
T Consensus 159 ~---~~v~~~~~~~--~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~~-~ 230 (333)
T cd06359 159 K---GEVVGEVYTK--LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DTL-P 230 (333)
T ss_pred C---ceeeeeecCC--CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HHH-H
Confidence 4 3555554443 35568999999999999999999888888999999999999853 2235554433211 111 1
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|+++..++.+ +++..++|.++|+++|+. .++.++..+||++++++.|+++++..
T Consensus 231 ~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~A~~~ag~~--------- 293 (333)
T cd06359 231 AVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYGR--------LPTLYAAQAYDAAQLLDSAVRKVGGN--------- 293 (333)
T ss_pred hcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhCC--------CCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 22346788888877765 468899999999999976 67889999999999999999998632
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEE
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIIN 384 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n 384 (932)
..++..+.++|++++|+|++|++.|+ +|+.. ..+.|+.
T Consensus 294 ------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~~ 332 (333)
T cd06359 294 ------------LSDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLRE 332 (333)
T ss_pred ------------CCCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEEe
Confidence 11568999999999999999999996 76643 3444443
No 65
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=4.2e-32 Score=299.01 Aligned_cols=312 Identities=15% Similarity=0.147 Sum_probs=262.3
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||++.|+|| ..|.....|+++|++++|+.||+.|++|+++++|++++|..++.++.+|+.+++|.+|||+.+|..+
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~ 80 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASR 80 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHH
Confidence 6999999999 5588999999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.++.+++++.++|+|..++... ....+|+||+.+++..+..++++++...+-+++++|+.|++||.+....+.+.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~~ 157 (334)
T cd06356 81 EAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIVE 157 (334)
T ss_pred HHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHHH
Confidence 9999999999999998543221 2236899999999999999999998765448899999999999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc-cccceEEEEecccchh--cccC
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL-MNKGCVWIMTEGMTNL--LRTL 253 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~-~~~~~~wi~t~~~~~~--~~~~ 253 (932)
+.|++++....++. +..||+.++.+|++.++|+|++...+.+...+++++++.|+ ..+ .+.+...... ...+
T Consensus 158 ~~G~~vv~~~~~~~--~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~~~~ 232 (334)
T cd06356 158 ENGGEVVGEEFIPL--DVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEHKRL 232 (334)
T ss_pred HcCCEEEeeeecCC--CchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHHhcc
Confidence 99999998877764 46789999999999999999999888889999999999998 333 2222111111 1111
Q ss_pred ChhhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
. ....+|+++...+.++ .+..++|.++|+++|+.. | .++.+++.+||++++++.|++++++.
T Consensus 233 ~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-p-----~~~~~~~~~y~a~~~~~~A~~~ag~~------- 296 (334)
T cd06356 233 K---PPALKDMYATANYIEELDTPANKAFVERFRAKFPDA-P-----YINEEAENNYEAIYLYKEAVEKAGTT------- 296 (334)
T ss_pred C---chhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCC-C-----CCCchhHHHHHHHHHHHHHHHHHCCC-------
Confidence 1 2456888877665443 677899999999999751 1 23678999999999999999998753
Q ss_pred ccCCCCCccccccccCChHHHHHHhhc-ceeeeeeeeEEee
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSS-TRFKGLTGDYVFV 371 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~-~~f~G~tG~~~f~ 371 (932)
++..|.++|++ ..|+|+.|++.|+
T Consensus 297 ----------------~~~~v~~aL~~~~~~~~~~g~~~~~ 321 (334)
T cd06356 297 ----------------DRDAVIEALESGLVCDGPEGKVCID 321 (334)
T ss_pred ----------------CHHHHHHHHHhCCceeCCCceEEEe
Confidence 56899999997 5789999999997
No 66
>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=1.2e-32 Score=303.46 Aligned_cols=329 Identities=15% Similarity=0.148 Sum_probs=241.7
Q ss_pred CCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecC------CC-CHHHHHHHHHHHHhcCCe--EEEEccCChhHHH
Q 002352 27 MNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNS------KG-DVVAAAAAALDLLNNVLV--QAILGPEKSMQTN 97 (932)
Q Consensus 27 ~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~------~~-~~~~a~~~a~~li~~~~v--~aiiGp~~s~~a~ 97 (932)
.++..|+..+.|+++|++++|.+. +.++.+++.+. .+ |...+.+++|+++++ ++ .|||||.++..+.
T Consensus 6 ~~~~~~~~~~~A~~~Av~~~N~~~---~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~-gv~~~AIiGp~ss~~a~ 81 (368)
T cd06383 6 MTEDDNDVYKQIIDDALSYINRNI---GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADS-AIVPHLVLDTTTCGDAS 81 (368)
T ss_pred ecccchHHHHHHHHHHHHHHhcCC---CCceEEEEecccccccccCCcHHHHHHHHHHHHHc-cCCcEEEECCCcchhHH
Confidence 344568889999999999999885 56777777766 44 667777779999987 77 8999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHH-HHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTD-ALQ 176 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~-~l~ 176 (932)
.++.+|+.++||+|+++.. ..++.++||++|+.|++..+.+|+++++++|+|++|++||++++.+......+.. ...
T Consensus 82 ~V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~ 159 (368)
T cd06383 82 EIKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPT 159 (368)
T ss_pred HHHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHh
Confidence 9999999999999998553 3334579999999999999999999999999999999999776643322232222 223
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHML-PSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
..+.++. +. ...++..++++|++++.+.||+.|. ++.+..++++|.++||++++|+||+++......+...
T Consensus 160 ~~~~~v~-----~~--~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl~~- 231 (368)
T cd06383 160 RHVITII-----NS--IIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDDLS- 231 (368)
T ss_pred cCCEEEE-----ec--cchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhhhh-
Confidence 3334432 11 2346889999999999866666666 5999999999999999999999999998765543321
Q ss_pred hhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCC
Q 002352 256 SVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSS 335 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 335 (932)
....-.++.+++...+.....+++..+|.+. ..+.....+...-++++||||++++.|++.+... .....|
T Consensus 232 -~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~-----~~~~~~ 302 (368)
T cd06383 232 -CQLRNASIFVTRPMMDYQSSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKK-----RVEDGS 302 (368)
T ss_pred -hccccCcEEEeeccccchhhhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhhee-----eccCCC
Confidence 2233467999999766666667787776221 1011111134567899999999999999976321 111111
Q ss_pred CC---Cccccc---ccc-CChHHHHHHhhcceeeeeeeeEEee-CCccccc
Q 002352 336 NA---TDLEAF---GIS-RNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSS 378 (932)
Q Consensus 336 ~~---~~~~~~---~~~-~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~ 378 (932)
.. ..|... -+| ..|..+.++|+.++|+|+||+++|+ +|+|...
T Consensus 303 ~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~ 353 (368)
T cd06383 303 TGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTK 353 (368)
T ss_pred cCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeee
Confidence 11 122221 134 5666999999999999999999996 8988643
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=9.7e-32 Score=297.64 Aligned_cols=324 Identities=16% Similarity=0.232 Sum_probs=276.6
Q ss_pred EEEEEEeCCCc---cchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~---~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||+++|++|. .|.....|+++|++++| +++.|++++++++|+++++..+.+++.+|+.+++|.+||||.++..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~ 78 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEA 78 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhH
Confidence 69999999994 45789999999999986 45679999999999999999999999999988899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCC-CCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSI-RSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++.+.+++.++|+|+++++++.++.. .+||+||+.+++..++..+++++...+|+++++++.++.||++..+.+++.+
T Consensus 79 ~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~~ 158 (336)
T cd06360 79 LAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEAF 158 (336)
T ss_pred HHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHHH
Confidence 999999999999999998888887753 4799999999999999999999998899999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|++++....++ ....||+.++.++++.++|+|++...+.++..+++++++.|+..+ ..++.++.+... . ...
T Consensus 159 ~~~G~~v~~~~~~~--~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~-~-~~~ 233 (336)
T cd06360 159 TEAGGKIVKELWVP--FGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKAK-IPLIGSGFLTDG-T-TLG 233 (336)
T ss_pred HHcCCEEEEEEecC--CCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCccC-CeEEecccccCH-H-HHH
Confidence 99999998776665 346689999999999999999999999999999999999998432 235555443321 1 111
Q ss_pred hhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|++...++.+ +++..++|.++|+++|+. .++.++..+||++++++.|++++++..
T Consensus 234 ~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~--------~~~~~~~~~yda~~~~~~A~~~a~~~~-------- 297 (336)
T cd06360 234 AAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYPD--------TPSVYAVQGYDAGQALILALEAVGGDL-------- 297 (336)
T ss_pred hhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhCC--------CccHHHHHHHHHHHHHHHHHHHhCCCC--------
Confidence 23356788888777654 468899999999999976 678899999999999999999987431
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCcccccc
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSA 379 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~ 379 (932)
.++..|.++|++++|+|+.|++.|+ +|++..+.
T Consensus 298 -------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~ 331 (336)
T cd06360 298 -------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDN 331 (336)
T ss_pred -------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccce
Confidence 2467899999999999999999996 88866543
No 68
>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=5.5e-31 Score=283.41 Aligned_cols=342 Identities=15% Similarity=0.168 Sum_probs=248.5
Q ss_pred CCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecC-CCCHHHHHHHHHHHH-hcCCeEEEEc-c
Q 002352 15 TTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNS-KGDVVAAAAAALDLL-NNVLVQAILG-P 90 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~-~~~~~~a~~~a~~li-~~~~v~aiiG-p 90 (932)
-+..|+||+|++.. ...+.|++.|++.+|.+.... +.+|+.++..- ..|+..+...+|+++ .+ ||.||+| |
T Consensus 15 ~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~-GV~AIfg~p 89 (382)
T cd06377 15 IGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQ-GVSALLAFP 89 (382)
T ss_pred cCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhC-CeEEEEecC
Confidence 34569999999976 246999999999999886443 67888777543 359999999999995 65 9999999 5
Q ss_pred CChhHHHHHHHhcCCCCccEEecccCCCCc-cCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHH
Q 002352 91 EKSMQTNFIIQLGNKSQVPILSFSATSPSL-TSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIP 169 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l-~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~ 169 (932)
.++..+..+..+|+.++||+|+++..+... +...+.+.+++.|+.+.++.|+++++++|+|++|++||+.++...
T Consensus 90 ~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~---- 165 (382)
T cd06377 90 QTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT---- 165 (382)
T ss_pred CCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----
Confidence 888889999999999999999986544322 223233344669999999999999999999999999999887433
Q ss_pred HHHHHHHhCC-----ceeeeeeecCC-CCChhHH-HHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHhCCccccceEEE
Q 002352 170 SLTDALQAID-----TRVPYRSVISP-LATDDQI-EKELYKLFTMQ-TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWI 241 (932)
Q Consensus 170 ~l~~~l~~~g-----~~v~~~~~~~~-~~~~~~~-~~~l~~l~~~~-~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi 241 (932)
.|++.++..+ ..+..+. .+. .++..++ +..|+.+++.+ .++|+++|+.+.+..+++++.+ +|+||
T Consensus 166 ~lq~l~~~~~~~~~~~~i~v~~-~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wI 238 (382)
T cd06377 166 GLLLLWTNHARFHLGSVLNLSR-NDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWI 238 (382)
T ss_pred HHHHHHHHhcccccCceEEEEe-ccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEE
Confidence 3444444433 1222222 211 1133445 99999999999 9999999999999999977665 49999
Q ss_pred EecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHh
Q 002352 242 MTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKA 321 (932)
Q Consensus 242 ~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~ 321 (932)
+++... ++... ......|+++ |.+ . .....+++.||||+++|.|++.+
T Consensus 239 v~~~~~--le~~~--~~g~nigLl~-----------------~~~-~----------~~~~l~ali~DAV~lvA~a~~~l 286 (382)
T cd06377 239 LGDPLP--PEALR--TEGLPPGLLA-----------------HGE-T----------TQPPLEAYVQDALELVARAVGSA 286 (382)
T ss_pred EcCCcC--hhhcc--CCCCCceEEE-----------------Eee-c----------ccccHHHHHHHHHHHHHHHHHHh
Confidence 997221 11111 1112233331 110 0 11133899999999999999987
Q ss_pred ccc--cccccccccCCCCCccccc--c-ccCChHHHHHHhhcceeeeeeeeEEeeCCcc--ccccEEEEEee---cC---
Q 002352 322 GIT--SFGFDKTNVSSNATDLEAF--G-ISRNGPKLLQALSSTRFKGLTGDYVFVDGQL--QSSAFEIINVN---NG--- 388 (932)
Q Consensus 322 ~~~--~~~~~~~~~~~~~~~~~~~--~-~~~~g~~l~~~L~~~~f~G~tG~~~f~~g~~--~~~~~~I~n~~---~g--- 388 (932)
... ...+... ..+|... . .|.+|..|.++|++++|+|+||+|.|++|+| ....++|++++ +|
T Consensus 287 ~~~~~~~~l~~~-----~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~~g~R~~~~~~l~I~~L~~~~~G~~~ 361 (382)
T cd06377 287 TLVQPELALIPA-----TVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVTGSSQVHSSRHFKVWSLRRDPVGQPT 361 (382)
T ss_pred hhcccccccCCC-----CCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEccCeeecccceEEEEEeccccCCCcc
Confidence 421 1112221 1344322 4 8999999999999999999999999988888 78899999998 56
Q ss_pred eEEEEEEcCCCCccccccCCCccCCCccceEeC
Q 002352 389 ARGVGFWTPEKGLTLKLRSNSTTKSKLRPIIWP 421 (932)
Q Consensus 389 ~~~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wp 421 (932)
|++||+|++...+ ..+.++||
T Consensus 362 W~kVG~W~~~~~~------------~~~~~~wp 382 (382)
T cd06377 362 WTTVGSWQGGRKI------------VMDQGLWP 382 (382)
T ss_pred ceEEEEecCCCce------------ecccCCCC
Confidence 5999999997333 25677887
No 69
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1e-31 Score=297.84 Aligned_cols=320 Identities=20% Similarity=0.288 Sum_probs=265.1
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|.....|+++|++++|+.||+.|++|+++++|++++|..+.+++.+|+.+++|.+|+||.+|..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVA 80 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHH
Confidence 6999999999 6688899999999999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC--CCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS--IRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTD 173 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~ 173 (932)
.++..++++.+||+|++.++.+.+.. ..++|+||+.+++..++.++++++ ++.+|++|+++|.+++||+...+.+.+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~ 160 (347)
T cd06335 81 LANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLTA 160 (347)
T ss_pred HhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHHH
Confidence 99999999999999998877776654 446899999999999999999987 556699999999999999999999999
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccC
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTL 253 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~ 253 (932)
.+++.|++++....++.. ..|+.+.+.+|++.++++|++.+.+.++..+++++++.|+..+ ++....... ....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~-~~~~ 234 (347)
T cd06335 161 ALAARGLKPVAVEWFNWG--DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSG-GNFI 234 (347)
T ss_pred HHHHcCCeeEEEeeecCC--CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcC-chhh
Confidence 999999999988777643 5679999999999999999999999999999999999998654 333222111 1111
Q ss_pred ChhhhhhccceEEEeecC---CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccc
Q 002352 254 EPSVIDSMQGVIGVRPYV---PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDK 330 (932)
Q Consensus 254 ~~~~~~~~~g~l~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~ 330 (932)
. ...+..+|++....+. +.++..++|+++|+++|+..... ...++.+++++||+++++++|+++++.+
T Consensus 235 ~-~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ag~~------ 305 (347)
T cd06335 235 E-GAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQAGST------ 305 (347)
T ss_pred h-ccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHHhcCC------
Confidence 1 1223467877665443 24688999999999999762100 0124566788999999999999998744
Q ss_pred cccCCCCCccccccccCChHHHHHHhhcc--eeeeeeeeE--Eee
Q 002352 331 TNVSSNATDLEAFGISRNGPKLLQALSST--RFKGLTGDY--VFV 371 (932)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~g~~l~~~L~~~--~f~G~tG~~--~f~ 371 (932)
.++.+.++|+++ .+.|+.|.+ .|.
T Consensus 306 -----------------~~~~v~~al~~~~~~~~G~~~~~~~~~~ 333 (347)
T cd06335 306 -----------------DGRAIKRALENLKKPVEGLVKTYDKPFS 333 (347)
T ss_pred -----------------CHHHHHHHHHhccCCceeeecccCCCCC
Confidence 247899999876 478888865 464
No 70
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-31 Score=294.04 Aligned_cols=332 Identities=14% Similarity=0.051 Sum_probs=266.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||++.|++| ..|..+..|+++|++++|+.||+.|++|+++++|++++|..++.++.+|+.+++|.+|+ +.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~ 79 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGIT 79 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHH
Confidence 6999999998 55888999999999999999999999999999999999999999999999998898876 5788899
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcC-----CeEEEEEEEcCCcCCChHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFG-----WREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~-----w~~v~ii~~d~~~g~~~~~~ 170 (932)
.++.+++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|++|+.|++||.+..+.
T Consensus 80 ~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~~ 159 (351)
T cd06334 80 EALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIEA 159 (351)
T ss_pred HHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHHH
Confidence 99999999999999998877666663 5689999999999999999999987654 79999999999999999999
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhc
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLL 250 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~ 250 (932)
+.+.+++.|++|+....++ .+..|+..++.++++.++|+|++...+.++..+++++++.|+..+ ++.+..... .
T Consensus 160 ~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~-~ 233 (351)
T cd06334 160 LKALAEKLGFEVVLEPVPP--PGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSGD-E 233 (351)
T ss_pred HHHHHHHcCCeeeeeccCC--CCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccCc-H
Confidence 9999999999999887765 345689999999999999999999999999999999999999544 554433221 1
Q ss_pred ccCChhhhhhccceEEEeecCC--CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccc
Q 002352 251 RTLEPSVIDSMQGVIGVRPYVP--KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGF 328 (932)
Q Consensus 251 ~~~~~~~~~~~~g~l~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~ 328 (932)
... ....+..+|+++..++.+ ++|..++|.+.|+++++.. |.. ...++.++..+||+++++++|++++++....-
T Consensus 234 ~~~-~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~-~~~-~~~~~~~~~~gy~a~~~l~~Al~~ag~~~~~~ 310 (351)
T cd06334 234 EDV-KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGS-GND-KEIGSVYYNRGVVNAMIMVEAIRRAQEKGGET 310 (351)
T ss_pred HHH-HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCC-CCc-ccccccHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 111 123356788887776654 5788999999999998641 100 01346789999999999999999998763210
Q ss_pred cccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee
Q 002352 329 DKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV 371 (932)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~ 371 (932)
. +.....-..-+..++.+.+....|+.|++.|.
T Consensus 311 ~----------~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 343 (351)
T cd06334 311 T----------IAGEEQLENLKLDAARLEELGAEGLGPPVSVS 343 (351)
T ss_pred C----------CcHHHHHHhhhhhhhhhhhcCcccccCCceec
Confidence 0 00000000012344566667788999999995
No 71
>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=99.98 E-value=1.8e-30 Score=287.29 Aligned_cols=323 Identities=17% Similarity=0.205 Sum_probs=269.1
Q ss_pred EEEEEEeCCCc---cchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~---~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++|. .|.....|+++|++++| +++.|+++++.++|+++++..+.+.+.+|+.+++|.+||||.++..+
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~ 78 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVA 78 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHH
Confidence 69999999994 56789999999999997 56779999999999999999999999999988899999999999888
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCC-CCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSI-RSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++...+++.++|+|+++++.+.+.+. .+||+||+.|++..++..+++++...+|+++++++.++.+|.+..+.+.+.+
T Consensus 79 ~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~~ 158 (333)
T cd06332 79 LAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRTF 158 (333)
T ss_pred HHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHhh
Confidence 899999999999999998877777654 3799999999999999999999999999999999999999999999999988
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
+ ..+.....++. ...|+..+++++++.++|+|++...+..+..+++++++.|+.. ...++.+..+... . ...
T Consensus 159 ~---~~~~~~~~~~~--~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~-~-~~~ 230 (333)
T cd06332 159 K---GEVVEEVYTPL--GQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQ-D-TLP 230 (333)
T ss_pred c---EEEeeEEecCC--CCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCH-H-HHH
Confidence 7 35555544443 3456889999999999999999888888999999999999843 2336665544321 1 111
Q ss_pred hhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccccc
Q 002352 256 SVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNV 333 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~ 333 (932)
...+..+|+++..++.+. ++..++|.++|+++|+. .++.++..+||++++++.|+++++..
T Consensus 231 ~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~a~~~ag~~--------- 293 (333)
T cd06332 231 AQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYGR--------VPSVYAAQGYDAAQLLDAALRAVGGD--------- 293 (333)
T ss_pred hhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhCC--------CCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 233567888888777653 67899999999999976 57889999999999999999998643
Q ss_pred CCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEE
Q 002352 334 SSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEI 382 (932)
Q Consensus 334 ~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I 382 (932)
..++..|.++|++.+|+|++|++.|+ +|+.. ..+.+
T Consensus 294 ------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~-~~~~~ 330 (333)
T cd06332 294 ------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPI-QDFYL 330 (333)
T ss_pred ------------CCCHHHHHHHHhcCceecCccceeECCCCCcc-cceeE
Confidence 12467899999999999999999996 78854 33444
No 72
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.98 E-value=2.9e-30 Score=270.73 Aligned_cols=314 Identities=15% Similarity=0.162 Sum_probs=236.2
Q ss_pred EEEEEEEeCCCcc---chhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 19 VNVGLVLDMNGED---GKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 19 i~IG~i~~~s~~~---g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
||||++++++|.. ++.+..|..||+++||++||++|++|+.+++|.++|+..-++.|.+|+.+++|.+|+|..+|.+
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSas 80 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSAS 80 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhhh
Confidence 7999999999944 5678999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHH-HHcCCeEEEEEEEcCCcCCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAII-KAFGWREAVPIYVDNQYGEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~ 173 (932)
-.++.++.++++-.+.-+.- ... .-.|+++-+.....+|...+++++ .++|-+++.+|-+|+.|+++...-+++
T Consensus 81 RKaVlPvvE~~~~LL~Yp~~----YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 81 RKAVLPVVERHNALLFYPTQ----YEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHCT-EEEE-S------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCceEEeccc----cccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 99999999999999996421 122 447999999999999999999996 778989999999999999999999999
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc-hhccc
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT-NLLRT 252 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~-~~~~~ 252 (932)
.+++.|++|+....+|. +.+|+..++.+|++.+||+|+-...++....|+++.+++|+..+ ..=|.+...+ ..+..
T Consensus 157 ~l~~~GgevvgE~Y~pl--g~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~~~ 233 (363)
T PF13433_consen 157 LLEARGGEVVGERYLPL--GATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAELAA 233 (363)
T ss_dssp HHHHTT-EEEEEEEE-S---HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHHTT
T ss_pred HHHHcCCEEEEEEEecC--CchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHHhh
Confidence 99999999999988885 46889999999999999999999999999999999999998754 3445554443 33333
Q ss_pred CChhhhhhccceEEEeecCCC--ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccc
Q 002352 253 LEPSVIDSMQGVIGVRPYVPK--TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDK 330 (932)
Q Consensus 253 ~~~~~~~~~~g~l~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~ 330 (932)
++. +...|.+...+|... +|..++|+++|+++|+.+. .++.....+|-+|+++|+|++++++.
T Consensus 234 ~g~---~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~------v~s~~~eaaY~~v~l~a~Av~~ags~------ 298 (363)
T PF13433_consen 234 MGA---EAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDR------VTSDPMEAAYFQVHLWAQAVEKAGSD------ 298 (363)
T ss_dssp S-H---HHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----------HHHHHHHHHHHHHHHHHHHHTS-------
T ss_pred cCh---hhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCC------
Confidence 333 578999999998874 8999999999999998732 45777788999999999999999865
Q ss_pred cccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee
Q 002352 331 TNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV 371 (932)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~ 371 (932)
+..++.++|...+|+.+.|.+.+|
T Consensus 299 -----------------d~~~vr~al~g~~~~aP~G~v~id 322 (363)
T PF13433_consen 299 -----------------DPEAVREALAGQSFDAPQGRVRID 322 (363)
T ss_dssp ------------------HHHHHHHHTT--EEETTEEEEE-
T ss_pred -----------------CHHHHHHHhcCCeecCCCcceEEc
Confidence 579999999999999999999997
No 73
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.98 E-value=3.1e-30 Score=284.79 Aligned_cols=315 Identities=23% Similarity=0.307 Sum_probs=250.2
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecC-CCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNS-KGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~-~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
+||++++.+. +....|+++|++++|..++.+ +.++.+.+.+. .+++..++.++|+++.+++|.||+||.++..+.
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 4899998876 667899999999999998764 44455444443 379999999999999666999999999999999
Q ss_pred HHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
+++.+++.++||+|+++++++.+.+ ..++|++|+.|++..+++++++++++++|++|++||+++++... .+.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~-l~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSR-LQELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHH-HHHHHHhhc
Confidence 9999999999999999988877765 56899999999999999999999999999999999998885433 233333333
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCc-eEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQT-RVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~-~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
..+..+... .+. .+.+++.+.++++++.++ ++|++++..+.+..++++|++.||++++|+||+++......+. .
T Consensus 157 ~~~~~v~~~-~~~--~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~--~ 231 (328)
T cd06351 157 IKGIQVTVR-RLD--LDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL--E 231 (328)
T ss_pred ccCceEEEE-Eec--CCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch--h
Confidence 334454443 332 223379999999999999 5555444448999999999999999999999999977654432 2
Q ss_pred hhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCC
Q 002352 256 SVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSS 335 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 335 (932)
.......|++|++...+..+...+|..+|.... +......+...++++||+++++
T Consensus 232 ~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~d~~~~~--------------------- 286 (328)
T cd06351 232 PFQYGPANITGFRLVDPDSPDVSQFLQRWLEES----PGVNLRAPIYDAALLYDAVLLL--------------------- 286 (328)
T ss_pred hhccCCcceEEEEEeCCCchHHHHHHHhhhhcc----CCCCcCccchhhHhhhcEEEEE---------------------
Confidence 344567899999999999999999999993322 2222235566777888877532
Q ss_pred CCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee--cCeEEEEEEcC
Q 002352 336 NATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN--NGARGVGFWTP 397 (932)
Q Consensus 336 ~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~--~g~~~vG~w~~ 397 (932)
||++.|+ +|+|.+..++|+++. .++++||.|++
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 9999997 899999999999998 67999999994
No 74
>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=7.9e-30 Score=283.51 Aligned_cols=314 Identities=13% Similarity=0.112 Sum_probs=254.9
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCC--cEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYK--TRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g--~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
|||++.|+|| ..|.....++++|++++|..+++.| ++|+++++|++++|..++.++.+|+.+++|.+|||+.+|.
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~ 80 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPD 80 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcc
Confidence 5999999998 5587888899999999996654455 5899999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCc--c-----CCCCCceEecccCchhHHHHHHHHHHHcC-CeEEEEEEEcCCcCCC
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSL--T-----SIRSSYFFRGSLNDSSQVGAITAIIKAFG-WREAVPIYVDNQYGEE 166 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l--~-----~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~ 166 (932)
.+.++++++++.+||+|+..+..+.+ + ...++|+||..+++..+..+++.+++..+ +++|++++.++.||..
T Consensus 81 ~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~~ 160 (357)
T cd06337 81 TTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGNA 160 (357)
T ss_pred hhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhHH
Confidence 99999999999999999976543221 1 12378999999999888899998888877 9999999999999998
Q ss_pred hHHHHH---HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 167 MIPSLT---DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 167 ~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
..+.+. +.+++.|++|+..+.++. +..|++.++.+|+++++|+|++.+.+.++..+++++++.|+..+ ++..
T Consensus 161 ~~~~~~~~~~~~~~~G~~vv~~~~~~~--~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~ 235 (357)
T cd06337 161 FADPVIGLPAALADAGYKLVDPGRFEP--GTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---IVTI 235 (357)
T ss_pred HHHhhhcccHHHHhCCcEEecccccCC--CCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---eEEE
Confidence 766654 567789999998877764 45679999999999999999999999999999999999999766 4432
Q ss_pred -ccc--chhcccCChhhhhhccceEEEeecCCC--------ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHH
Q 002352 244 -EGM--TNLLRTLEPSVIDSMQGVIGVRPYVPK--------TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATR 312 (932)
Q Consensus 244 -~~~--~~~~~~~~~~~~~~~~g~l~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~ 312 (932)
.+. ....... .+..+|++....+.+. ++..++|.++|+++|+. .+...+.++||+++
T Consensus 236 ~~~~~~~~~~~~~----g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~--------~~~~~~~~~~~~~~ 303 (357)
T cd06337 236 AKALLFPEDVEAL----GDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR--------QWTQPLGYAHALFE 303 (357)
T ss_pred eccccCHHHHHHh----hhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC--------CccCcchHHHHHHH
Confidence 222 1122222 2234676654443332 24589999999999976 45556778999999
Q ss_pred HHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeC
Q 002352 313 ALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVD 372 (932)
Q Consensus 313 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~ 372 (932)
+++.|++++++. .++..|.++|++++++++.|++.|+.
T Consensus 304 ~l~~Ai~~Ags~----------------------~d~~~v~~aL~~~~~~~~~G~~~f~~ 341 (357)
T cd06337 304 VGVKALVRADDP----------------------DDPAAVADAIATLKLDTVVGPVDFGN 341 (357)
T ss_pred HHHHHHHHcCCC----------------------CCHHHHHHHHHcCCcccceeeeecCC
Confidence 999999998753 14689999999999999999999973
No 75
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=6.8e-29 Score=274.87 Aligned_cols=320 Identities=15% Similarity=0.141 Sum_probs=261.5
Q ss_pred EEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 19 VNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 19 i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|+||++.|++| ..|+....|+++|++++|+.+++.|+++++..+|+++|+..+.+.+.+|+.+++|.+|||+.++..
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~ 80 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPT 80 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchh
Confidence 68999999999 457889999999999999999999999999999999999999999999998779999999988888
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
+.++..++...++|+|++++.++.++....+++||+.+++..++..+++++...||+++++|+.++.+|....+.+++.+
T Consensus 81 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~~ 160 (336)
T cd06326 81 TAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKAL 160 (336)
T ss_pred HHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHHH
Confidence 88888999999999999876655554434789999999999999999999999999999999999999999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|+++.....++. ...|+..++.++++.++++|++..+...+..+++++++.|+..+ ++........ . +..
T Consensus 161 ~~~G~~~~~~~~~~~--~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~-~-~~~ 233 (336)
T cd06326 161 AARGLKPVATASYER--NTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGAD-A-LAR 233 (336)
T ss_pred HHcCCCeEEEEeecC--CcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHH-H-HHH
Confidence 999998877666653 34679999999999999999999988889999999999998654 2222222211 0 111
Q ss_pred hhhhhccceEEEe--ec--CCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 256 SVIDSMQGVIGVR--PY--VPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 256 ~~~~~~~g~l~~~--~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
......+|++... ++ ....+..++|.+.|+++++.. +++.++..+||+++++++|+++++..
T Consensus 234 ~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-------~~~~~~~~~y~~~~~~~~a~~~~g~~------- 299 (336)
T cd06326 234 LLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGA-------PPSYVSLEGYIAAKVLVEALRRAGPD------- 299 (336)
T ss_pred HhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCCC-------CCCeeeehhHHHHHHHHHHHHHcCCC-------
Confidence 2234567776532 22 223678899999999887641 56778889999999999999997642
Q ss_pred ccCCCCCccccccccCChHHHHHHhhccee-eeeeeeEEeeCCc
Q 002352 332 NVSSNATDLEAFGISRNGPKLLQALSSTRF-KGLTGDYVFVDGQ 374 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f-~G~tG~~~f~~g~ 374 (932)
.+++.|.++|++++. ++..|.+.|..++
T Consensus 300 ---------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~ 328 (336)
T cd06326 300 ---------------PTRESLLAALEAMGKFDLGGFRLDFSPGN 328 (336)
T ss_pred ---------------CCHHHHHHHHHhcCCCCCCCeEEecCccc
Confidence 257899999999875 5555588886444
No 76
>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=3.4e-28 Score=267.59 Aligned_cols=298 Identities=18% Similarity=0.197 Sum_probs=244.5
Q ss_pred EEEEEEeCCCc---cchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNGE---DGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~~---~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++|. +|..+..|+++|++++| |++++++++|+++ +..++.++.+|+.+ +|.+||||.+|..+
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-AAGAAAAARQAVAE-GADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc------CCCceEEEEeCCC-cccHHHHHHHHHHc-CCCEEEccCCHHHH
Confidence 69999999994 68889999999999999 6889999999999 99999999999986 99999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.++++++.+.++|+|+++++++ +.. .+++||+.+++..++.++++++...|++++++|+.++.||.+..+.|.+.++
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 6899999999999999999999888999999999999999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC---------------------CceEEEEEeChh-hHHHHHHHHHhCCc-
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM---------------------QTRVFILHMLPS-LGSRIFEKANEIGL- 233 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~viil~~~~~-~~~~l~~~a~~~g~- 233 (932)
+.|++|+....++ .+..|+..++.+|++. ++|+|++...+. .+..+.++++..+.
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 9999999887775 4577899999999988 999999988886 77777777776653
Q ss_pred --cccceEEEEecccchhcccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCcccc-chhhHHHHHH
Q 002352 234 --MNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVEL-NILGLFAYDA 310 (932)
Q Consensus 234 --~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~a~~~YDa 310 (932)
..+ ++.++++.... .. ....+..+|++...+... ...+|.++|+++|+. .| +.+++.+|||
T Consensus 228 ~~~~~---~~g~~~~~~~~-~~-~~~g~~~~g~~~~~~~~~---~~~~f~~~y~~~~~~--------~p~~~~~a~~YDa 291 (336)
T cd06339 228 PGDVP---LYGTSRWYSGT-PA-PLRDPDLNGAWFADPPWL---LDANFELRYRAAYGW--------PPLSRLAALGYDA 291 (336)
T ss_pred cCCCC---EEEeccccCCC-CC-cccCcccCCcEEeCCCcc---cCcchhhhHHHHhcC--------CCCchHHHHHHhH
Confidence 344 77777766421 11 112245678776554222 223899999999986 67 8999999999
Q ss_pred HHHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhh-cceeeeeeeeEEee-CCcc
Q 002352 311 TRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALS-STRFKGLTGDYVFV-DGQL 375 (932)
Q Consensus 311 v~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~-~~~f~G~tG~~~f~-~g~~ 375 (932)
+.+++.++++.+.+ . +|. ...|+|++|.+.|+ +|+.
T Consensus 292 ~~l~~~~~~~~~~~------------------------~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 292 YALAAALAQLGQGD------------------------A-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHHHHHccccc------------------------c-----ccCCCCccccCcceEEECCCCeE
Confidence 99999888765422 1 333 34699999999996 7874
No 77
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.96 E-value=2.9e-28 Score=267.67 Aligned_cols=382 Identities=20% Similarity=0.276 Sum_probs=296.0
Q ss_pred CccEEEEEEEeCCC-----ccchhHHHHHHHHHHHHhcCCCCC-CcEEEEEEecCCCCHHHHHHHHHHHHhc-CCeEEEE
Q 002352 16 TIPVNVGLVLDMNG-----EDGKIALSCINMSLSDFYNSNSHY-KTRLLLNTRNSKGDVVAAAAAALDLLNN-VLVQAIL 88 (932)
Q Consensus 16 ~~~i~IG~i~~~s~-----~~g~~~~~a~~lAv~~iN~~~~~~-g~~l~~~~~D~~~~~~~a~~~a~~li~~-~~v~aii 88 (932)
..+..++.++|+.. ..|+....|+++|++++|.++.++ |++|+++..|++|++..+.++..+++.. ..-..++
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~mll 118 (865)
T KOG1055|consen 39 RCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLMLL 118 (865)
T ss_pred CCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchheec
Confidence 34577888888753 557789999999999999999888 8999999999999999999999998886 4456667
Q ss_pred ccCChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCCh
Q 002352 89 GPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEM 167 (932)
Q Consensus 89 Gp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~ 167 (932)
|. |+..+..++.-+..++..+++|++++|.+++ +.+|+|||+.||...+.....+++++|+|++|+.++.+.+--..-
T Consensus 119 ~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~~ 197 (865)
T KOG1055|consen 119 GG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSST 197 (865)
T ss_pred cC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcch
Confidence 76 9999999999999999999999999999997 679999999999999999999999999999999999988877788
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccc
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~ 247 (932)
.+.+...+.+.|++++.+..+. .|....+++++....|+|+-..+-..++..++++++.+|.+..|+|+...+..
T Consensus 198 ~~dl~~~~~~~~ieiv~~qsf~-----~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g~y~ 272 (865)
T KOG1055|consen 198 LNDLEARLKEAGIEIVFRQSFS-----SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIGWYA 272 (865)
T ss_pred HHHHHHhhhccccEEEEeeccc-----cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEEeec
Confidence 8999999999999998776643 23556788999999999999999999999999999999999999999876544
Q ss_pred hhcc--------cCChhhhhhccceEEEeec--CCC------ChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHH
Q 002352 248 NLLR--------TLEPSVIDSMQGVIGVRPY--VPK------TKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDAT 311 (932)
Q Consensus 248 ~~~~--------~~~~~~~~~~~g~l~~~~~--~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 311 (932)
.... ..-.++..+++|.+++-.- .++ .....+|...+.+...... +......++.++|||+
T Consensus 273 d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~---~~~~~~~~~~~ayd~I 349 (865)
T KOG1055|consen 273 DNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP---EETGGFQEAPLAYDAI 349 (865)
T ss_pred cchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc---ccccCcccCchHHHHH
Confidence 2221 1223466778887776532 221 2234556555544433110 1115577889999999
Q ss_pred HHHHHHHHHhccccccccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEeeCCccccccEEEEEeecC-eE
Q 002352 312 RALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFVDGQLQSSAFEIINVNNG-AR 390 (932)
Q Consensus 312 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~~g~~~~~~~~I~n~~~g-~~ 390 (932)
|++|+|++++...... .. -...| .....-.-...+++++.+++|+|++|.+.|.+|+|. ....|-++++| .+
T Consensus 350 wa~ala~n~t~e~l~~---~~--~~l~~-f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~geR~-a~t~ieQ~qdg~y~ 422 (865)
T KOG1055|consen 350 WALALALNKTMEGLGR---SH--VRLED-FNYNNKTIADQIYEAMNSTSFEGVSGHVVFSNGERM-ALTLIEQFQDGKYK 422 (865)
T ss_pred HHHHHHHHHHHhcCCc---cc--eeccc-cchhhhHHHHHHHHHhhcccccccccceEecchhhH-HHHHHHHHhCCceE
Confidence 9999999998654210 00 00011 111122346799999999999999999999889975 56677777744 99
Q ss_pred EEEEEcCCCCccccccCCCccCCCccceEeCCC
Q 002352 391 GVGFWTPEKGLTLKLRSNSTTKSKLRPIIWPGD 423 (932)
Q Consensus 391 ~vG~w~~~~g~~~~~~~~~~~~~~~~~i~Wpg~ 423 (932)
.+|.|+...+ .++ -.++-.|-|+
T Consensus 423 k~g~Yds~~D---~ls-------~~n~~~w~~g 445 (865)
T KOG1055|consen 423 KIGYYDSTKD---DLS-------WINTEKWIGG 445 (865)
T ss_pred eecccccccc---hhh-------ccccceEecc
Confidence 9999997654 222 2344567766
No 78
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.96 E-value=3e-27 Score=258.18 Aligned_cols=290 Identities=13% Similarity=0.080 Sum_probs=229.3
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEE
Q 002352 32 GKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPIL 111 (932)
Q Consensus 32 g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~I 111 (932)
+.....|++||+++||+.||++|++++++..|. ++|..++..+.+|+. ++|.+|+|+.+|.++.++.+++++.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~-~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLA-QGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHH-CCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 456789999999999999999999999999985 689999999999996 589999999999999999999999999999
Q ss_pred ecccCCCCccCC-CCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCC
Q 002352 112 SFSATSPSLTSI-RSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISP 190 (932)
Q Consensus 112 s~~a~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 190 (932)
+++++++.++.. -++|+||+.|++..++.++++++...+.++|++|+.|++||....+.+++.+++.|++|+..+.++.
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 999989888864 4799999999999999999999977799999999999999999999999999999999998888764
Q ss_pred CCC--hhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChhhhhhccceEEEe
Q 002352 191 LAT--DDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVR 268 (932)
Q Consensus 191 ~~~--~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~ 268 (932)
..+ ..|+.......+.+++|+|++.....+....+.... +...+ .+. ..|+....
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~~~~---~~g------------------~~G~~~~~ 224 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WLPRP---VAG------------------SAGLVPTA 224 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--ccccc---ccc------------------ccCccccc
Confidence 422 234443222233589999998765544322111000 00000 111 12222111
Q ss_pred e-cCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhccccccccccccCCCCCccccccccC
Q 002352 269 P-YVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKTNVSSNATDLEAFGISR 347 (932)
Q Consensus 269 ~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (932)
. +..+.+..++|.++|+++|+. .|+.+++.+||++++++.|+++++++
T Consensus 225 ~~~~~~~~~~~~f~~~f~~~~g~--------~p~~~~a~aY~av~~~a~Ai~~AGs~----------------------- 273 (347)
T TIGR03863 225 WHRAWERWGATQLQSRFEKLAGR--------PMTELDYAAWLAVRAVGEAVTRTRSA----------------------- 273 (347)
T ss_pred cCCcccchhHHHHHHHHHHHhCC--------CCChHHHHHHHHHHHHHHHHHHhcCC-----------------------
Confidence 1 122346789999999999977 67888999999999999999999865
Q ss_pred ChHHHHHHhhccee--eeeee-eEEee--CCcccc
Q 002352 348 NGPKLLQALSSTRF--KGLTG-DYVFV--DGQLQS 377 (932)
Q Consensus 348 ~g~~l~~~L~~~~f--~G~tG-~~~f~--~g~~~~ 377 (932)
++.+|.++|+++++ ++..| ++.|. |||...
T Consensus 274 d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~ 308 (347)
T TIGR03863 274 DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQ 308 (347)
T ss_pred CHHHHHHHHcCCCceecccCCCcceeeCCCccccc
Confidence 68999999999877 57887 69994 777543
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=1e-26 Score=257.72 Aligned_cols=309 Identities=18% Similarity=0.133 Sum_probs=252.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||+++|++| ..|.....|+++|++++|+.|++.|++++++++|+++++..+.+++.+|+.+++|.+|||+.++..+
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~ 80 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGG 80 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccch
Confidence 6999999997 6688999999999999999999999999999999999999999999999998899999999988877
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC-cCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ-YGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l 175 (932)
.++ +.+++.++|+|+.+++++.+.. .|++|++.+++..+..++++++...+.+++++++.++. ||......+++++
T Consensus 81 ~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~ 157 (341)
T cd06341 81 SAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSL 157 (341)
T ss_pred hHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHH
Confidence 666 8889999999998776665543 57889999999999999999998888999999987665 9999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc-cchhcccCC
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG-MTNLLRTLE 254 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~-~~~~~~~~~ 254 (932)
++.|+++.....++. ...|+...+.++++.++|+|++..+...+..+++++++.|+..+ .+.... ..... .
T Consensus 158 ~~~G~~v~~~~~~~~--~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~---~~~~~~~~~~~~--~- 229 (341)
T cd06341 158 AAAGVSVAGIVVITA--TAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPK---VVLSGTCYDPAL--L- 229 (341)
T ss_pred HHcCCccccccccCC--CCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCC---EEEecCCCCHHH--H-
Confidence 999999887665543 35679999999999999999999988899999999999999776 233222 21111 1
Q ss_pred hhhhhhccceEEEeecCC---CChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccccccc
Q 002352 255 PSVIDSMQGVIGVRPYVP---KTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFGFDKT 331 (932)
Q Consensus 255 ~~~~~~~~g~l~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~~~~~ 331 (932)
....+..+|++...++.+ +.|..++|.+.+++ |+..+ ...++.++..+||+++++++|+++++..
T Consensus 230 ~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~----~~~~~~~~~~~yda~~~~~~a~~~ag~~------- 297 (341)
T cd06341 230 AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMAR-YAPQL----DPPEQGFALIGYIAADLFLRGLSGAGGC------- 297 (341)
T ss_pred HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHH-hCCCC----CCCcchHHHHHHHHHHHHHHHHHhcCCC-------
Confidence 123356789888877665 46778888876554 33211 1157889999999999999999998743
Q ss_pred ccCCCCCccccccccCChHH-HHHHhhcceeeeeee
Q 002352 332 NVSSNATDLEAFGISRNGPK-LLQALSSTRFKGLTG 366 (932)
Q Consensus 332 ~~~~~~~~~~~~~~~~~g~~-l~~~L~~~~f~G~tG 366 (932)
.+++. +.++|++++.....|
T Consensus 298 ---------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 ---------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred ---------------CChHHHHHHHhhcCCCCCCCC
Confidence 14566 999999997654444
No 80
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=2e-26 Score=251.96 Aligned_cols=284 Identities=19% Similarity=0.230 Sum_probs=235.4
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||+++|++| ..|.....|+++|++++|+ |++.|+++++.+.|+++++..+.+.+.+|+.+++|.+|||+.++..+
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~ 79 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPAT 79 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHH
Confidence 6999999998 5578889999999999999 99999999999999999999999999999987899999999988888
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ 176 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 176 (932)
.++.+.+.+.++|+|+++++++.+. ...+|+||+.+++..++..+++++...||++|++++.++.+|....+.+.++++
T Consensus 80 ~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~~ 158 (312)
T cd06333 80 MAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALAP 158 (312)
T ss_pred HHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHHH
Confidence 8888999999999999877654333 346899999999999999999999999999999999988999999999999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCChh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEPS 256 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~~ 256 (932)
+.|+++.....++. ...++...+.++++.++|+|++......+..+++++++.|+..+ ++.+++... .+ ....
T Consensus 159 ~~G~~v~~~~~~~~--~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~-~~-~~~~ 231 (312)
T cd06333 159 KYGIEVVADERYGR--TDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVAS-PD-FLRL 231 (312)
T ss_pred HcCCEEEEEEeeCC--CCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCc-HH-HHHH
Confidence 99999887666653 33468889999988899999999888888889999999998766 555544332 11 1112
Q ss_pred hhhhccceEEEeec------CC----CChhHHHHHHHHHHhhhccCCCCCccc-cchhhHHHHHHHHHHHHHHHHhc
Q 002352 257 VIDSMQGVIGVRPY------VP----KTKAFENFRVRWKRKFLQENPSLFDVE-LNILGLFAYDATRALAVAVEKAG 322 (932)
Q Consensus 257 ~~~~~~g~l~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~a~~~YDav~~la~Al~~~~ 322 (932)
..+..+|++....+ .| ..+..++|.++|+++|+. + ++.+++.+||++++++ +..+.
T Consensus 232 ~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~--------~~~~~~~~~~Yda~~~~~--~~~~~ 298 (312)
T cd06333 232 AGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA--------GSVSTFGGHAYDALLLLA--VYNMS 298 (312)
T ss_pred hhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC--------CCCCchhHHHHHHHHHHH--eeccC
Confidence 33457887765422 22 245789999999999976 4 7889999999999999 44443
No 81
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.95 E-value=2.9e-26 Score=249.22 Aligned_cols=225 Identities=28% Similarity=0.407 Sum_probs=206.1
Q ss_pred EEEEEEeCCC-----ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc----CCeEEEEcc
Q 002352 20 NVGLVLDMNG-----EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNN----VLVQAILGP 90 (932)
Q Consensus 20 ~IG~i~~~s~-----~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~----~~v~aiiGp 90 (932)
+||++++.++ ..+.....++..|++++|+. +.++++++.++|+++++..+...+.+++.+ .++.+|+||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~--~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~ 78 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND--LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGP 78 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc--CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECC
Confidence 4899999875 34566788899999999987 668999999999999999999999999986 799999999
Q ss_pred CChhHHHHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHH
Q 002352 91 EKSMQTNFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIP 169 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~ 169 (932)
.++..+.+++.+++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|+++++|....+
T Consensus 79 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~~ 158 (298)
T cd06269 79 SSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLLE 158 (298)
T ss_pred CCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHHH
Confidence 99999999999999999999999998888876 56899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchh
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNL 249 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~ 249 (932)
.+++.+++.|+++.....++. ...++...++++++.++++|++++.++.+..++++|++.||+ .+++||.++.|...
T Consensus 159 ~~~~~~~~~~~~v~~~~~~~~--~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~~ 235 (298)
T cd06269 159 LLEEELEKNGICVAFVESIPD--GSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLWLTS 235 (298)
T ss_pred HHHHHHHHCCeeEEEEEEcCC--CHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChhhcc
Confidence 999999999999998877653 347899999999999999999999999999999999999999 89999999988653
No 82
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=5.3e-26 Score=247.19 Aligned_cols=281 Identities=23% Similarity=0.317 Sum_probs=237.7
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++| ..|.....|+++|++++|+.+++.|++++++++|+++++..+.+.+.+++.+++|.+||||.++..+
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~ 80 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGVA 80 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 5999999998 5678899999999999999998889999999999999999999999999988899999999999999
Q ss_pred HHHHHhcCCCCccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.+++.+++..+||+|++.+.++.+.. ..+|+++++.|++..++.++++++++++|+++++++.++.++....+.+.+.+
T Consensus 81 ~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~~ 160 (299)
T cd04509 81 LAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAAF 160 (299)
T ss_pred HHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHHH
Confidence 99999999999999999887776654 46899999999999999999999999999999999999989999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|+++.....++. ..+++...++++++.++++|++++++..+..+++++++.|+. .++.|+..+.+...... .
T Consensus 161 ~~~g~~i~~~~~~~~--~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~--~ 235 (299)
T cd04509 161 KKKGGTVVGEEYYPL--GTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL--E 235 (299)
T ss_pred HHcCCEEEEEecCCC--CCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH--H
Confidence 999999876655543 335688899999888899999999889999999999999998 78889998877543221 1
Q ss_pred hhhhhccceEEEeecCCCCh--hHHHHH---HHHHHhhhccCCCCCccccchhhHHHHHHHHH
Q 002352 256 SVIDSMQGVIGVRPYVPKTK--AFENFR---VRWKRKFLQENPSLFDVELNILGLFAYDATRA 313 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 313 (932)
...+.++|+++..++.+..+ ..+.|. ..+++.++. .++.+++.+||++++
T Consensus 236 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~yda~~~ 290 (299)
T cd04509 236 AGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYED--------QPDYFAALAYDAVLL 290 (299)
T ss_pred HhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCC--------CCChhhhhhcceeee
Confidence 23466889988887765433 333333 344444433 688999999999987
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=3.8e-24 Score=232.47 Aligned_cols=280 Identities=25% Similarity=0.361 Sum_probs=238.5
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+||+++|++| ..|.....|+++|++++|+.+++.|++++++++|+++++..+.+.+.+++++ +|.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~~-~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVDD-GVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHhC-CceEEEcCCcchhH
Confidence 5999999997 6688899999999999999999899999999999999999999999999987 99999999999888
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcC-CeEEEEEEEcCCcCCChHHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFG-WREAVPIYVDNQYGEEMIPSLTDAL 175 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~~~~l~~~l 175 (932)
.++...+...+||+|++.+..+.+.+..+|++|++.+++..++.+++++++..+ |+++++++.+++++....+.+.+++
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 899999999999999998877665544579999999999999999999998887 9999999999899999999999999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
++.|+++.....++. ...++...+.++++.++++|++.+.+..+..+++++++.|+..+ |+..+.+...... .
T Consensus 160 ~~~g~~i~~~~~~~~--~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~--~ 232 (298)
T cd06268 160 KKLGGEVVAEETYPP--GATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLKVP---IVGGDGAAAPALL--E 232 (298)
T ss_pred HHcCCEEEEEeccCC--CCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEecCccCCHHHH--H
Confidence 999999887666543 33568899999998999999999988899999999999998444 7877766542211 1
Q ss_pred hhhhhccceEEEeecCCC--ChhHHHHH-HHHHHhhhccCCCCCccccchhhHHHHHHHHHHH
Q 002352 256 SVIDSMQGVIGVRPYVPK--TKAFENFR-VRWKRKFLQENPSLFDVELNILGLFAYDATRALA 315 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la 315 (932)
...+..+|+++..++.+. .+....|. +.|+++++. .++.++..+||++++++
T Consensus 233 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 233 LAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGR--------PPDSYAAAAYDAVRLLA 287 (298)
T ss_pred hhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhCC--------CcccchHHHHHHHHHHc
Confidence 233567888888877654 34455565 788888766 78899999999999998
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=99.89 E-value=4.6e-21 Score=200.55 Aligned_cols=323 Identities=12% Similarity=0.092 Sum_probs=241.4
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCcEEEE----------EEecCCC--CHHHHHHHHHHHHhc-CCeEEEEccCChhHHHH
Q 002352 32 GKIALSCINMSLSDFYNSNSHYKTRLLL----------NTRNSKG--DVVAAAAAALDLLNN-VLVQAILGPEKSMQTNF 98 (932)
Q Consensus 32 g~~~~~a~~lAv~~iN~~~~~~g~~l~~----------~~~D~~~--~~~~a~~~a~~li~~-~~v~aiiGp~~s~~a~~ 98 (932)
-+....|++.|++.+++...-.|.++.+ +..+.+| +.-+++++..+|..+ +.-.+++||.|.-++-+
T Consensus 17 ~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 17 LKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 4567889999999998765444666766 5555554 456778888888765 45789999999999999
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHH------HcCCeEEEEEEEcCCcCC---ChHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIK------AFGWREAVPIYVDNQYGE---EMIP 169 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~------~~~w~~v~ii~~d~~~g~---~~~~ 169 (932)
++++...+++|+||.++ -.++-..++++-|+.|+....+..+.++.+ +++|+++. ||.+++--+ =.++
T Consensus 97 ~~~~~~~~~~P~ISaGs--fglscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGS--FGLSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccc--cccCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 99999999999999766 333333456999999999999999999994 89998666 887653221 1255
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchh
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNL 249 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~ 249 (932)
++....+.-+..+...... .+.+++.++++..+ .++||||+++.+++.++++.+ ++...+|++|.-|.+...
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 6666555555455443332 34467888888765 789999999999999999886 444569999999877643
Q ss_pred cccCChhhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccc-hhhHHHHHHHHHHHHHHHHhccccccc
Q 002352 250 LRTLEPSVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELN-ILGLFAYDATRALAVAVEKAGITSFGF 328 (932)
Q Consensus 250 ~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~a~~~YDav~~la~Al~~~~~~~~~~ 328 (932)
.. .+.....+++.++.+++..|..+.++++ ..+.. ... .+++..||||.++|+||++.....
T Consensus 246 y~-~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~fn~--------~l~~~~aa~fyDaVLLYa~AL~EtL~~G--- 308 (380)
T cd06369 246 YY-ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTDNS--------LLKDDYVAAYHDGVLLFGHVLKKFLESQ--- 308 (380)
T ss_pred hc-cCcchHHHHhceEEEecCCCCCcccccC-----CCCCc--------chHHHHHHHHHHHHHHHHHHHHHHHHhC---
Confidence 32 2234567899999999888765544431 11111 222 899999999999999999986431
Q ss_pred cccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEEEEee---cCeEEEEEEcCCC
Q 002352 329 DKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEIINVN---NGARGVGFWTPEK 399 (932)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I~n~~---~g~~~vG~w~~~~ 399 (932)
+. ..+..+.+.|+|.+|+|++|.+.+| +||| ..+|.++-+. .+++.||.|+...
T Consensus 309 ---------------~~-~~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 309 ---------------EG-VQTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred ---------------CC-CCcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 11 2348899999999999999999997 9997 5899999887 4499999999744
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.88 E-value=2e-21 Score=204.50 Aligned_cols=222 Identities=22% Similarity=0.368 Sum_probs=187.2
Q ss_pred CCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcC
Q 002352 436 NKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRG 515 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g 515 (932)
..++|+|++. ++|+||.+.+ ++++.|+++|+++++++++|. ++++++.+ |.+++..+.+|
T Consensus 23 ~~~~l~v~~~--~~~~P~~~~~-------~g~~~G~~vdl~~~ia~~lg~--~~~~~~~~---------~~~~~~~l~~G 82 (247)
T PRK09495 23 ADKKLVVATD--TAFVPFEFKQ-------GDKYVGFDIDLWAAIAKELKL--DYTLKPMD---------FSGIIPALQTK 82 (247)
T ss_pred cCCeEEEEeC--CCCCCeeecC-------CCceEEEeHHHHHHHHHHhCC--ceEEEeCC---------HHHHHHHHhCC
Confidence 3567999974 3466676532 567999999999999999994 56666543 99999999999
Q ss_pred cccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 002352 516 KFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNED 595 (932)
Q Consensus 516 ~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~ 595 (932)
++|+++++++.+++|.+.++||.||+.+++.+++++...
T Consensus 83 ~vDi~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------- 121 (247)
T PRK09495 83 NVDLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNN----------------------------------------- 121 (247)
T ss_pred CcCEEEecCccCHHHHhhccccchheecceEEEEECCCC-----------------------------------------
Confidence 999998889999999999999999999999999975532
Q ss_pred CCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCc
Q 002352 596 FRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDN 675 (932)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 675 (932)
.+++++||. |++
T Consensus 122 ------------------------------------------------------------------~~~~~~dL~--g~~ 133 (247)
T PRK09495 122 ------------------------------------------------------------------DIKSVKDLD--GKV 133 (247)
T ss_pred ------------------------------------------------------------------CCCChHHhC--CCE
Confidence 278999998 999
Q ss_pred EEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEecccccccceE
Q 002352 676 VGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIERTFETAGFG 754 (932)
Q Consensus 676 vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~ 754 (932)
||+..|+....+++.. .+..++..+++.++++++|.+|+ +|+++.+...+.+++++. ...+..++.......++
T Consensus 134 I~v~~g~~~~~~l~~~-~~~~~i~~~~~~~~~~~~L~~gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (247)
T PRK09495 134 VAVKSGTGSVDYAKAN-IKTKDLRQFPNIDNAYLELGTGR----ADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYG 208 (247)
T ss_pred EEEecCchHHHHHHhc-CCCCceEEcCCHHHHHHHHHcCc----eeEEEeChHHHHHHHHhCCCCceEEecCcccccceE
Confidence 9999998888888764 45557778899999999999999 999999988888777664 34466776666777889
Q ss_pred EEecCCCCChHHHHHHHHhhhccchHHHHHHHhccCC
Q 002352 755 FAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWFKKR 791 (932)
Q Consensus 755 ~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~~~~ 791 (932)
++++|++.+++.+|++|.++.++|.++++.++|+...
T Consensus 209 ~a~~~~~~l~~~~n~al~~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 209 IAFPKGSELREKVNGALKTLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred EEEcCcHHHHHHHHHHHHHHHHCCcHHHHHHHHcCCC
Confidence 9999988999999999999999999999999999754
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.87 E-value=1.9e-21 Score=209.08 Aligned_cols=224 Identities=17% Similarity=0.230 Sum_probs=185.0
Q ss_pred CCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHH----HCCC-cccEEEEeccCCCCCCCCCHHHHHH
Q 002352 436 NKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIE----ELPY-AVAYDFVPYAQPDGTSSGSYNDLMY 510 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~----~l~f-~~~~~~~~~~~~~g~~ngs~~~li~ 510 (932)
..+.|+||+. +.|+||.+.+. ++++.||++|++++|++ +||. .+++++++.. |..++.
T Consensus 38 ~~g~L~Vg~~--~~~pP~~f~~~------~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~~---------~~~~i~ 100 (302)
T PRK10797 38 KNGVIVVGHR--ESSVPFSYYDN------QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPIT---------SQNRIP 100 (302)
T ss_pred hCCeEEEEEc--CCCCCcceECC------CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEcC---------hHhHHH
Confidence 3567999985 45667777542 56799999997777655 6764 3678888864 778999
Q ss_pred HHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhc
Q 002352 511 QVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEH 590 (932)
Q Consensus 511 ~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~ 590 (932)
.|..|++|++++++++|++|.+.++||.||+.++..+++++.+ .
T Consensus 101 ~L~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~--~---------------------------------- 144 (302)
T PRK10797 101 LLQNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG--D---------------------------------- 144 (302)
T ss_pred HHHCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCC--C----------------------------------
Confidence 9999999999999999999999999999999999999998652 1
Q ss_pred ccCCCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHH
Q 002352 591 RVNEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLI 670 (932)
Q Consensus 591 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~ 670 (932)
|++++||.
T Consensus 145 ------------------------------------------------------------------------i~sl~dL~ 152 (302)
T PRK10797 145 ------------------------------------------------------------------------IKDFADLK 152 (302)
T ss_pred ------------------------------------------------------------------------CCChHHcC
Confidence 68999998
Q ss_pred hCCCcEEEEcChhHHHHHHhcC---CCcccccccCCHHHHHHHhhcccCCCceeEEEeccccccccccc--CCcceEEec
Q 002352 671 KSGDNVGYRKDSFVFGILKQLG---FDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQ--YCSKYTLIE 745 (932)
Q Consensus 671 ~~~~~vg~~~~s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~--~~~~l~~~~ 745 (932)
|++||+..|+....++++.. .+..+++.+.+.++++++|..|+ +||++.+...+.+.+.+ ..+.+++++
T Consensus 153 --Gk~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~Gr----vDa~i~d~~~~~~~~~~~~~~~~l~i~~ 226 (302)
T PRK10797 153 --GKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGR----AVAFMMDDALLAGERAKAKKPDNWEIVG 226 (302)
T ss_pred --CCEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCC----ceEEEccHHHHHHHHHcCCCCcceEECC
Confidence 99999999999888886532 22356778899999999999999 99999987766543332 234477788
Q ss_pred ccccccceEEEecCCCC-ChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 746 RTFETAGFGFAFPLHSP-LVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 746 ~~~~~~~~~~~~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
+.+...+++++++|+++ ++..+|.+|.+++++|.+++|.++|++.
T Consensus 227 ~~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 227 KPQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred ccCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 77777889999999765 9999999999999999999999999974
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=99.85 E-value=5.2e-21 Score=198.57 Aligned_cols=223 Identities=22% Similarity=0.345 Sum_probs=181.1
Q ss_pred EEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccE
Q 002352 440 LRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDA 519 (932)
Q Consensus 440 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~ 519 (932)
||||+. +.++||.+.+. +++..|+++||++++++++|++ +++++.. |.+++.+|.+|++|+
T Consensus 1 l~V~~~--~~~~P~~~~~~------~~~~~G~~~dl~~~i~~~~g~~--~~~~~~~---------~~~~~~~l~~g~~D~ 61 (225)
T PF00497_consen 1 LRVGVD--EDYPPFSYIDE------DGEPSGIDVDLLRAIAKRLGIK--IEFVPMP---------WSRLLEMLENGKADI 61 (225)
T ss_dssp EEEEEE--SEBTTTBEEET------TSEEESHHHHHHHHHHHHHTCE--EEEEEEE---------GGGHHHHHHTTSSSE
T ss_pred CEEEEc--CCCCCeEEECC------CCCEEEEhHHHHHHHHhhcccc--cceeecc---------ccccccccccccccc
Confidence 688883 24556777765 6789999999999999999965 5555543 899999999999999
Q ss_pred EEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCCc
Q 002352 520 VVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRGP 599 (932)
Q Consensus 520 ~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~~ 599 (932)
++++++.+++|.+.++||.||+....++++++.+...
T Consensus 62 ~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~------------------------------------------- 98 (225)
T PF00497_consen 62 IIGGLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPP------------------------------------------- 98 (225)
T ss_dssp EESSEB-BHHHHTTEEEESESEEEEEEEEEETTSTCS-------------------------------------------
T ss_pred ccccccccccccccccccccccchhheeeeccccccc-------------------------------------------
Confidence 9999999999999999999999999999999653211
Q ss_pred ccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEEEE
Q 002352 600 AQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVGYR 679 (932)
Q Consensus 600 ~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg~~ 679 (932)
...+++++||. ++++|+.
T Consensus 99 ------------------------------------------------------------~~~~~~~~dl~--~~~i~~~ 116 (225)
T PF00497_consen 99 ------------------------------------------------------------IKTIKSLDDLK--GKRIGVV 116 (225)
T ss_dssp ------------------------------------------------------------TSSHSSGGGGT--TSEEEEE
T ss_pred ------------------------------------------------------------cccccchhhhc--Ccccccc
Confidence 11267788996 8899999
Q ss_pred cChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCC-cceEEecccccccceEEEec
Q 002352 680 KDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYC-SKYTLIERTFETAGFGFAFP 758 (932)
Q Consensus 680 ~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~ 758 (932)
.|+...+++++......+++.+.+.++++++|.+|+ +++++.+...+.+++++.. .............++++++.
T Consensus 117 ~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~----~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (225)
T PF00497_consen 117 RGSSYADYLKQQYPSNINIVEVDSPEEALEALLSGR----IDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVR 192 (225)
T ss_dssp TTSHHHHHHHHHTHHTSEEEEESSHHHHHHHHHTTS----SSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEE
T ss_pred cchhHHHHhhhhccchhhhcccccHHHHHHHHhcCC----eeeeeccchhhhhhhhhcccccccccccccccceeEEeec
Confidence 999888888774222456778999999999999999 9999999999999998873 22333245555666667776
Q ss_pred C-CCCChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 759 L-HSPLVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 759 k-~s~l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
+ ++.+++.||++|.++.++|.++++.+||+++
T Consensus 193 ~~~~~l~~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 193 KKNPELLEIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp TTTHHHHHHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred ccccHHHHHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 5 6789999999999999999999999999963
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.85 E-value=4.3e-20 Score=196.48 Aligned_cols=225 Identities=19% Similarity=0.307 Sum_probs=188.7
Q ss_pred CCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHc
Q 002352 435 TNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFR 514 (932)
Q Consensus 435 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~ 514 (932)
...++++|++. ..++||.+.+. ++++.|+.+|+++.+++++|. ++++++.. |.+++.+|.+
T Consensus 38 ~~~~~l~v~~~--~~~~P~~~~~~------~g~~~G~~~dl~~~i~~~lg~--~~e~~~~~---------~~~~~~~l~~ 98 (266)
T PRK11260 38 KERGTLLVGLE--GTYPPFSFQGE------DGKLTGFEVEFAEALAKHLGV--KASLKPTK---------WDGMLASLDS 98 (266)
T ss_pred hcCCeEEEEeC--CCcCCceEECC------CCCEEEehHHHHHHHHHHHCC--eEEEEeCC---------HHHHHHHHhc
Confidence 35678999984 34667765432 568999999999999999995 56766643 8999999999
Q ss_pred CcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCC
Q 002352 515 GKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNE 594 (932)
Q Consensus 515 g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~ 594 (932)
|++|+++++++++++|.+.+.||.||+..+..+++++....
T Consensus 99 G~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~--------------------------------------- 139 (266)
T PRK11260 99 KRIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEG--------------------------------------- 139 (266)
T ss_pred CCCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcC---------------------------------------
Confidence 99999998899999999999999999999999998865322
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCC
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGD 674 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 674 (932)
.+++++||. |+
T Consensus 140 -------------------------------------------------------------------~~~~~~dL~--g~ 150 (266)
T PRK11260 140 -------------------------------------------------------------------TIKTAADLK--GK 150 (266)
T ss_pred -------------------------------------------------------------------CCCCHHHcC--CC
Confidence 278899997 89
Q ss_pred cEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEecccccccceE
Q 002352 675 NVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERTFETAGFG 754 (932)
Q Consensus 675 ~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 754 (932)
++|+..|+....++++ .++..++..+++..+++++|.+|+ +|+++.+.....+++++....+.+....+...+++
T Consensus 151 ~Igv~~G~~~~~~l~~-~~~~~~i~~~~~~~~~l~~L~~Gr----vD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (266)
T PRK11260 151 KVGVGLGTNYEQWLRQ-NVQGVDVRTYDDDPTKYQDLRVGR----IDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESG 225 (266)
T ss_pred EEEEecCCcHHHHHHH-hCCCCceEecCCHHHHHHHHHcCC----CCEEEechHHHHHHHHhCCCcceecCCccccCceE
Confidence 9999999988888876 355667788999999999999999 99999998877877776644355556667778899
Q ss_pred EEecCCC-CChHHHHHHHHhhhccchHHHHHHHhccCC
Q 002352 755 FAFPLHS-PLVPEVSRAILNVTEGNKMKEIEDEWFKKR 791 (932)
Q Consensus 755 ~~~~k~s-~l~~~in~~il~l~e~G~~~~~~~~~~~~~ 791 (932)
++++|++ .++..+|++|.++.++|.++++.++|+.+.
T Consensus 226 ~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~~ 263 (266)
T PRK11260 226 VALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWFGAD 263 (266)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCCc
Confidence 9999976 599999999999999999999999999753
No 89
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.83 E-value=2e-19 Score=189.61 Aligned_cols=219 Identities=15% Similarity=0.255 Sum_probs=177.3
Q ss_pred CCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHC-CCcccEEEEeccCCCCCCCCCHHHHHHHHH
Q 002352 435 TNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEEL-PYAVAYDFVPYAQPDGTSSGSYNDLMYQVF 513 (932)
Q Consensus 435 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l-~f~~~~~~~~~~~~~g~~ngs~~~li~~l~ 513 (932)
...++|+||+. ++|+||.+.+. . ++++.||++|++++++++| |..+++++.+.. |...+.+|.
T Consensus 35 ~~~g~l~vg~~--~~~pP~~~~~~----~-~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~~---------~~~~~~~l~ 98 (259)
T PRK11917 35 KSKGQLIVGVK--NDVPHYALLDQ----A-TGEIKGFEIDVAKLLAKSILGDDKKIKLVAVN---------AKTRGPLLD 98 (259)
T ss_pred HhCCEEEEEEC--CCCCCceeeeC----C-CCceeEeeHHHHHHHHHHhcCCCccEEEEEcC---------hhhHHHHHH
Confidence 35678999995 45778876532 1 5689999999999999994 865667777654 667788999
Q ss_pred cCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccC
Q 002352 514 RGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVN 593 (932)
Q Consensus 514 ~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~ 593 (932)
+|++|++++++++|++|.+.++||.||+.++..+++++.++
T Consensus 99 ~g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~--------------------------------------- 139 (259)
T PRK11917 99 NGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKN--------------------------------------- 139 (259)
T ss_pred CCCccEEEecccCChhhhheeeeccCceeeceEEEEECCCC---------------------------------------
Confidence 99999999999999999999999999999999999986531
Q ss_pred CCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCC
Q 002352 594 EDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSG 673 (932)
Q Consensus 594 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 673 (932)
+++++||. |
T Consensus 140 ---------------------------------------------------------------------~~s~~dL~--g 148 (259)
T PRK11917 140 ---------------------------------------------------------------------YKSLADMK--G 148 (259)
T ss_pred ---------------------------------------------------------------------CCCHHHhC--C
Confidence 68899998 9
Q ss_pred CcEEEEcChhHHHHHHhcC---CCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEecccccc
Q 002352 674 DNVGYRKDSFVFGILKQLG---FDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERTFET 750 (932)
Q Consensus 674 ~~vg~~~~s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 750 (932)
++||+..|+...+.+.+.. ....++..+++..+.+++|..|+ +|+++.+...+.++..+. +.++++.+..
T Consensus 149 ~~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~Gr----vDa~~~d~~~~~~~~~~~---~~~~~~~~~~ 221 (259)
T PRK11917 149 ANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKR----VDAFSVDKSILLGYVDDK---SEILPDSFEP 221 (259)
T ss_pred CeEEEecCCcHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHcCC----CcEEEecHHHHHHhhhcC---CeecCCcCCC
Confidence 9999999998776654421 12235567889999999999999 999999887665554432 3566677778
Q ss_pred cceEEEecCCCC-ChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 751 AGFGFAFPLHSP-LVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 751 ~~~~~~~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
.+++++++|+.+ ++..+|+.|.++.. .+++|.+||-
T Consensus 222 ~~~~~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 222 QSYGIVTKKDDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred CceEEEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 889999999765 89999999999864 8999999994
No 90
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.82 E-value=3.6e-19 Score=188.71 Aligned_cols=222 Identities=14% Similarity=0.245 Sum_probs=175.4
Q ss_pred CCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcC
Q 002352 436 NKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRG 515 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g 515 (932)
..++|+|++. +.|+||.+.+. ++++.|+++||++++++++|. ++++++. +|+.++.++..|
T Consensus 24 ~~~~l~v~~~--~~~pPf~~~~~------~g~~~G~~vdl~~~ia~~lg~--~~~~~~~---------~~~~~~~~l~~g 84 (260)
T PRK15010 24 LPETVRIGTD--TTYAPFSSKDA------KGDFVGFDIDLGNEMCKRMQV--KCTWVAS---------DFDALIPSLKAK 84 (260)
T ss_pred cCCeEEEEec--CCcCCceeECC------CCCEEeeeHHHHHHHHHHhCC--ceEEEeC---------CHHHHHHHHHCC
Confidence 4578999984 44667787543 568999999999999999995 5666654 399999999999
Q ss_pred cccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 002352 516 KFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNED 595 (932)
Q Consensus 516 ~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~ 595 (932)
++|++++++..|++|.+.++||.||+.+..++++++....
T Consensus 85 ~~Di~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (260)
T PRK15010 85 KIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI---------------------------------------- 124 (260)
T ss_pred CCCEEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC----------------------------------------
Confidence 9999998899999999999999999999999999876322
Q ss_pred CCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCc
Q 002352 596 FRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDN 675 (932)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 675 (932)
..+++||. |++
T Consensus 125 -------------------------------------------------------------------~~~~~dl~--g~~ 135 (260)
T PRK15010 125 -------------------------------------------------------------------QPTLDSLK--GKH 135 (260)
T ss_pred -------------------------------------------------------------------CCChhHcC--CCE
Confidence 23688997 899
Q ss_pred EEEEcChhHHHHHHhcC-CCcccccccCCHHHHHHHhhcccCCCceeEEEeccccccc-ccccC-CcceEEecccc----
Q 002352 676 VGYRKDSFVFGILKQLG-FDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKP-FIGQY-CSKYTLIERTF---- 748 (932)
Q Consensus 676 vg~~~~s~~~~~l~~~~-~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~-~~~~~-~~~l~~~~~~~---- 748 (932)
||+..|+....++.... ....++..+.+.++++++|.+|+ +|+++.+...+.+ +.++. ...+...+..+
T Consensus 136 Igv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gr----iDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (260)
T PRK15010 136 VGVLQGSTQEAYANETWRSKGVDVVAYANQDLVYSDLAAGR----LDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKK 211 (260)
T ss_pred EEEecCchHHHHHHHhcccCCceEEecCCHHHHHHHHHcCC----ccEEEeCcHHHHHHHHhCCCCCceEEecCcccccc
Confidence 99999998877775421 12235667889999999999999 9999998776653 33332 34455554332
Q ss_pred -cccceEEEecCCC-CChHHHHHHHHhhhccchHHHHHHHhcc
Q 002352 749 -ETAGFGFAFPLHS-PLVPEVSRAILNVTEGNKMKEIEDEWFK 789 (932)
Q Consensus 749 -~~~~~~~~~~k~s-~l~~~in~~il~l~e~G~~~~~~~~~~~ 789 (932)
....++++++++. .|+..+|++|.++.++|.++++.+||++
T Consensus 212 ~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 212 YFGDGTGVGLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred ccCCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 2234578888865 6999999999999999999999999995
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.82 E-value=4.4e-19 Score=186.39 Aligned_cols=217 Identities=18% Similarity=0.337 Sum_probs=176.1
Q ss_pred CCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCc
Q 002352 437 KRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGK 516 (932)
Q Consensus 437 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~ 516 (932)
.++|+|++. +.++||.+.+. ++++.|+++|+++++++++|.+ ++++.. +|..++..+.+|+
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~------~g~~~G~~~dl~~~i~~~lg~~--~~~~~~---------~~~~~~~~l~~g~ 80 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDA------NNQIVGFDVDLAQALCKEIDAT--CTFSNQ---------AFDSLIPSLKFRR 80 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCC------CCCEEeeeHHHHHHHHHHhCCc--EEEEeC---------CHHHHhHHHhCCC
Confidence 567999995 34556776543 6789999999999999999955 666543 3999999999999
Q ss_pred ccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCC
Q 002352 517 FDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDF 596 (932)
Q Consensus 517 ~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~ 596 (932)
+|+++++++.+++|.+.++||.||+..+..++.+...
T Consensus 81 ~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~------------------------------------------- 117 (243)
T PRK15007 81 VEAVMAGMDITPEREKQVLFTTPYYDNSALFVGQQGK------------------------------------------- 117 (243)
T ss_pred cCEEEEcCccCHHHhcccceecCccccceEEEEeCCC-------------------------------------------
Confidence 9999888899999999999999999988777765331
Q ss_pred CCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcE
Q 002352 597 RGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNV 676 (932)
Q Consensus 597 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v 676 (932)
+++++||. |++|
T Consensus 118 ------------------------------------------------------------------~~~~~dL~--g~~I 129 (243)
T PRK15007 118 ------------------------------------------------------------------YTSVDQLK--GKKV 129 (243)
T ss_pred ------------------------------------------------------------------CCCHHHhC--CCeE
Confidence 57899997 8999
Q ss_pred EEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEeccc-----cccc
Q 002352 677 GYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERT-----FETA 751 (932)
Q Consensus 677 g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~ 751 (932)
|+..|+...+++++. .+..+++.+++.++++++|.+|+ +|+++.+...+.+++++... +..++.. +...
T Consensus 130 gv~~g~~~~~~l~~~-~~~~~~~~~~~~~~~~~~L~~gr----vDa~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 203 (243)
T PRK15007 130 GVQNGTTHQKFIMDK-HPEITTVPYDSYQNAKLDLQNGR----IDAVFGDTAVVTEWLKDNPK-LAAVGDKVTDKDYFGT 203 (243)
T ss_pred EEecCcHHHHHHHHh-CCCCeEEEcCCHHHHHHHHHcCC----CCEEEeCHHHHHHHHhcCCC-ceeecCcccccccCCc
Confidence 999999888888763 45556777899999999999999 99999998877777765533 3333322 2234
Q ss_pred ceEEEecCC-CCChHHHHHHHHhhhccchHHHHHHHhcc
Q 002352 752 GFGFAFPLH-SPLVPEVSRAILNVTEGNKMKEIEDEWFK 789 (932)
Q Consensus 752 ~~~~~~~k~-s~l~~~in~~il~l~e~G~~~~~~~~~~~ 789 (932)
.++++++++ .+++..||++|.++.++|.++++.++|+.
T Consensus 204 ~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 204 GLGIAVRQGNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred ceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 578999885 47999999999999999999999999985
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.81 E-value=6.4e-19 Score=186.14 Aligned_cols=218 Identities=19% Similarity=0.384 Sum_probs=180.7
Q ss_pred CcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcc
Q 002352 438 RKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKF 517 (932)
Q Consensus 438 ~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~ 517 (932)
++|+|++. +.|+||.+.+. +++++|+++|+++.+++++|. ++++++. +|..++.+|.+|++
T Consensus 24 ~~l~v~~~--~~~~P~~~~~~------~g~~~G~~~dl~~~i~~~lg~--~~~~~~~---------~~~~~~~~l~~G~~ 84 (250)
T TIGR01096 24 GSVRIGTE--TGYPPFESKDA------NGKLVGFDVDLAKALCKRMKA--KCKFVEQ---------NFDGLIPSLKAKKV 84 (250)
T ss_pred CeEEEEEC--CCCCCceEECC------CCCEEeehHHHHHHHHHHhCC--eEEEEeC---------CHHHHHHHHhCCCc
Confidence 78999983 45667776543 678999999999999999994 5777664 39999999999999
Q ss_pred cEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCC
Q 002352 518 DAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFR 597 (932)
Q Consensus 518 D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~ 597 (932)
|++++++..+++|.+.+.||.||+..+..+++++....
T Consensus 85 D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~------------------------------------------ 122 (250)
T TIGR01096 85 DAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSDL------------------------------------------ 122 (250)
T ss_pred CEEEecCccCHHHhhccccccchhcCCeEEEEECCCCc------------------------------------------
Confidence 99988888999999999999999999999999865321
Q ss_pred CcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEE
Q 002352 598 GPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVG 677 (932)
Q Consensus 598 ~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg 677 (932)
+.+++||. |+++|
T Consensus 123 -----------------------------------------------------------------~~~~~dl~--g~~i~ 135 (250)
T TIGR01096 123 -----------------------------------------------------------------AKTLEDLD--GKTVG 135 (250)
T ss_pred -----------------------------------------------------------------CCChHHcC--CCEEE
Confidence 46789997 88999
Q ss_pred EEcChhHHHHHHhcCCC-cccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCC--cceEEecccccc----
Q 002352 678 YRKDSFVFGILKQLGFD-EKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYC--SKYTLIERTFET---- 750 (932)
Q Consensus 678 ~~~~s~~~~~l~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~--~~l~~~~~~~~~---- 750 (932)
+..|+....++.+. ++ ..++..+.+.++++++|.+|+ +|+++.+...+.+++++.. +++.+++..+..
T Consensus 136 ~~~g~~~~~~l~~~-~~~~~~~~~~~s~~~~~~~L~~g~----vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 210 (250)
T TIGR01096 136 VQSGTTHEQYLKDY-FKPGVDIVEYDSYDNANMDLKAGR----IDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYF 210 (250)
T ss_pred EecCchHHHHHHHh-ccCCcEEEEcCCHHHHHHHHHcCC----CCEEEeCHHHHHHHHHhCCCCCceEEecccccccccc
Confidence 99999988888764 33 446678899999999999999 9999999988888877653 236666544332
Q ss_pred -cceEEEecCCC-CChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 751 -AGFGFAFPLHS-PLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 751 -~~~~~~~~k~s-~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
..+++++++++ .++..||++|.+|.++|.++.+.+||+
T Consensus 211 ~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 211 GDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 24788999876 599999999999999999999999996
No 93
>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=99.81 E-value=5.6e-19 Score=188.71 Aligned_cols=225 Identities=16% Similarity=0.180 Sum_probs=179.1
Q ss_pred CCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHc
Q 002352 435 TNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFR 514 (932)
Q Consensus 435 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~ 514 (932)
...++|+|++.. ++||.+.+. ++++.|+++||++++++++|.+ .+++... +|+.++..+.+
T Consensus 30 ~~~~~l~v~~~~---~pP~~~~~~------~g~~~G~~~dl~~~i~~~lg~~-~~~~~~~---------~w~~~~~~l~~ 90 (275)
T TIGR02995 30 KEQGFARIAIAN---EPPFTYVGA------DGKVSGAAPDVARAIFKRLGIA-DVNASIT---------EYGALIPGLQA 90 (275)
T ss_pred HhCCcEEEEccC---CCCceeECC------CCceecchHHHHHHHHHHhCCC-ceeeccC---------CHHHHHHHHHC
Confidence 346779999864 456666543 6688999999999999999953 1333332 49999999999
Q ss_pred CcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCC
Q 002352 515 GKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNE 594 (932)
Q Consensus 515 g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~ 594 (932)
|++|+++.++++|++|.+.++||.||+.+..++++++.....
T Consensus 91 G~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~-------------------------------------- 132 (275)
T TIGR02995 91 GRFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKG-------------------------------------- 132 (275)
T ss_pred CCcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCC--------------------------------------
Confidence 999999888999999999999999999999999998764321
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHh-CC
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIK-SG 673 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~ 673 (932)
+++++||.. .|
T Consensus 133 --------------------------------------------------------------------i~~~~dl~~~~g 144 (275)
T TIGR02995 133 --------------------------------------------------------------------LKSYKDIAKNPD 144 (275)
T ss_pred --------------------------------------------------------------------CCCHHHhccCCC
Confidence 678888864 36
Q ss_pred CcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEecccc---c
Q 002352 674 DNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIERTF---E 749 (932)
Q Consensus 674 ~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~---~ 749 (932)
++||+..|+...+++++.+.+..++..+++.++++++|.+|+ +|+++.+...+.+++++. -.++..+.+.. .
T Consensus 145 ~~Igv~~g~~~~~~l~~~~~~~~~i~~~~~~~~~i~~L~~gr----vDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (275)
T TIGR02995 145 AKIAAPGGGTEEKLAREAGVKREQIIVVPDGQSGLKMVQDGR----ADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPV 220 (275)
T ss_pred ceEEEeCCcHHHHHHHHcCCChhhEEEeCCHHHHHHHHHcCC----CCEEecChHHHHHHHHhCCCCCceeecCccCCcc
Confidence 799999999999999886666567778999999999999999 999999998888887654 22343332211 1
Q ss_pred ccceEEEecCC-CCChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 750 TAGFGFAFPLH-SPLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 750 ~~~~~~~~~k~-s~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
...++++++++ ..|++.||++|.++.++|.++++.+||-
T Consensus 221 ~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~ 260 (275)
T TIGR02995 221 RYYGGAAFRPEDKELRDAFNVELAKLKESGEFAKIIAPYG 260 (275)
T ss_pred ccceeEEECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhC
Confidence 12337888875 4699999999999999999999999994
No 94
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.80 E-value=2.1e-18 Score=182.69 Aligned_cols=223 Identities=16% Similarity=0.261 Sum_probs=173.7
Q ss_pred CCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcC
Q 002352 436 NKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRG 515 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g 515 (932)
..++|+|++. +.|+||.+.+. ++++.|+++||++++++++|.+ +++++.+ |+.++.++.+|
T Consensus 24 ~~~~l~v~~~--~~~~P~~~~~~------~g~~~G~~vdi~~~ia~~lg~~--i~~~~~p---------w~~~~~~l~~g 84 (259)
T PRK15437 24 IPQNIRIGTD--PTYAPFESKNS------QGELVGFDIDLAKELCKRINTQ--CTFVENP---------LDALIPSLKAK 84 (259)
T ss_pred cCCeEEEEeC--CCCCCcceeCC------CCCEEeeeHHHHHHHHHHcCCc--eEEEeCC---------HHHHHHHHHCC
Confidence 4578999984 34567776543 6789999999999999999954 6665543 99999999999
Q ss_pred cccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 002352 516 KFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNED 595 (932)
Q Consensus 516 ~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~ 595 (932)
++|+++++++.|++|.+.++||.||...+.++++++..+.
T Consensus 85 ~~D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (259)
T PRK15437 85 KIDAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI---------------------------------------- 124 (259)
T ss_pred CCCEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC----------------------------------------
Confidence 9999999999999999999999999999999999875321
Q ss_pred CCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCc
Q 002352 596 FRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDN 675 (932)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 675 (932)
..+++||. |++
T Consensus 125 -------------------------------------------------------------------~~~~~dl~--g~~ 135 (259)
T PRK15437 125 -------------------------------------------------------------------QPTVESLK--GKR 135 (259)
T ss_pred -------------------------------------------------------------------CCChHHhC--CCE
Confidence 24789997 899
Q ss_pred EEEEcChhHHHHHHhcCC-CcccccccCCHHHHHHHhhcccCCCceeEEEeccccccc-ccccC-CcceEEec-----cc
Q 002352 676 VGYRKDSFVFGILKQLGF-DEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKP-FIGQY-CSKYTLIE-----RT 747 (932)
Q Consensus 676 vg~~~~s~~~~~l~~~~~-~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~-~~~~~-~~~l~~~~-----~~ 747 (932)
||+..|+..+.++++... ...++..+.+.++.+++|.+|+ +|+++.+.....+ +.++. -..+.+.+ +.
T Consensus 136 Igv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~gr----vD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 211 (259)
T PRK15437 136 VGVLQGTTQETFGNEHWAPKGIEIVSYQGQDNIYSDLTAGR----IDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEK 211 (259)
T ss_pred EEEecCcHHHHHHHhhccccCceEEecCCHHHHHHHHHcCC----ccEEEechHHHHHHHHhCCCCCceEEecCcccccc
Confidence 999999988888765322 2245678889999999999999 9999988765542 22221 12233322 22
Q ss_pred ccccceEEEecCC-CCChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 748 FETAGFGFAFPLH-SPLVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 748 ~~~~~~~~~~~k~-s~l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
+....++++++++ ..+++.+|++|.++.++|.++++.+||++.
T Consensus 212 ~~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 212 LFGVGTGMGLRKEDNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred ccCcceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 2223467888764 569999999999999999999999999963
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.77 E-value=6.7e-18 Score=218.08 Aligned_cols=217 Identities=14% Similarity=0.221 Sum_probs=178.9
Q ss_pred CCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCc
Q 002352 437 KRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGK 516 (932)
Q Consensus 437 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~ 516 (932)
.++++|++ .+.|+||.+.+. ++++.||++|++++|++++| +++++++.. +|..++..|.+|+
T Consensus 301 ~~~l~v~~--~~~~pP~~~~d~------~g~~~G~~~Dll~~i~~~~g--~~~~~v~~~--------~~~~~~~~l~~g~ 362 (1197)
T PRK09959 301 HPDLKVLE--NPYSPPYSMTDE------NGSVRGVMGDILNIITLQTG--LNFSPITVS--------HNIHAGTQLNPGG 362 (1197)
T ss_pred CCceEEEc--CCCCCCeeEECC------CCcEeeehHHHHHHHHHHHC--CeEEEEecC--------CHHHHHHHHHCCC
Confidence 45688887 567888998764 67899999999999999999 568887765 4788899999999
Q ss_pred ccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCC
Q 002352 517 FDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDF 596 (932)
Q Consensus 517 ~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~ 596 (932)
+|++. +++.|++|.+.++||.||+.+++++++++....
T Consensus 363 ~D~i~-~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~----------------------------------------- 400 (1197)
T PRK09959 363 WDIIP-GAIYSEDRENNVLFAEAFITTPYVFVMQKAPDS----------------------------------------- 400 (1197)
T ss_pred ceEee-cccCCccccccceeccccccCCEEEEEecCCCC-----------------------------------------
Confidence 99865 466899999999999999999999998754211
Q ss_pred CCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcE
Q 002352 597 RGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNV 676 (932)
Q Consensus 597 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v 676 (932)
+.++ . .|++|
T Consensus 401 ------------------------------------------------------------------~~~~---~-~g~~v 410 (1197)
T PRK09959 401 ------------------------------------------------------------------EQTL---K-KGMKV 410 (1197)
T ss_pred ------------------------------------------------------------------cccc---c-cCCEE
Confidence 2222 2 48899
Q ss_pred EEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-Ccc-eEEecccccccceE
Q 002352 677 GYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSK-YTLIERTFETAGFG 754 (932)
Q Consensus 677 g~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~-l~~~~~~~~~~~~~ 754 (932)
|+..|+...+++++. ++..+++.|++.++++++|.+|+ +||++.+...+.|+++++ ... +....+.+....++
T Consensus 411 av~~g~~~~~~~~~~-~p~~~~~~~~~~~~~l~av~~G~----~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 485 (1197)
T PRK09959 411 AIPYYYELHSQLKEM-YPEVEWIKVDNASAAFHKVKEGE----LDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLS 485 (1197)
T ss_pred EEeCCcchHHHHHHH-CCCcEEEEcCCHHHHHHHHHcCC----CCEEehhhHHHHHHHHhcccccceeeecCCCCchheE
Confidence 999999888888763 56778899999999999999999 999999999999988875 222 33344445567789
Q ss_pred EEecCCCC-ChHHHHHHHHhhhccchHHHHHHHhcc
Q 002352 755 FAFPLHSP-LVPEVSRAILNVTEGNKMKEIEDEWFK 789 (932)
Q Consensus 755 ~~~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~~~ 789 (932)
|+++|+.| |...+|++|..+.++ .++++.+||++
T Consensus 486 ~av~k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 486 FAFPRGEPELKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred EeeCCCCHHHHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 99999765 999999999999999 88999999996
No 96
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.75 E-value=1.5e-17 Score=190.58 Aligned_cols=223 Identities=15% Similarity=0.156 Sum_probs=176.0
Q ss_pred CCCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHH
Q 002352 434 PTNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVF 513 (932)
Q Consensus 434 ~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~ 513 (932)
....++|+|++.. +|+ .+... ++...||++||++++++++|. +++++... +|++++..|.
T Consensus 39 I~~~g~LrVg~~~-~P~---~~~~~------~~~~~G~~~DLl~~ia~~LGv--~~e~v~~~--------~~~~ll~aL~ 98 (482)
T PRK10859 39 IQERGELRVGTIN-SPL---TYYIG------NDGPTGFEYELAKRFADYLGV--KLEIKVRD--------NISQLFDALD 98 (482)
T ss_pred HHhCCEEEEEEec-CCC---eeEec------CCCcccHHHHHHHHHHHHhCC--cEEEEecC--------CHHHHHHHHh
Confidence 3457789999974 333 22222 233599999999999999995 46665433 5999999999
Q ss_pred cCcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccC
Q 002352 514 RGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVN 593 (932)
Q Consensus 514 ~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~ 593 (932)
+|++|++++++++|++|.+.++||.||+....++++++...
T Consensus 99 ~G~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~--------------------------------------- 139 (482)
T PRK10859 99 KGKADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQP--------------------------------------- 139 (482)
T ss_pred CCCCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCC---------------------------------------
Confidence 99999998899999999999999999999999999886531
Q ss_pred CCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCC
Q 002352 594 EDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSG 673 (932)
Q Consensus 594 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 673 (932)
.+++++||. |
T Consensus 140 --------------------------------------------------------------------~i~~l~dL~--G 149 (482)
T PRK10859 140 --------------------------------------------------------------------RPRSLGDLK--G 149 (482)
T ss_pred --------------------------------------------------------------------CCCCHHHhC--C
Confidence 278999998 9
Q ss_pred CcEEEEcChhHHHHHHhcC--CCcccc--cccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEeccccc
Q 002352 674 DNVGYRKDSFVFGILKQLG--FDEKKL--IAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERTFE 749 (932)
Q Consensus 674 ~~vg~~~~s~~~~~l~~~~--~~~~~~--~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~ 749 (932)
++|++..|+...+.+++.. ++...+ ..+.+.++++++|.+|+ +|+++.+...+.+....+. ++.+......
T Consensus 150 k~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~----iDa~v~d~~~~~~~~~~~p-~l~v~~~l~~ 224 (482)
T PRK10859 150 GTLTVAAGSSHVETLQELKKKYPELSWEESDDKDSEELLEQVAEGK----IDYTIADSVEISLNQRYHP-ELAVAFDLTD 224 (482)
T ss_pred CeEEEECCCcHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCC----CCEEEECcHHHHHHHHhCC-CceeeeecCC
Confidence 9999999998888776532 233332 34678999999999999 9999999876655433333 3555544445
Q ss_pred ccceEEEecCC-C-CChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 750 TAGFGFAFPLH-S-PLVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 750 ~~~~~~~~~k~-s-~l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
..+++++++|+ . .|+..+|++|.++.++|.++++.+|||+.
T Consensus 225 ~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg~ 267 (482)
T PRK10859 225 EQPVAWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEKYFGH 267 (482)
T ss_pred CceeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhhh
Confidence 66789999993 3 59999999999999999999999999975
No 97
>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=99.74 E-value=5.5e-19 Score=169.91 Aligned_cols=107 Identities=29% Similarity=0.585 Sum_probs=82.5
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhcccCCCCCC-------cccccccchhhhHHHHhhhcC-cccccccchhhhHHHHHHH
Q 002352 567 TLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRG-------PAQHQVGTSFWFSFSTMVFSH-RERVISNLARFVMIVWYFV 638 (932)
Q Consensus 567 ~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~~~~~w~~~ 638 (932)
++++|++++++++++++++|++++..+.+++. +...++.+++|+.++++++|+ ...|++++.|++.++|+++
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 57899999999999999999999987776655 234578889999999999766 5678999999999999999
Q ss_pred HHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCC
Q 002352 639 VLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSG 673 (932)
Q Consensus 639 ~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 673 (932)
+++++++|+|+|+|+||.++++++|+|++||.+++
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 99999999999999999999999999999999776
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.72 E-value=7.7e-17 Score=168.92 Aligned_cols=208 Identities=17% Similarity=0.154 Sum_probs=154.7
Q ss_pred cEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHH---HHHHcC
Q 002352 439 KLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLM---YQVFRG 515 (932)
Q Consensus 439 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li---~~l~~g 515 (932)
+|+||+ .+.|+||.+.+ + .||++||+++|+++||+ ++++++.. |++++ ..|.+|
T Consensus 1 ~l~vg~--~~~~pPf~~~~--------~--~Gfdvdl~~~ia~~lg~--~~~~~~~~---------~~~~~~~~~~L~~g 57 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTKD--------G--SGFENKIAAALAAAMGR--KVVFVWLA---------KPAIYLVRDGLDKK 57 (246)
T ss_pred CeEEEe--CCCCCCCccCC--------C--CcchHHHHHHHHHHhCC--CeEEEEec---------cchhhHHHHHHhcC
Confidence 478888 46677888641 1 69999999999999995 56666654 77766 699999
Q ss_pred cccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 002352 516 KFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNED 595 (932)
Q Consensus 516 ~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~ 595 (932)
++|+++ +++++++| +.||.||+.++.++++++.+...
T Consensus 58 ~~Dii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~--------------------------------------- 94 (246)
T TIGR03870 58 LCDVVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRNLD--------------------------------------- 94 (246)
T ss_pred CccEEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCCCC---------------------------------------
Confidence 999998 58888877 78999999999999998764321
Q ss_pred CCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHH--HHhCC
Q 002352 596 FRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQM--LIKSG 673 (932)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~d--L~~~~ 673 (932)
+++++| |. |
T Consensus 95 -------------------------------------------------------------------~~~~~d~~L~--g 105 (246)
T TIGR03870 95 -------------------------------------------------------------------IKSWNDPRLK--K 105 (246)
T ss_pred -------------------------------------------------------------------CCCccchhhc--c
Confidence 677765 66 8
Q ss_pred C-cEEEEcChhHHHHHHhcCCC------cccccccC---------CHHHHHHHhhcccCCCceeEEEecccccccccccC
Q 002352 674 D-NVGYRKDSFVFGILKQLGFD------EKKLIAYS---------SPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY 737 (932)
Q Consensus 674 ~-~vg~~~~s~~~~~l~~~~~~------~~~~~~~~---------~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~ 737 (932)
+ ++|+..|+..+.++++.... ..++..++ +.++++++|..|+ +||++.+...+.+++.+.
T Consensus 106 ~~~vgv~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Gr----vDa~i~~~~~~~~~~~~~ 181 (246)
T TIGR03870 106 VSKIGVIFGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGK----ADLAVAFAPEVARYVKAS 181 (246)
T ss_pred CceEEEecCChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCC----CCEEEeeHHhHHHHHHhC
Confidence 8 99999999999988864210 01122222 3578999999999 999999877776666543
Q ss_pred CcceE--Eecccc-------c--ccceEEEecCCCC-ChHHHHHHHHhhhccchHHHHHHHh
Q 002352 738 CSKYT--LIERTF-------E--TAGFGFAFPLHSP-LVPEVSRAILNVTEGNKMKEIEDEW 787 (932)
Q Consensus 738 ~~~l~--~~~~~~-------~--~~~~~~~~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~ 787 (932)
...+. .+++.. . ...++++++|+.+ |++.||++|.+|. |.+++|..+|
T Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 182 PEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred CCCceEEeccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 22232 223221 0 1135899999875 8999999999999 4999999998
No 99
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.72 E-value=2e-16 Score=169.70 Aligned_cols=226 Identities=23% Similarity=0.351 Sum_probs=181.5
Q ss_pred CCCcEEEEeecccCcccceEEEecCCCCCC-ceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHc
Q 002352 436 NKRKLRIGVPVTKGFSDFVKVTIDPNTRES-ASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFR 514 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~-~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~ 514 (932)
..+.++|++... .++||.+.+. . +++.||++|++++++++++.....++++. +|++++..|..
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~------~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~~---------~~~~~~~~l~~ 95 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDA------KGGKLVGFDVDLAKAIAKRLGGDKKVEFVPV---------AWDGLIPALKA 95 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccC------CCCeEEeeeHHHHHHHHHHhCCcceeEEecc---------chhhhhHHHhc
Confidence 467788888633 3346676553 4 48999999999999999985433455443 49999999999
Q ss_pred CcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCC
Q 002352 515 GKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNE 594 (932)
Q Consensus 515 g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~ 594 (932)
|++|+++.++++|++|.+.++||.||+..+..+++++.....
T Consensus 96 g~~D~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~-------------------------------------- 137 (275)
T COG0834 96 GKVDIIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG-------------------------------------- 137 (275)
T ss_pred CCcCEEEeccccCHHHhccccccccccccCeEEEEECCCCcC--------------------------------------
Confidence 999999999999999999999999999999999998775431
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCC
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGD 674 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 674 (932)
+.+++||. |+
T Consensus 138 --------------------------------------------------------------------~~~~~DL~--gk 147 (275)
T COG0834 138 --------------------------------------------------------------------IKSLEDLK--GK 147 (275)
T ss_pred --------------------------------------------------------------------cCCHHHhC--CC
Confidence 67899999 89
Q ss_pred cEEEEcChh--HHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccc--cccCCcceEEecccccc
Q 002352 675 NVGYRKDSF--VFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPF--IGQYCSKYTLIERTFET 750 (932)
Q Consensus 675 ~vg~~~~s~--~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~--~~~~~~~l~~~~~~~~~ 750 (932)
++|+..|+. ....... ..+...+..|++..+.+++|..|+ ++|++.+...+.++ ..+..............
T Consensus 148 ~v~v~~gt~~~~~~~~~~-~~~~~~~~~~~~~~~~~~al~~Gr----~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (275)
T COG0834 148 KVGVQLGTTDEAEEKAKK-PGPNAKIVAYDSNAEALLALKNGR----ADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLS 222 (275)
T ss_pred EEEEEcCcchhHHHHHhh-ccCCceEEeeCCHHHHHHHHHcCC----ccEEEcchHhhhhhhhhhcCCCCceeeeccCCC
Confidence 999999998 4444444 234457788999999999999999 99999999988884 33332222333333333
Q ss_pred -cceEEEecCC--CCChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 751 -AGFGFAFPLH--SPLVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 751 -~~~~~~~~k~--s~l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
.+++++++|+ ..+++.+|+.|.++.++|.++++.++|+..
T Consensus 223 ~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~~ 265 (275)
T COG0834 223 VEYLGIALRKGDDPELLEAVNKALKELKADGTLQKISDKWFGP 265 (275)
T ss_pred cceeEEEeccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcCc
Confidence 7899999998 579999999999999999999999999963
No 100
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.68 E-value=2.1e-16 Score=168.20 Aligned_cols=233 Identities=15% Similarity=0.204 Sum_probs=164.6
Q ss_pred CCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHC-CCcccEEEEeccCCCCCCCCCHHHHHHHHH
Q 002352 435 TNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEEL-PYAVAYDFVPYAQPDGTSSGSYNDLMYQVF 513 (932)
Q Consensus 435 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l-~f~~~~~~~~~~~~~g~~ngs~~~li~~l~ 513 (932)
...++|++++. .|+||.+.+. ++...|+..++++++++++ ++. +++...+ |++++..|
T Consensus 15 ~~~~~l~~~~~---~~pPf~~~~~------~~~~~G~~~~i~~~i~~~~~~~~--~~~~~~p---------w~r~l~~l- 73 (268)
T TIGR02285 15 AAKEAITWIVN---DFPPFFIFSG------PSKGRGVFDVILQEIRRALPQYE--HRFVRVS---------FARSLKEL- 73 (268)
T ss_pred cccceeEEEec---ccCCeeEeCC------CCCCCChHHHHHHHHHHHcCCCc--eeEEECC---------HHHHHHHH-
Confidence 34578888875 4556676532 4567899999999999998 754 5555543 99999999
Q ss_pred cCcccEEEeeeeeeccccccccccccccc-cCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhccc
Q 002352 514 RGKFDAVVGDTTILANRSKFVEFTLPYTE-SGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRV 592 (932)
Q Consensus 514 ~g~~D~~~~~~~it~~R~~~vdfs~p~~~-~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~ 592 (932)
.|+.|.++.++++|++|.+.++||.||+. ...++++++.+....
T Consensus 74 ~~~~d~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~----------------------------------- 118 (268)
T TIGR02285 74 QGKGGVCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGV----------------------------------- 118 (268)
T ss_pred hcCCCeEEeeccCCcchhhceeecCCccccCCceEEEccchhhhc-----------------------------------
Confidence 78888887789999999999999999975 578888886532210
Q ss_pred CCCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHh-
Q 002352 593 NEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIK- 671 (932)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~- 671 (932)
..+.....++.+|.+
T Consensus 119 ----------------------------------------------------------------~~~~d~~~~~~~l~~l 134 (268)
T TIGR02285 119 ----------------------------------------------------------------RDEQDGDVDLKKLLAS 134 (268)
T ss_pred ----------------------------------------------------------------cccCCCCccHHHHhcC
Confidence 000000012333321
Q ss_pred CCCcEEEEcChhH----HHHHHhcCCCc-ccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC---CcceEE
Q 002352 672 SGDNVGYRKDSFV----FGILKQLGFDE-KKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY---CSKYTL 743 (932)
Q Consensus 672 ~~~~vg~~~~s~~----~~~l~~~~~~~-~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~---~~~l~~ 743 (932)
.|+++|+..|+.. .+++++.+... .++..+++.++.+++|..|+ +|+++.+...+.+++++. ...+..
T Consensus 135 ~g~~vgv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~Gr----vD~~v~d~~~~~~~~~~~~~~~~~~~~ 210 (268)
T TIGR02285 135 KKKRLGVIASRSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGR----VNYTLAYPPEKTYYEELNNGALPPLKF 210 (268)
T ss_pred CCeEEEEecceeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCC----ccEEEeCcHHHHHHHHhccCCcCCeeE
Confidence 2779999987654 34444433211 23455677888999999999 999999998888887642 223444
Q ss_pred ecccc--cccceEEEecCC---CCChHHHHHHHHhhhccchHHHHHHHhccCC
Q 002352 744 IERTF--ETAGFGFAFPLH---SPLVPEVSRAILNVTEGNKMKEIEDEWFKKR 791 (932)
Q Consensus 744 ~~~~~--~~~~~~~~~~k~---s~l~~~in~~il~l~e~G~~~~~~~~~~~~~ 791 (932)
.+... ....++++++|+ ..++..||++|.+|.++|.++++.+||++..
T Consensus 211 ~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~~~ 263 (268)
T TIGR02285 211 LPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLSPE 263 (268)
T ss_pred eecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCCHh
Confidence 33221 223578889986 3599999999999999999999999999654
No 101
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.66 E-value=1.8e-15 Score=157.76 Aligned_cols=210 Identities=16% Similarity=0.158 Sum_probs=156.4
Q ss_pred cEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCccc
Q 002352 439 KLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFD 518 (932)
Q Consensus 439 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D 518 (932)
.|||++ .+.|+||.+ +...|+++||++++++++|.++++++.+.. +..++..+.+|++|
T Consensus 1 ~l~v~~--~~~~~P~~~----------~~~~G~~~el~~~i~~~~g~~i~~~~~~~~---------~~~~~~~l~~g~~D 59 (232)
T TIGR03871 1 ALRVCA--DPNNLPFSN----------EKGEGFENKIAQLLADDLGLPLEYTWFPQR---------RGFVRNTLNAGRCD 59 (232)
T ss_pred CeEEEe--CCCCCCccC----------CCCCchHHHHHHHHHHHcCCceEEEecCcc---------hhhHHHHHhcCCcc
Confidence 378887 456777763 124699999999999999966555443322 34466789999999
Q ss_pred EEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCC
Q 002352 519 AVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRG 598 (932)
Q Consensus 519 ~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~ 598 (932)
++++ +++|.+.++||.||+..++++++++.+..
T Consensus 60 i~~~----~~~r~~~~~fs~py~~~~~~lv~~~~~~~------------------------------------------- 92 (232)
T TIGR03871 60 VVIG----VPAGYEMVLTTRPYYRSTYVFVTRKDSLL------------------------------------------- 92 (232)
T ss_pred EEEe----ccCccccccccCCcEeeeEEEEEeCCCcc-------------------------------------------
Confidence 9865 57788999999999999999999876322
Q ss_pred cccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHH--HHhCCCcE
Q 002352 599 PAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQM--LIKSGDNV 676 (932)
Q Consensus 599 ~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~d--L~~~~~~v 676 (932)
.+++++| |. |++|
T Consensus 93 ---------------------------------------------------------------~~~~~~d~~l~--g~~V 107 (232)
T TIGR03871 93 ---------------------------------------------------------------DVKSLDDPRLK--KLRI 107 (232)
T ss_pred ---------------------------------------------------------------cccchhhhhhc--CCeE
Confidence 1678888 55 8899
Q ss_pred EEEcChhHHHHHHhcCCCcccccc---------cCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEeccc
Q 002352 677 GYRKDSFVFGILKQLGFDEKKLIA---------YSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERT 747 (932)
Q Consensus 677 g~~~~s~~~~~l~~~~~~~~~~~~---------~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~ 747 (932)
|+..|+...+++++.+... +++. ..+..+++++|..|+ +|+++.+...+.+++++....+.+....
T Consensus 108 ~v~~g~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~i~~~~~~~~~~~~~~~~~~~~~~~ 182 (232)
T TIGR03871 108 GVFAGTPPAHWLARHGLVE-NVVGYSLFGDYRPESPPGRMVEDLAAGE----IDVAIVWGPIAGYFAKQAGPPLVVVPLL 182 (232)
T ss_pred EEEcCChHHHHHHhcCccc-ccccccccccccccCCHHHHHHHHHcCC----cCEEEeccHHHHHHHHhCCCCceeeccc
Confidence 9999999989887654321 2222 337789999999999 9999999888887776542224443221
Q ss_pred ------ccccceEEEecCCC-CChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 748 ------FETAGFGFAFPLHS-PLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 748 ------~~~~~~~~~~~k~s-~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
....+++++++++. .++..||++|.++. |.+++|.+||.
T Consensus 183 ~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 183 PEDGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred cCCCCCCccceEEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 12235688888865 59999999999986 47999999995
No 102
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.65 E-value=1.1e-15 Score=197.66 Aligned_cols=221 Identities=14% Similarity=0.165 Sum_probs=182.8
Q ss_pred CCCcEEEEeecccCccc-ceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHc
Q 002352 436 NKRKLRIGVPVTKGFSD-FVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFR 514 (932)
Q Consensus 436 ~~~~l~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~ 514 (932)
+.++++||+.. ++.| +.+.+. ++++.||++|+++.+++++| ++++++++. +|++++.+|.+
T Consensus 54 ~~~~l~vgv~~--~~~p~~~~~~~------~g~~~G~~~D~l~~ia~~lG--~~~e~v~~~--------~~~~~l~~l~~ 115 (1197)
T PRK09959 54 SKKNLVIAVHK--SQTATLLHTDS------QQRVRGINADYLNLLKRALN--IKLTLREYA--------DHQKAMDALEE 115 (1197)
T ss_pred hCCeEEEEecC--CCCCCceeecC------CCccceecHHHHHHHHHhcC--CceEEEeCC--------CHHHHHHHHHc
Confidence 46789999853 3333 333222 67899999999999999999 678888864 59999999999
Q ss_pred CcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCC
Q 002352 515 GKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNE 594 (932)
Q Consensus 515 g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~ 594 (932)
|++|++.+.++.+++|.+.++||.||+.+..++++++...
T Consensus 116 g~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~---------------------------------------- 155 (1197)
T PRK09959 116 GEVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDS---------------------------------------- 155 (1197)
T ss_pred CCCcEecCccccccccccchhcCCCccCCCceEEEeCCCC----------------------------------------
Confidence 9999998889999999999999999999999999987532
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCC
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGD 674 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 674 (932)
+++++|+. ++
T Consensus 156 --------------------------------------------------------------------~~~~~~l~--~~ 165 (1197)
T PRK09959 156 --------------------------------------------------------------------MRPLTSSK--PV 165 (1197)
T ss_pred --------------------------------------------------------------------CCCccccc--Ce
Confidence 56777886 88
Q ss_pred cEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEecc-cccccc
Q 002352 675 NVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIER-TFETAG 752 (932)
Q Consensus 675 ~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~-~~~~~~ 752 (932)
++++..|+...+++++ .++..+++.|++.++++++|..|+ +||++.+...+.|+++++ -..+.++.. ......
T Consensus 166 ~i~~~~g~~~~~~~~~-~~p~~~i~~~~s~~~al~av~~G~----~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~ 240 (1197)
T PRK09959 166 NIARVANYPPDEVIHQ-SFPKATIISFTNLYQALASVSAGQ----NDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQY 240 (1197)
T ss_pred EEEEeCCCCCHHHHHH-hCCCCEEEeCCCHHHHHHHHHcCC----CCEEEccHHHHHHHHhcccccceEEEeeccCCCCc
Confidence 9999999998888887 477788999999999999999999 999999999999988875 333555432 223344
Q ss_pred eEEEecCCCC-ChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 753 FGFAFPLHSP-LVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 753 ~~~~~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
+.++++|+.+ |...+|++|..+.++|.. .+.+||+..
T Consensus 241 ~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 241 NFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred eeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 6678888876 888899999999999887 999999964
No 103
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.62 E-value=3.7e-14 Score=150.84 Aligned_cols=257 Identities=22% Similarity=0.298 Sum_probs=196.0
Q ss_pred EEEEEEeCC--CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s--~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
+||+++|.+ +.++.....+++.|++++ |..+++.+.|+++++....+.+.+++.+ ++++|||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-------GRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-------CCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecCCCHHHH
Confidence 589999998 466777888888888887 4668899999999998888888888876 999999999887776
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC-CcCCChHHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN-QYGEEMIPSLTDALQ 176 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 176 (932)
.+...+...++|+|++.+..+... .+++++++.+++..++..+++++.+++|+++++++.+. ..+....+.++++++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 688888999999999887665544 57899999999999999999999999999999999877 677778899999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC-CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhcccCCh
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM-QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLLRTLEP 255 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~~~~~~ 255 (932)
+.|.++......+.. .+.++......+++. ++++|++.++ ..+..+++++.+.|+.+.++.|+..+.+.....
T Consensus 151 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~~~~---- 224 (269)
T cd01391 151 KAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPAALL---- 224 (269)
T ss_pred hcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccccccc----
Confidence 998776644333222 224566667777766 6888888777 888999999999998755667777666543321
Q ss_pred hhhhhccceEEEeecCCCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHH
Q 002352 256 SVIDSMQGVIGVRPYVPKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRA 313 (932)
Q Consensus 256 ~~~~~~~g~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 313 (932)
.......++..+....+..+. . .++.+...+||++.+
T Consensus 225 ~~~~~~~~~~ti~~~~~~~~~-------------~--------~~~~~~~~~~~a~~~ 261 (269)
T cd01391 225 AAGEAGPGLTTVAQPFPGDDP-------------D--------QPDYPAALGYDAVLL 261 (269)
T ss_pred ccccccceEEecccCCCCCCC-------------C--------CCCccccceeeeeee
Confidence 112233445555544333222 1 556677788888765
No 104
>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=99.61 E-value=2.2e-14 Score=147.22 Aligned_cols=214 Identities=25% Similarity=0.409 Sum_probs=173.2
Q ss_pred EEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccE
Q 002352 440 LRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDA 519 (932)
Q Consensus 440 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~ 519 (932)
|+|++. +.++||.+.+. ++++.|+..++++.+++++| +++++++.. |..++.+|.+|++|+
T Consensus 1 l~i~~~--~~~~p~~~~~~------~g~~~G~~~~~~~~~~~~~g--~~~~~~~~~---------~~~~~~~l~~g~~D~ 61 (218)
T cd00134 1 LTVGTA--GTYPPFSFRDA------NGELTGFDVDLAKAIAKELG--VKVKFVEVD---------WDGLITALKSGKVDL 61 (218)
T ss_pred CEEecC--CCCCCeeEECC------CCCEEeeeHHHHHHHHHHhC--CeEEEEeCC---------HHHHHHHHhcCCcCE
Confidence 467774 45557776542 77899999999999999999 456666643 889999999999999
Q ss_pred EEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCCc
Q 002352 520 VVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRGP 599 (932)
Q Consensus 520 ~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~~ 599 (932)
++.....+++|.+.+.|+.|+.....++++++...
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------- 96 (218)
T cd00134 62 IAAGMTITPERAKQVDFSDPYYKSGQVILVKKGSP--------------------------------------------- 96 (218)
T ss_pred EeecCcCCHHHHhhccCcccceeccEEEEEECCCC---------------------------------------------
Confidence 98877788999999999999999999999986632
Q ss_pred ccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEEEE
Q 002352 600 AQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVGYR 679 (932)
Q Consensus 600 ~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg~~ 679 (932)
+.+++||. |+++++.
T Consensus 97 ---------------------------------------------------------------~~~~~dl~--g~~i~~~ 111 (218)
T cd00134 97 ---------------------------------------------------------------IKSVKDLK--GKKVAVQ 111 (218)
T ss_pred ---------------------------------------------------------------CCChHHhC--CCEEEEE
Confidence 45899998 9999999
Q ss_pred cChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEeccc--ccccceEEE
Q 002352 680 KDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIERT--FETAGFGFA 756 (932)
Q Consensus 680 ~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~--~~~~~~~~~ 756 (932)
.|+....++.+.. ....+..+.+.++.++.|.+|+ +++++.+.....+..++. ++ +.++... .....++++
T Consensus 112 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~g~----~d~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~ 185 (218)
T cd00134 112 KGSTAEKYLKKAL-PEAKVVSYDDNAEALAALENGR----ADAVIVDEIALAALLKKHPPE-LKIVGPSIDLEPLGFGVA 185 (218)
T ss_pred cCchHHHHHHHhC-CcccEEEeCCHHHHHHHHHcCC----ccEEEeccHHHHHHHHhcCCC-cEEeccccCCCccceEEE
Confidence 8888777777643 2345677889999999999999 999999988888777665 43 6666553 344455666
Q ss_pred ecCCC-CChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 757 FPLHS-PLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 757 ~~k~s-~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
..+++ .+...++++|..++++|.++.+.++|+
T Consensus 186 ~~~~~~~l~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 186 VGKDNKELLDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred EcCCCHHHHHHHHHHHHHHHhCccHHHHHHhhC
Confidence 66655 589999999999999999999999996
No 105
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.60 E-value=2.1e-14 Score=147.28 Aligned_cols=216 Identities=26% Similarity=0.486 Sum_probs=177.0
Q ss_pred cEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCccc
Q 002352 439 KLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFD 518 (932)
Q Consensus 439 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D 518 (932)
+|+||+. +.++||...+. ++.+.|+..|+++.+.+++|. ++++.+. +|..++..+.+|++|
T Consensus 1 ~l~v~~~--~~~~p~~~~~~------~g~~~G~~~~~~~~~~~~~g~--~~~~~~~---------~~~~~~~~l~~g~~D 61 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADE------DGELTGFDVDLAKAIAKELGL--KVEFVEV---------SFDNLLTALKSGKID 61 (219)
T ss_pred CEEEEec--CCCCCcEEECC------CCCcccchHHHHHHHHHHhCC--eEEEEec---------cHHHHHHHHHCCccc
Confidence 4788985 45667776543 667999999999999999994 5666654 289999999999999
Q ss_pred EEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCC
Q 002352 519 AVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRG 598 (932)
Q Consensus 519 ~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~ 598 (932)
++++....+.+|...+.|+.|+.....++++++..+
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------------------- 97 (219)
T smart00062 62 VVAAGMTITPERAKQVDFSDPYYKSGQVILVRKDSP-------------------------------------------- 97 (219)
T ss_pred EEeccccCCHHHHhheeeccceeeceeEEEEecCCC--------------------------------------------
Confidence 999877778888888999999999999999875521
Q ss_pred cccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEEE
Q 002352 599 PAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVGY 678 (932)
Q Consensus 599 ~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg~ 678 (932)
+.+++||. |+++++
T Consensus 98 ----------------------------------------------------------------~~~~~dL~--g~~i~~ 111 (219)
T smart00062 98 ----------------------------------------------------------------IKSLEDLK--GKKVAV 111 (219)
T ss_pred ----------------------------------------------------------------CCChHHhC--CCEEEE
Confidence 67899997 899999
Q ss_pred EcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccC-CcceEEecccccc-cceEEE
Q 002352 679 RKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY-CSKYTLIERTFET-AGFGFA 756 (932)
Q Consensus 679 ~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~-~~~~~~ 756 (932)
..|+....++... .+..++..+.+..+.+++|.+|+ +++++...+...+...+. -..+.++.+.... ..++++
T Consensus 112 ~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~g~----~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (219)
T smart00062 112 VAGTTGEELLKKL-YPEAKIVSYDSQAEALAALKAGR----ADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFA 186 (219)
T ss_pred ecCccHHHHHHHh-CCCceEEEcCCHHHHHHHhhcCc----ccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEE
Confidence 9998888888765 33446677888899999999999 999999988877776665 1346666655544 778899
Q ss_pred ecCCCC-ChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 757 FPLHSP-LVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 757 ~~k~s~-l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
++++++ +.+.++++|..+.++|.++++.++|+
T Consensus 187 ~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 187 VRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred EECCCHHHHHHHHHHHHHHHhCchHHHHHhccC
Confidence 999875 89999999999999999999999986
No 106
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.34 E-value=1.3e-10 Score=133.36 Aligned_cols=305 Identities=17% Similarity=0.192 Sum_probs=167.0
Q ss_pred CccEEEEEEEeCCCcc---chhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 16 TIPVNVGLVLDMNGED---GKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 16 ~~~i~IG~i~~~s~~~---g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
..+-+|++++|++|.+ |...+.||..|. ++.. +.+.++.++|+..+... ......+. +|+..||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~---~~~~~l~~~Dt~~~~~~--~~~~~a~~-~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA---DSRPELRFYDTNADSAD--ALYQQAVA-DGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH------T---T--S-EEEEETTTS-HH--HHHHHHHH-TT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc---cCCCceEEecCCCCCHH--HHHHHHHH-cCCCEEEcCCC
Confidence 3456899999999944 667778888777 1221 24678899999877433 23444444 49999999999
Q ss_pred hhHHHHHHHhcCC--CCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHH
Q 002352 93 SMQTNFIIQLGNK--SQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 93 s~~a~~v~~~~~~--~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 170 (932)
......++..... -.||++.....+.. ...+.+|.+.-+.+..+..+++.+..-|+++..||+.++++|....+.
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~---~~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNS---QAPPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcc---cCccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 9998888887663 58999998765433 124567777888899999999999999999999999999999999999
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchhc
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNLL 250 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~~ 250 (932)
|.+.+++.|+.+.....+. ...++...++.-.+.+.|.|++...+.+++.|--...-.. ..+--.+.|+.....
T Consensus 365 F~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~~--a~~lPvyatS~~~~g- 438 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFHF--AGDLPVYATSRSYSG- 438 (536)
T ss_dssp HHHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT-T---TT-EEEE-GGG--H-
T ss_pred HHHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhccccc--CCCCCEEEeccccCC-
Confidence 9999999988886666653 3456887777655678999999999999877766654321 111224444433211
Q ss_pred ccCChhhhhhccceEEEeec-C--CCChhHHHHHHHHHHhhhccCCCCCccccchhhHHHHHHHHHHHHHHHHhcccccc
Q 002352 251 RTLEPSVIDSMQGVIGVRPY-V--PKTKAFENFRVRWKRKFLQENPSLFDVELNILGLFAYDATRALAVAVEKAGITSFG 327 (932)
Q Consensus 251 ~~~~~~~~~~~~g~l~~~~~-~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~la~Al~~~~~~~~~ 327 (932)
..++.....++|+...... . +..+....+...|..... ...-.-+++|||..+..+ +..
T Consensus 439 -~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~~---------~~~RL~AlG~DA~~L~~~-l~~------- 500 (536)
T PF04348_consen 439 -SPNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNASN---------SLQRLYALGIDAYRLAPR-LPQ------- 500 (536)
T ss_dssp -HT-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT-H---------HHHHHHHHHHHHHHHHHT-HHH-------
T ss_pred -CCCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCcc---------HHHHHHHHHHHHHHHHHH-HHH-------
Confidence 2234455679998877642 2 223333333333321110 122344667787754322 111
Q ss_pred ccccccCCCCCccccccccCChHHHHHHhhcceeeeeeeeEEee-CCccccccEEE
Q 002352 328 FDKTNVSSNATDLEAFGISRNGPKLLQALSSTRFKGLTGDYVFV-DGQLQSSAFEI 382 (932)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~L~~~~f~G~tG~~~f~-~g~~~~~~~~I 382 (932)
++.+....+.|+||.+.++ +|. ......-
T Consensus 501 -------------------------l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~w 530 (536)
T PF04348_consen 501 -------------------------LRQFPGYRLDGLTGQLSLDEDGR-IERQLSW 530 (536)
T ss_dssp -------------------------HHHSTT--EEETTEEEEE-TT-B-EEEE-EE
T ss_pred -------------------------HhhCCCCcccCCceeEEECCCCe-EEEeecc
Confidence 2233446799999999997 666 3333333
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.32 E-value=6.8e-12 Score=118.20 Aligned_cols=122 Identities=28% Similarity=0.427 Sum_probs=106.3
Q ss_pred CCCCHHHHHhC-CCcEEEEcChhHHHHHHhcCCCc----------ccccccCCHHHHHHHhhcccCCCceeEEEeccccc
Q 002352 662 TITDFQMLIKS-GDNVGYRKDSFVFGILKQLGFDE----------KKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYT 730 (932)
Q Consensus 662 ~i~s~~dL~~~-~~~vg~~~~s~~~~~l~~~~~~~----------~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~ 730 (932)
+|++++||..+ +++||+..|++.+.++++..... .++..|++..+++.+|..|+ +|++.+.+.+
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-----da~v~d~~~~ 75 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-----YAFLMESTYL 75 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-----CEEEeehHhH
Confidence 47899999843 26999999999999998753321 25667899999999999887 7999999999
Q ss_pred ccccccCCcceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhcc
Q 002352 731 KPFIGQYCSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWFK 789 (932)
Q Consensus 731 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~~ 789 (932)
.+++++.|+ +.+++..+...+++++++|+++|++.+|++|.++.++|.++++.++||+
T Consensus 76 ~~~~~~~~~-~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 76 DYELSQNCD-LMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HHHHhCCCC-eEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 998887786 8888888888899999999999999999999999999999999999985
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.31 E-value=1e-11 Score=126.92 Aligned_cols=222 Identities=15% Similarity=0.136 Sum_probs=175.7
Q ss_pred CCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHc
Q 002352 435 TNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFR 514 (932)
Q Consensus 435 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~ 514 (932)
...+.|||+|.++|- .-|. . ++...|++.++.+++++.|| ++++.++.. +-+.++.+|.+
T Consensus 20 q~rGvLrV~tinsp~-sy~~---~------~~~p~G~eYelak~Fa~yLg--V~Lki~~~~--------n~dqLf~aL~n 79 (473)
T COG4623 20 QARGVLRVSTINSPL-SYFE---D------KGGPTGLEYELAKAFADYLG--VKLKIIPAD--------NIDQLFDALDN 79 (473)
T ss_pred HhcCeEEEEeecCcc-ceec---c------CCCccchhHHHHHHHHHHhC--CeEEEEecC--------CHHHHHHHHhC
Confidence 346789999986553 2222 1 56678999999999999999 667777765 46899999999
Q ss_pred CcccEEEeeeeeeccccccccccccccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCC
Q 002352 515 GKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNE 594 (932)
Q Consensus 515 g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~ 594 (932)
|++|+++.++...++|.+.+....-|+..++.++.++.+.+
T Consensus 80 g~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R--------------------------------------- 120 (473)
T COG4623 80 GNADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR--------------------------------------- 120 (473)
T ss_pred CCcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC---------------------------------------
Confidence 99999999999999999999988889999998888877543
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCC
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGD 674 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 674 (932)
.+++++|. |.
T Consensus 121 --------------------------------------------------------------------p~~l~~L~--g~ 130 (473)
T COG4623 121 --------------------------------------------------------------------PRSLGQLK--GR 130 (473)
T ss_pred --------------------------------------------------------------------CCCHHHcc--Cc
Confidence 57899999 88
Q ss_pred cEEEEcChhHHHHHHhc---CCCccc--ccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEeccccc
Q 002352 675 NVGYRKDSFVFGILKQL---GFDEKK--LIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERTFE 749 (932)
Q Consensus 675 ~vg~~~~s~~~~~l~~~---~~~~~~--~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~ 749 (932)
.+.+..|+...+.++.. .+|.-. .-.-...++.++.|..|+ ++..+.+.+.+..+.+-+.+ +.+.-+.-.
T Consensus 131 ~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gk----ldytiads~~is~~q~i~P~-laVafd~td 205 (473)
T COG4623 131 QITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGK----LDYTIADSVEISLFQRVHPE-LAVAFDLTD 205 (473)
T ss_pred eeeccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhcCC----cceeeeccHHHHHHHHhCcc-ceeeeeccc
Confidence 89999999876666542 233211 111226789999999999 99999998877766554443 555545555
Q ss_pred ccceEEEecCC--CCChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 750 TAGFGFAFPLH--SPLVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 750 ~~~~~~~~~k~--s~l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
..+.++++|.+ +.|...++.++..+.|.|.++++++||++-
T Consensus 206 e~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larleeky~gH 248 (473)
T COG4623 206 EQPVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARLEEKYLGH 248 (473)
T ss_pred ccCceeeccCCchHHHHHHHHHHHHHhhcchHHHHHHHHHhcc
Confidence 57889999984 679999999999999999999999999964
No 109
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=98.88 E-value=9.3e-08 Score=101.44 Aligned_cols=206 Identities=13% Similarity=0.085 Sum_probs=148.6
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||+++|.++ .+......+++.++++. | +++.+.|..+++....+.+..++.+ ++++||+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~-------g--~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA-------G--YQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc-------C--CeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCcchh
Confidence 5899999864 55666777888877772 2 5667778888887778888888876 8999998766655544
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 176 (932)
....+...++|+|.+....+. .++++++..++...+..+++++...+-++++++..+.. ++....+.+.+.++
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 677888899999998765432 35667888888899999999998888999999987544 55666888999998
Q ss_pred hCC-ceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AID-TRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.| ..+..... ...+.++....+.++.+.+ +++++.. +...+..+++++.+.|+..++.+-|++
T Consensus 146 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~~ 212 (264)
T cd01537 146 EAGPIEIVLVQE--GDWDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVIG 212 (264)
T ss_pred HcCCcChhhhcc--CCCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEEe
Confidence 887 33332222 2234556677777877666 4555544 335677788999999986544444443
No 110
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.81 E-value=3.6e-08 Score=104.22 Aligned_cols=199 Identities=16% Similarity=0.153 Sum_probs=139.4
Q ss_pred CCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCc
Q 002352 437 KRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGK 516 (932)
Q Consensus 437 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~ 516 (932)
.++|+||+. +.+.|+ .+.+...++.+.+++++|. +++++... +|+.++..+.+|+
T Consensus 31 ~~~l~vg~~--~~~~~~-------------~~~~~~~~l~~~l~~~~g~--~v~~~~~~--------~~~~~~~~l~~g~ 85 (254)
T TIGR01098 31 PKELNFGIL--PGENAS-------------NLTRRWEPLADYLEKKLGI--KVQLFVAT--------DYSAVIEAMRFGR 85 (254)
T ss_pred CCceEEEEC--CCCCHH-------------HHHHHHHHHHHHHHHHhCC--cEEEEeCC--------CHHHHHHHHHcCC
Confidence 457999984 444332 2334567999999999995 46665532 5899999999999
Q ss_pred ccEEEeeeeeec---ccccccccccccccc------CeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHh
Q 002352 517 FDAVVGDTTILA---NRSKFVEFTLPYTES------GVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWV 587 (932)
Q Consensus 517 ~D~~~~~~~it~---~R~~~vdfs~p~~~~------~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~ 587 (932)
+|+++.+..... +|.+..+|+.||... ...+++++..
T Consensus 86 ~Di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~---------------------------------- 131 (254)
T TIGR01098 86 VDIAWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS---------------------------------- 131 (254)
T ss_pred ccEEEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC----------------------------------
Confidence 999986654333 566677888876643 2456666542
Q ss_pred hhcccCCCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHH
Q 002352 588 LEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQ 667 (932)
Q Consensus 588 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~ 667 (932)
+|++++
T Consensus 132 --------------------------------------------------------------------------~i~~~~ 137 (254)
T TIGR01098 132 --------------------------------------------------------------------------PIKSLK 137 (254)
T ss_pred --------------------------------------------------------------------------CCCChH
Confidence 278999
Q ss_pred HHHhCCCcEEEEc-ChhH-----HHHHHh-cCCCc----ccccccCCHHHHHHHhhcccCCCceeEEEeccccccccccc
Q 002352 668 MLIKSGDNVGYRK-DSFV-----FGILKQ-LGFDE----KKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQ 736 (932)
Q Consensus 668 dL~~~~~~vg~~~-~s~~-----~~~l~~-~~~~~----~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~ 736 (932)
||. |++|++.. ++.. ..++.+ .+.+. .++....+..+.+++|..|+ +|+.+.+.+.+..+.++
T Consensus 138 dL~--gk~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~----~Da~~~~~~~~~~~~~~ 211 (254)
T TIGR01098 138 DLK--GKTFAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGK----VDAATNNSSAIGRLKKR 211 (254)
T ss_pred Hhc--CCEEEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCC----CCeEEecHHHHHHHHHh
Confidence 997 99999864 3221 233433 22221 34445556788999999999 99999988887766655
Q ss_pred C---CcceEEecccccccceEEEecCC-CC-ChHHHHHHHHhh
Q 002352 737 Y---CSKYTLIERTFETAGFGFAFPLH-SP-LVPEVSRAILNV 774 (932)
Q Consensus 737 ~---~~~l~~~~~~~~~~~~~~~~~k~-s~-l~~~in~~il~l 774 (932)
. ...++++.+......++++++|+ .+ +++.+|++|+.+
T Consensus 212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 212 GPSDMKKVRVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred CccchhheEEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 4 23477887766667789999998 43 999999999764
No 111
>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=98.80 E-value=1.3e-09 Score=84.92 Aligned_cols=61 Identities=28% Similarity=0.480 Sum_probs=43.4
Q ss_pred cceEEEec--CCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCC--CCCCCHHHHHHHHHc
Q 002352 452 DFVKVTID--PNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDG--TSSGSYNDLMYQVFR 514 (932)
Q Consensus 452 ~~~~~~~~--~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g--~~ngs~~~li~~l~~ 514 (932)
||++..++ +.++ +.++.|||+||+++||+.|||++++..++.. ..| .+||+|+|||++|.+
T Consensus 1 Pfvm~~~~~~~~~g-~~~~eGyciDll~~la~~l~F~y~i~~~~Dg-~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGENLTG-NDRYEGYCIDLLEELAEELNFTYEIYLVPDG-KYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSGSBG-GGGEESHHHHHHHHHHHHHT-EEEEEE-TTS---EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcccCC-CccEEEEHHHHHHHHHHHcCCeEEEEECCCC-CCcCcCCCCcCcCHHHHhcC
Confidence 56776665 4455 8899999999999999999987555544321 233 268999999999974
No 112
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.76 E-value=2.5e-08 Score=106.36 Aligned_cols=164 Identities=13% Similarity=0.167 Sum_probs=130.5
Q ss_pred CHHHHHHHHHcCcccEEEeeeeeecccccccccccc--ccccCeEEEEEccCCCCCCceEEeccCchhHHHHHHHHHHHH
Q 002352 504 SYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLP--YTESGVSMIVPIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFI 581 (932)
Q Consensus 504 s~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p--~~~~~~~~lv~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~ 581 (932)
++.+++..|.+|++|+++++..++.+|.+.++|+.| |....+++++|...+
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~--------------------------- 104 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSD--------------------------- 104 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCC---------------------------
Confidence 378999999999999999999999999999999998 677778888875521
Q ss_pred HHHHHhhhcccCCCCCCcccccccchhhhHHHHhhhcCcccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhccccCC
Q 002352 582 GFVVWVLEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTVQQLQP 661 (932)
Q Consensus 582 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 661 (932)
T Consensus 105 -------------------------------------------------------------------------------- 104 (287)
T PRK00489 105 -------------------------------------------------------------------------------- 104 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcce
Q 002352 662 TITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKY 741 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l 741 (932)
|++++||. |+++++..+.....+|++.+.. .+++.+.+..+. ++..|. .+|+++.......+.++ .+
T Consensus 105 -i~sl~DL~--Gk~ia~~~~~~~~~~l~~~gi~-~~iv~~~gs~ea--a~~~G~----aDaivd~~~~~~~l~~~---~L 171 (287)
T PRK00489 105 -WQGVEDLA--GKRIATSYPNLTRRYLAEKGID-AEVVELSGAVEV--APRLGL----ADAIVDVVSTGTTLRAN---GL 171 (287)
T ss_pred -CCChHHhC--CCEEEEcCcHHHHHHHHHcCCc-eEEEECCCchhh--hhcCCc----ccEEEeeHHHHHHHHHC---CC
Confidence 78899998 9999999999899999886653 355666655554 566688 99998877666655543 36
Q ss_pred EEecccccccceEEEecC--CCC-ChHHHHHHHHhhhccchHHHHHHHhccC
Q 002352 742 TLIERTFETAGFGFAFPL--HSP-LVPEVSRAILNVTEGNKMKEIEDEWFKK 790 (932)
Q Consensus 742 ~~~~~~~~~~~~~~~~~k--~s~-l~~~in~~il~l~e~G~~~~~~~~~~~~ 790 (932)
.++ +.+.....+++.+| .++ ....++..+.++ .|.+..+.+|||+.
T Consensus 172 ~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 172 KIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred EEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEEE
Confidence 666 55566678999998 454 777899999999 49999999999964
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=98.74 E-value=9.7e-07 Score=93.89 Aligned_cols=206 Identities=11% Similarity=0.071 Sum_probs=140.9
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC-hhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK-SMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~-s~~a~ 97 (932)
+||++.|.. ..+......+++.++++. | +++.+.++..++......+.+++.+ ++++||+... .....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~-------g--~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL-------G--VELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc-------C--ceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHH
Confidence 589999875 355667788888887772 2 5566677777888888888888877 8998886433 33333
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcC--CcCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDN--QYGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 173 (932)
.....+...++|+|......+. .+.+..+.+++...+..+++++... |-+++++|+.+. .++....+.+.+
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 4555666789999998664332 2345566777788888889888666 889999998654 467777888999
Q ss_pred HHHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 174 ALQAID-TRVPYRSVISPLATDDQIEKELYKLFTMQTRV-FILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 174 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++++.| .++..... ...+..+..+.+.++.+..+++ .|+.++...+..+++++++.|+. .+...+..
T Consensus 146 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~ 214 (267)
T cd01536 146 ALKEYPDIEIVAVQD--GNWDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGV 214 (267)
T ss_pred HHHhCCCcEEEEEec--CCCcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEec
Confidence 999884 66543322 2233445667777776555443 34444456778899999999975 34434433
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=98.74 E-value=5.1e-07 Score=95.77 Aligned_cols=206 Identities=11% Similarity=0.046 Sum_probs=142.9
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||++.|.. ..+......+++.+.++. | +++.+.|...++....+....++.+ ++++||....+..+..
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-------g--~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-------G--YSVLLCNSDEDPEKEREALELLLSR-RVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-------C--CEEEEEcCCCCHHHHHHHHHHHHHc-CcCEEEEecCCcchHH
Confidence 489999885 455666777777777652 3 4455667778888888888888876 8998887666555555
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 176 (932)
...+...++|+|.+....+. +.+..+..++...+..+++++...|.+++++++.+.. ++....+.+.+.++
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 66788899999998764332 3455667777888888989988889999999986543 56666788889998
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+.....+....+.++....+.++.+.. +++|+. .+...+..+++++++.|+..++.+.|++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i~~ 211 (264)
T cd06267 144 EAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSVVG 211 (264)
T ss_pred HcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEe
Confidence 88754332222222223455666777776565 555554 3555677888999999986545544443
No 115
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.63 E-value=1.6e-06 Score=93.13 Aligned_cols=201 Identities=11% Similarity=0.112 Sum_probs=136.8
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
|||++.+.+..+-.....+++ +++++.|...|.++++.+.|+..++......+.+++.+ ++++||+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~g~~v~l~~~~~~~~~~~~~~~~~~l~~~-~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKEGKNVKIDYQNAQGDQSNLPTIARKFVAD-KPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccCCceEEEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcCcHH-HHHH
Confidence 689999876655444555555 44555555568899999999999998888888888876 999999965442 2222
Q ss_pred HHhcCCCCccEEecccCCCCcc----CCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcC-CcCCChHHHHH
Q 002352 100 IQLGNKSQVPILSFSATSPSLT----SIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDN-QYGEEMIPSLT 172 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~----~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~ 172 (932)
. ....++|+|.++..++... ....+....+..++...+..+++++... |.+++++++.+. .++....+.+.
T Consensus 76 ~--~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 A--NATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred H--HcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 2 5567999999875433211 1111222233445666677888888765 899999998643 35666678899
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
+.+++.|+.+.... . ....++.+.++++.+. +++|++..+ ..+..+++++.+.|+
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 1 2345677777777643 577665544 466778888888775
No 116
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.59 E-value=5e-06 Score=88.85 Aligned_cols=204 Identities=12% Similarity=0.072 Sum_probs=138.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh-hHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS-MQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s-~~a~ 97 (932)
|||++.|... .+-.....+++.++++. +..|+.+++.+.|+..++....+...+++.+ ++++||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KKAGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hccCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhhhH
Confidence 6899997654 34445566666666543 2235678889999999988888888888877 99999985443 3233
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEc--CCcCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVD--NQYGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~ 173 (932)
.....+...++|+|.+....+ . +.+.++.+++...+..+++++... |-++++++..+ ...+....+.+++
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 345566678999999864321 1 456778888888899999998665 77899999743 3344556788999
Q ss_pred HHHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 174 ALQAID-TRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 174 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
++++.+ +.+... +....+.++..+.+.++.+..+++-.+.|..+.+..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGE--VYGDWDQAVAQKAVADFLASNPDVDGIWTQGGDAVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEee--cCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCCcHHHHHHHHHcCCCCc
Confidence 998887 766532 2222334456667777765554433333332228899999999998544
No 117
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.47 E-value=1.2e-05 Score=86.99 Aligned_cols=254 Identities=11% Similarity=0.125 Sum_probs=162.4
Q ss_pred CccEEEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 16 TIPVNVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 16 ~~~i~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
..+=||++++|++| .+|.....|+..|.. +....-+-..++.++|+...+.. .+...+.++|+..|+||.-
T Consensus 255 ~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~---~~~~~~~~~~~~~i~dT~~~~l~---~i~aqaqq~G~~~VVGPLl 328 (604)
T COG3107 255 ASPSKIALLLPLTGQAAVFARTIQDGFLAAKN---APATQTAQVAELKIYDTSAQPLD---AILAQAQQDGADFVVGPLL 328 (604)
T ss_pred CCchheeEEeccCChhHHHHHHHHHHHHHhcc---CcccCCccccceeeccCCcccHH---HHHHHHHhcCCcEEecccc
Confidence 44578999999999 457777888877744 11112222367888998876544 4555566789999999999
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHH
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLT 172 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 172 (932)
......+..-.. ..+|++....++.. ...+......-+.+..++..|+.+-.-|.+...++...+++|+...++|.
T Consensus 329 K~nVe~L~~~~q-~~i~vLALN~~~n~---r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~ 404 (604)
T COG3107 329 KPNVEALLASNQ-QPIPVLALNQPENS---RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFN 404 (604)
T ss_pred chhHHHHHhCcC-CCCceeeecCCccc---cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHH
Confidence 998888776655 77888876543322 23455666666777889999999999999999999999999999999999
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHH-----------------------HHHhcCC-ceEEEEEeChhhHHHHHHHH
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKEL-----------------------YKLFTMQ-TRVFILHMLPSLGSRIFEKA 228 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l-----------------------~~l~~~~-~~viil~~~~~~~~~l~~~a 228 (932)
+.+++.|...+....+. ...++..-+ ..+.+.. .|.|++...++++..|--..
T Consensus 405 ~~Wq~~gg~~v~~~~fg---~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~i 481 (604)
T COG3107 405 QEWQKLGGGTVLQQKFG---STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPMI 481 (604)
T ss_pred HHHHHhcCCchhHhhcC---cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhHH
Confidence 99999887433332221 111111111 1112233 78888888888876555544
Q ss_pred HhCCccccceEEEEecccchhcccCChhhhhhccceEEEee-c--CCCChhHHHHHHHHH
Q 002352 229 NEIGLMNKGCVWIMTEGMTNLLRTLEPSVIDSMQGVIGVRP-Y--VPKTKAFENFRVRWK 285 (932)
Q Consensus 229 ~~~g~~~~~~~wi~t~~~~~~~~~~~~~~~~~~~g~l~~~~-~--~~~~~~~~~f~~~~~ 285 (932)
...+.... --.+.++... .....++....|+|+..... + .+..|..++...+|.
T Consensus 482 a~~~~~~~-~p~yaSSr~~--~gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p 538 (604)
T COG3107 482 AMANGSDS-PPLYASSRSS--QGTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWP 538 (604)
T ss_pred HhhcCCCC-cceeeecccc--ccCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcC
Confidence 43332111 1133333222 12223456667888765432 2 234566666666664
No 118
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=98.43 E-value=2.9e-05 Score=83.00 Aligned_cols=199 Identities=10% Similarity=0.059 Sum_probs=128.5
Q ss_pred EEEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEE-EccCChhHHH
Q 002352 20 NVGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAI-LGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~ai-iGp~~s~~a~ 97 (932)
|||++.|. ++.+-.....+++.+.++. |+++.+...|+..++..-.+....++.+ +|.+| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-------GVSVDIQAAPSEGDQQGQLSIAENMINK-GYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-------CCeEEEEccCCCCCHHHHHHHHHHHHHh-CCCEEEECCCChHHhH
Confidence 58999984 4444445666777776652 4667776667777776666667777776 88874 5665554444
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC--cCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ--YGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~ 173 (932)
.....+.+.++|+|.+....+ ....+ .+..++...+..+++++... |.++++++..... ......+.+.+
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 455666778999998764321 11112 24667777788888888665 8899999975322 23444677899
Q ss_pred HHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe-ChhhHHHHHHHHHhCCcc
Q 002352 174 ALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM-LPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 174 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~l~~~a~~~g~~ 234 (932)
++++. |+.+..... ......+....+.++.+..+++-.+.+ +...+..+++++++.|+.
T Consensus 147 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASGIEVVASQP--ADWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCCcEEEEecC--CCccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 99998 887654321 122333445566666555554433444 455667788889999975
No 119
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.38 E-value=2.3e-05 Score=83.26 Aligned_cols=203 Identities=15% Similarity=0.106 Sum_probs=128.2
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|... .+-.....++..++++. |+.+. +.++..++....+...+++.+ ++++||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-------GYSLL--LATTDYDAEREADAVETLLRQ-RVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-------CCEEE--EeeCCCCHHHHHHHHHHHHhc-CCCEEEEecCCCCchH
Confidence 3789997543 44445566666666542 34444 456666777667777777765 8998886333322334
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc---CCcCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD---NQYGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~~l 175 (932)
....+...++|+|......+ ...+++ ..++...+..+++++...|.++++++..+ .+++....+.+.+.+
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 55667788999998754322 223433 35677788889999988899999999743 234556678889999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
++.|+.+...... ..+..+....+.++.+. .+++|+. ++...+..+++++++.|+..++.+-++
T Consensus 144 ~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~v~ 209 (266)
T cd06282 144 RAAGLAPLPPVEI--PFNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLSVV 209 (266)
T ss_pred HHcCCCCCccccC--CCcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9988764332222 12223334445544433 3555555 566667889999999998655444444
No 120
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.27 E-value=5.7e-05 Score=78.00 Aligned_cols=205 Identities=15% Similarity=0.167 Sum_probs=144.8
Q ss_pred CCCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh
Q 002352 14 NTTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS 93 (932)
Q Consensus 14 ~~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s 93 (932)
...+.++||+....+.+.-.....|++-|+++.-.. .+++.....++|+..+.+.++.+..+ +.++|++-.+.
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~~------n~~i~~~na~~~~~~a~~iarql~~~-~~dviv~i~tp 98 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDAGYK------NVKIDYQNAQGDLGTAAQIARQLVGD-KPDVIVAIATP 98 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhcCcc------CeEEEeecCCCChHHHHHHHHHhhcC-CCcEEEecCCH
Confidence 556778899999988866666778888888776321 68889999999999999999998877 66777774444
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCC---ccC-CCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC-cCCC
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPS---LTS-IRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ-YGEE 166 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~---l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~-~g~~ 166 (932)
..-..++...+ +|+|-.+.+++. |.. .+.|----+.-||......-.++++.. +-++++++|..++ ....
T Consensus 99 ~Aq~~~s~~~~---iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~ 175 (322)
T COG2984 99 AAQALVSATKT---IPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVS 175 (322)
T ss_pred HHHHHHHhcCC---CCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHH
Confidence 33333333333 999988877664 221 123333344456666666666676663 7899999997544 6678
Q ss_pred hHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh---HHHHHHHHHhCCc
Q 002352 167 MIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL---GSRIFEKANEIGL 233 (932)
Q Consensus 167 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~---~~~l~~~a~~~g~ 233 (932)
..+.+++.+.+.|++|..... ....|+...++.|. .++|+|++.++... ...+++.|.+.+.
T Consensus 176 l~eelk~~A~~~Gl~vve~~v----~~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAGLEVVEAAV----TSVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCCCEEEEEec----CcccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 889999999999999876533 23344556666555 88999999887654 4677788888776
No 121
>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=98.27 E-value=5.4e-06 Score=89.28 Aligned_cols=117 Identities=20% Similarity=0.158 Sum_probs=75.6
Q ss_pred CCCHHHHHhCCCcEEEE-cChhHH-----HHH-HhcCCCcc---cccccC-CHHHHHHHhhcccCCCceeEEEecccccc
Q 002352 663 ITDFQMLIKSGDNVGYR-KDSFVF-----GIL-KQLGFDEK---KLIAYS-SPEECDELFQKGSAGGGIAAAFDEIPYTK 731 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~-~~s~~~-----~~l-~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~~g~~a~~~~~~~~~ 731 (932)
|++++||. |+++++. .++... ..+ +..+.... +.+.+. +..+.+++|..|+ +++++.+...+.
T Consensus 127 i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~----vDa~~~~~~~~~ 200 (288)
T TIGR03431 127 IKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGT----VDAATTNDENLD 200 (288)
T ss_pred CCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCC----CCeEeccHHHHH
Confidence 78999997 9999986 333322 122 33333211 223455 6788999999999 999998877666
Q ss_pred cccccC-C---cceEEecccccccceEEEecCCC--CChHHHHHHHHhhhccchHHHHHH
Q 002352 732 PFIGQY-C---SKYTLIERTFETAGFGFAFPLHS--PLVPEVSRAILNVTEGNKMKEIED 785 (932)
Q Consensus 732 ~~~~~~-~---~~l~~~~~~~~~~~~~~~~~k~s--~l~~~in~~il~l~e~G~~~~~~~ 785 (932)
.+.++. . ..++++.........+++++++- .+.+.++++|.++.+++...++..
T Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~ 260 (288)
T TIGR03431 201 RMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFEKI 260 (288)
T ss_pred HHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHHhh
Confidence 655432 1 22444432212224568888883 499999999999999976555433
No 122
>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=98.24 E-value=5.9e-05 Score=80.25 Aligned_cols=205 Identities=15% Similarity=0.081 Sum_probs=128.8
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||++.|... .+-.....++..++++. |+.+ .+.|+..++.........++++ +|+++|--.+.. ...
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~-~~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH-------GYTL--LVASSGYDLDREYAQARKLLER-GVDGLALIGLDH-SPA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC-------CCEE--EEecCCCCHHHHHHHHHHHHhc-CCCEEEEeCCCC-CHH
Confidence 4899998543 45555666776666653 2334 4577777888777777787776 777755311111 223
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC---CcCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN---QYGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l 175 (932)
....+...++|+|......+ ....++ ...++...+..+++.+...|.+++++|.... .++......|.+++
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (268)
T cd06273 70 LLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAAL 143 (268)
T ss_pred HHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHH
Confidence 34456778999999764322 112333 4467777888899988778999999997432 23456678899999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
++.|+.+.....+....+.++..+.+.++.+ ..+++|+. ++...+..+++++++.|+..++.+-++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i~vi 211 (268)
T cd06273 144 AEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDLSIV 211 (268)
T ss_pred HHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9988654332222212223334455556543 34666664 556667889999999998655444333
No 123
>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=98.20 E-value=0.00014 Score=77.39 Aligned_cols=204 Identities=10% Similarity=0.074 Sum_probs=126.7
Q ss_pred EEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEE-EEccCChhHHHH
Q 002352 21 VGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQA-ILGPEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~a-iiGp~~s~~a~~ 98 (932)
||+++|. +..+......+++.++++. |+.+ .+.++..++....+...+++.+ ++++ |++|..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~-------g~~v--~~~~~~~~~~~~~~~~~~~~~~-~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL-------GYEL--TVLDAQNDAAKQLNDIEDLITR-GVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc-------CceE--EecCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHHHH
Confidence 7888875 3455666777888877763 3344 4567777887777777777765 7887 556655544444
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEc--CCcCCChHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVD--NQYGEEMIPSLTDA 174 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~~ 174 (932)
....+...++|+|......+. ...+-.+..++...+..+++++... |-++++++..+ ...+....+.+.++
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 445556789999998653221 1223345566666678888888665 77899999863 33455667888899
Q ss_pred HHhC-CceeeeeeecCCCCChhHHHHHHHHHhcCCceEE-EEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 175 LQAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVF-ILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 175 l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi-il~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++. |..+..... ...+.++....+.++.+..++.- |++.+...+..+++++++.|+ ++...+..
T Consensus 147 l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 147 VDKYPGLKVVASQP--ADFDRAKGLNVMENILQAHPDIKGVFAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHhCCCcEEEeccc--CCCCHHHHHHHHHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 9884 776543211 11222333344555544444322 344445556678899999997 34444443
No 124
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.20 E-value=0.00014 Score=77.76 Aligned_cols=201 Identities=14% Similarity=0.077 Sum_probs=123.0
Q ss_pred EEEEEEeCC--CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHH
Q 002352 20 NVGLVLDMN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~s--~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a 96 (932)
.||++.|.. ..+...+..+++.+.++. | +.+.+.++..++....+....++.+ ++++||- |..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~-------g--~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED-------G--VEVIVLDANGDVARQAAQVEDLIAQ-KVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc-------C--CEEEEEcCCcCHHHHHHHHHHHHHc-CCCEEEEecCCcccc
Confidence 388999874 466677788888888772 3 4445567777888777777777766 8888854 4444433
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEec-ccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCc--CCChHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRG-SLNDSSQVGAITAIIKAF--GWREAVPIYVDNQY--GEEMIPSL 171 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~-~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l 171 (932)
......+...++|+|......+ ....+++... .+++...+..+++.+... |-++++++..+.++ +....+.+
T Consensus 71 ~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 71 IPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 4455556778999998765321 2223443322 344455666677776443 66899999764333 33445778
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
++++++.|..+.............+....+.++.+. ++++|+ .++...+..+++++++.|+.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVY-AGDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEE-ECCCcHHHHHHHHHHhcCCc
Confidence 899988864332221111111222333344444322 356666 44455678899999999986
No 125
>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=98.19 E-value=0.00014 Score=77.88 Aligned_cols=199 Identities=8% Similarity=0.035 Sum_probs=123.0
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEE-EccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAI-LGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~ai-iGp~~s~~a~ 97 (932)
+||++.|... .+-.....+++.++++. | +++.+.++..++....+...+++.. ++++| ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-------g--~~~~~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-------G--YDAVELSAENSAKKELENLRTAIDK-GVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-------C--CeEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcCCchhhhH
Confidence 4888987543 44344555665555542 3 3345567778887777777777765 78877 4666555455
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc------CCeEEEEEEEc--CCcCCChHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF------GWREAVPIYVD--NQYGEEMIP 169 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~v~ii~~d--~~~g~~~~~ 169 (932)
.....+...++|+|.+....+ . ..++..+.+++..-+..+++++... |-++++++... ...+....+
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 666777788999998753211 1 1233445556666566777766443 56899999743 234566678
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHhCCcc
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRV-FILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~l~~~a~~~g~~ 234 (932)
.+++.+++.|..+..... ....+.++....+.++.+..++. .|++++...+..+++++++.|+.
T Consensus 146 gf~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 146 GFKEAMKEAGCDLAGIRQ-QKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHhcCCceEeecc-CCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 899999999876542211 11223233445555655455543 33344555567899999999985
No 126
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.18 E-value=0.0001 Score=78.45 Aligned_cols=203 Identities=15% Similarity=0.096 Sum_probs=126.6
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||+++|... .+......|++.++++. |+.+.+...|.. .......+.+++...++++||.-.........
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~ 72 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDT-------GYQLVIEPCDSG--SPDLAERVRALLQRSRVDGVILTPPLSDNPEL 72 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhC-------CCeEEEEeCCCC--chHHHHHHHHHHHHCCCCEEEEeCCCCCccHH
Confidence 899998644 66677788888887743 456666555533 22345566766656689999875443323445
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcC--CChHHHHHHHHHh
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYG--EEMIPSLTDALQA 177 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g--~~~~~~l~~~l~~ 177 (932)
...+...++|+|.+....+. ...++ +..+....+..+++++...|.++++++..+..+. ......|.+++++
T Consensus 73 ~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~ 146 (270)
T cd01545 73 LDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALAE 146 (270)
T ss_pred HHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHHH
Confidence 56667789999998754322 12232 3356666778888888778999999998654432 2336778888888
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHhCCccccceE
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFILHMLPSLGSRIFEKANEIGLMNKGCV 239 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~ 239 (932)
.|..+............++-...+.++.+ .++++|+ .++...+..+++++++.|...++-+
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i 209 (270)
T cd01545 147 AGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDL 209 (270)
T ss_pred cCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 88765211111111122222244455543 3456665 4556777899999999998655433
No 127
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.15 E-value=0.00021 Score=76.17 Aligned_cols=210 Identities=9% Similarity=0.058 Sum_probs=129.2
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~ 97 (932)
+||+++|... .+-.....+++-++++. . | +.+.+.++..++..-.+....++.. +|+++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~---~---~--~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL---G---G--VELQFEDAKNDVATQLSQVENFIAQ-GVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc---C---C--cEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEecCchhhhH
Confidence 5899997643 44445556666666551 1 2 5555677777887777777777766 888886 565554445
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcC--CcCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDN--QYGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 173 (932)
.+...+...++|+|......+.. .+.+..+..++...+..+++.+... +-+++++|.... .......+.+.+
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 55566788999999876432211 1234556777777888888887554 456999997543 223444678889
Q ss_pred HHHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc
Q 002352 174 ALQAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG 245 (932)
Q Consensus 174 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~ 245 (932)
++++.| ..+... .....+.......+.++.+. .+++ |++++...+..+++.+++.|..+++...+.-+.
T Consensus 148 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDA-VVANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCE-EEECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 998887 443321 11112222233445554433 3454 344555667789999999998743545455443
No 128
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.13 E-value=0.00021 Score=76.14 Aligned_cols=199 Identities=12% Similarity=0.084 Sum_probs=128.2
Q ss_pred EEEEEEeCC--CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEc-cCChhH
Q 002352 20 NVGLVLDMN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKG-DVVAAAAAALDLLNNVLVQAILG-PEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s--~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~~v~aiiG-p~~s~~ 95 (932)
|||++.|.. ..+-.....+++.|+++. |+.+.+ .++.. ++....+....++.+ ++++||. |.....
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~-------g~~v~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL-------GVDVEY--RGPETFDVADMARLIEAAIAA-KPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh-------CCEEEE--ECCCCCCHHHHHHHHHHHHHh-CCCEEEEeCCChHH
Confidence 689999875 355666778888887763 344544 44444 777777777777766 8888886 333333
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCeEEEEEEEc--CCcCCChHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWREAVPIYVD--NQYGEEMIPSLT 172 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~v~ii~~d--~~~g~~~~~~l~ 172 (932)
.......+...++|+|......+... ..+.+..+..++...+..+++++.. .|-++++++..+ +..+....+.+.
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~ 148 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFA 148 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHH
Confidence 33444555678999999865322211 1244566778888899999999988 888999998753 333455678888
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
+++++.|+.+... ....+.++....++++.+.. +++| ++.+...+..+++.+++.|+.
T Consensus 149 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 149 DGLGGAGITEEVI---ETGADPTEVASRIAAYLRANPDVDAV-LTLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHhcCceeeEe---ecCCCHHHHHHHHHHHHHhCCCccEE-EEeCCccchHHHHHHHhcCCC
Confidence 8988887654221 11222233445555554333 4443 344455677888899999976
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=98.13 E-value=0.00021 Score=76.31 Aligned_cols=208 Identities=11% Similarity=0.028 Sum_probs=127.7
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEcc-CChhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGP-EKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp-~~s~~a~ 97 (932)
+||++.|.. ..+-.....+++-++++. |+. +.+.++..++....+....++.. ++++||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-------g~~--~~~~~~~~~~~~~~~~l~~~~~~-~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL-------GGD--LRVYDAGGDDAKQADQIDQAIAQ-KVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc-------CCE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhhH
Confidence 589998853 344455667777776653 333 44567778887777777777776 89998874 3333334
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH--cCCeEEEEEEEc-CCcCCChHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA--FGWREAVPIYVD-NQYGEEMIPSLTDA 174 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~~v~ii~~d-~~~g~~~~~~l~~~ 174 (932)
.+...+...++|+|.+....+. +.+..+..++...++.+++++.. .|.++++++... ..........+.+.
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 4455567789999998653221 22334566777788888888755 588999999753 22233345677788
Q ss_pred HHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcCCceE---EEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 175 LQAID-TRVPYRSVISPLATDDQIEKELYKLFTMQTRV---FILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 175 l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---iil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
+++.+ ..+..........+.++....+.++....++. .|++.+...+..+++++++.|+.. +...+..+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 88777 55443221111122233445566655444443 334445556788889999999853 33344443
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=98.07 E-value=0.00067 Score=72.36 Aligned_cols=209 Identities=8% Similarity=-0.008 Sum_probs=123.0
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
|||++.|.- ..+-.....+++.++++ .|+++.+...++..++....+....++.. ++++||- +.......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~-------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE-------LGVKVTFQGPASETDVAGQVNLLENAIAR-GPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH-------cCCEEEEecCccCCCHHHHHHHHHHHHHh-CCCEEEEcCCChhhhH
Confidence 689998763 33333445555555444 24566555444456777777767777765 8888875 33323223
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCc--CCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQY--GEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 173 (932)
.....+...++|+|......+ +. .+ +.-+..++...+..+++++... |.++++++.....+ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~~-~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---SD-IA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC-cc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 444555568999999754221 10 11 2224455556677788887665 89999999754333 2334677888
Q ss_pred HHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 174 ALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQTRV-FILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 174 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
++++. |+.+... .....+..+-...+.++.+..+++ .|++++...+..+++.+++.|+. ++..++..+
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 7765432 111122233334555555444443 34445566688899999999985 444444443
No 131
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.03 E-value=0.00039 Score=75.16 Aligned_cols=205 Identities=11% Similarity=0.060 Sum_probs=124.5
Q ss_pred CCCCCccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeE-EEEc
Q 002352 12 SKNTTIPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQ-AILG 89 (932)
Q Consensus 12 ~~~~~~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~-aiiG 89 (932)
...+...-+||++.|.- ..+-.....+++.++++. |++ +.+.++..++.........++.+ +++ +|++
T Consensus 20 ~~~~~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~-------G~~--~~~~~~~~d~~~~~~~~~~l~~~-~~dgiii~ 89 (295)
T PRK10653 20 SANAMAKDTIALVVSTLNNPFFVSLKDGAQKEADKL-------GYN--LVVLDSQNNPAKELANVQDLTVR-GTKILLIN 89 (295)
T ss_pred CCccccCCeEEEEecCCCChHHHHHHHHHHHHHHHc-------CCe--EEEecCCCCHHHHHHHHHHHHHc-CCCEEEEc
Confidence 33343456899999853 344556677777777763 333 44567777887777777777665 776 4556
Q ss_pred cCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCe-EEEEEEEcC--CcCC
Q 002352 90 PEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWR-EAVPIYVDN--QYGE 165 (932)
Q Consensus 90 p~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~-~v~ii~~d~--~~g~ 165 (932)
|..+.........+...++|+|.+....+ ....+..+.+++..-+..+++++.. .+.+ +++++..+. ....
T Consensus 90 ~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~ 164 (295)
T PRK10653 90 PTDSDAVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAAR 164 (295)
T ss_pred CCChHHHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHH
Confidence 65555444556677778999999864211 1123445566666667878887755 3543 566555322 2334
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEE-EeChhhHHHHHHHHHhCCc
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIL-HMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil-~~~~~~~~~l~~~a~~~g~ 233 (932)
...+.+.+++++.|..+... .....+..+....+.++.+..++.-.+ +.+...+..+++++++.|+
T Consensus 165 ~R~~gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~ 231 (295)
T PRK10653 165 ERGEGFKQAVAAHKFNVLAS--QPADFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK 231 (295)
T ss_pred HHHHHHHHHHhhCCCEEEEe--cCCCCCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC
Confidence 55788999999998876422 111222233444555665555543333 3444556678999999997
No 132
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=98.01 E-value=0.00027 Score=74.64 Aligned_cols=202 Identities=8% Similarity=0.050 Sum_probs=139.2
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~~ 98 (932)
||++.+..+ .+......+++.|.++.+ ..+.+. .|...|+..-.+.+..++.+ ++++|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g-------~~~~~~-~~~~~d~~~q~~~i~~~i~~-~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG-------YEVEIV-FDAQNDPEEQIEQIEQAISQ-GVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT-------CEEEEE-EESTTTHHHHHHHHHHHHHT-TESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC-------CEEEEe-CCCCCCHHHHHHHHHHHHHh-cCCEEEecCCCHHHHHH
Confidence 789998887 556678889999999864 334444 78989998888888888877 898777 6777766677
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc-CC-eEEEEEEEcCCc--CCChHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF-GW-REAVPIYVDNQY--GEEMIPSLTDA 174 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w-~~v~ii~~d~~~--g~~~~~~l~~~ 174 (932)
...-+...+||+|++... .....+....+.++....+..+++++... +- .+++++.....+ .....+.+.+.
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 777788889999997654 11224455667778888899999998543 32 678877643332 23457788888
Q ss_pred HHh-CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 175 LQA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 175 l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
+++ .++++..... ....+.++....+.++.+.++-..|+.++...+..+.+++++.|+.+.
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 4556555222 223445555555666554444333456777778889999999998443
No 133
>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=97.95 E-value=0.00063 Score=72.20 Aligned_cols=203 Identities=10% Similarity=0.017 Sum_probs=120.4
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||++.|..+ .+-.....+++-|+++. |+.+ .+.|+..++....+....++. .+|++||......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~~~~-~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA-------GYGV--LLGDTRSDPEREQEYLDLLRR-KQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc-------CCeE--EEecCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCHH-H
Confidence 788887654 44445566666666652 3444 456777777665555555554 4899887632222222 2
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHHHHHHHh
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSLTDALQA 177 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~ 177 (932)
.... ..++|+|......+ . +.+.....++...+..+++++...|.++++++..+ +..+....+.|.+++++
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 2233 34999998643211 1 22334566677778888899878899999999764 33455667888999998
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
.|+.+..........+.++....+.++.+. .+++|+.. +...+..+++++++.|+..++.+-++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~~v~v~ 209 (267)
T cd06284 144 AGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPEDISVV 209 (267)
T ss_pred cCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCccceeEE
Confidence 885433211111111223334455555433 35555554 55557789999999998644443333
No 134
>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=97.94 E-value=0.00047 Score=73.27 Aligned_cols=206 Identities=12% Similarity=0.055 Sum_probs=123.9
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|... .+-.....+++.++++. |+++ .+.++..++..-.+....++.+ ++++||...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-------g~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-------GYTV--FLANSGEDVERQEQLLSTMLEH-GVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-------CCeE--EEecCCCChHHHHHHHHHHHHc-CCCEEEEeCCCCccHH
Confidence 3789997643 44455667777776653 3444 3455556666555666666654 8998887554433333
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 176 (932)
....+...++|+|.+....+. ...+ .+..+....+..+++++...|-++++++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 556677889999987543221 1122 34456667788888888777889999887532 344556788889998
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
+.|..+.....+....+.+.....+.++.+. .+++|+ +.+...+..+++++++.|+..++.+-|+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~di~ii 211 (268)
T cd06289 145 EAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRDIAVV 211 (268)
T ss_pred HcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8875432211111112222334445554433 345544 3445557778999999998655443343
No 135
>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=97.91 E-value=0.0011 Score=70.83 Aligned_cols=210 Identities=8% Similarity=0.002 Sum_probs=127.4
Q ss_pred EEEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||++.|. +..+-.....+++.+.++. | +++.+.++..+...-.+....++.+ ++++||= |.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~-------g--~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR-------G--FDLKFADAQQKQENQISAIRSFIAQ-GVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc-------C--CEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCccccch
Confidence 48999884 4444444555555555542 3 4444566666776666666677665 7887754 44433333
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC--cCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ--YGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~ 173 (932)
.....+...++|+|.+....+. ....+++.++.+++...+..+++++... |-++++++..+.. ......+.+.+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 4445567789999998753221 1113456778888888889898998665 7889999975432 22344677888
Q ss_pred HHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcCC---ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 174 ALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQ---TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 174 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
++++. +..+... .....+..+....+.++.+.. +++| ++.+...+..+++++++.|+..|+-+-|++-
T Consensus 149 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig~ 220 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGDFTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVSI 220 (273)
T ss_pred HHHHCCCCEEeec--cCCcccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEec
Confidence 88876 4544321 111122233334455554333 4443 4445556677999999999876555555543
No 136
>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=97.89 E-value=0.00079 Score=71.52 Aligned_cols=206 Identities=14% Similarity=0.057 Sum_probs=124.0
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||+++|... .+-.....+++-++++. |+.+.+. .+..++..-.+....++. .++++||-..+. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~--~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~-~~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-------KYNIILS--NSDNDKEKELKVLNNLLA-KQVDGIIFMGGK-ISEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-------CCeEEEE--eCCCCHHHHHHHHHHHHH-hcCCEEEEeCCC-CcHH
Confidence 3789988643 44444555666555542 3455544 344566555566666665 488888842121 1223
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC---CcCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN---QYGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l 175 (932)
+...+...++|+|.+....+ ....+ ...+++...+..+++++...|-++++++..+. ..+......+++++
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 44455667999999865321 11123 24566777788888888778889999997543 35667788899999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++.|..+..........+.......+.++.+.. +++|+. ++...+..+++++++.|+..|+.+-+++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg 211 (268)
T cd06298 144 SEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIG 211 (268)
T ss_pred HHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEe
Confidence 988865432211111122223334555655444 666665 4555577899999999986554444443
No 137
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.86 E-value=0.0011 Score=70.39 Aligned_cols=205 Identities=13% Similarity=0.115 Sum_probs=122.2
Q ss_pred EEEEEeCC-----CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 21 VGLVLDMN-----GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 21 IG~i~~~s-----~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
||+++|.. ..+...+..+++.++++ .|+.+.+...+.. ....+.+.+++.+.++++||...+...
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~-------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~~ 71 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE-------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRPD 71 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH-------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCCC
Confidence 78999863 34444556666555554 2456655544432 233455677776667888886433322
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 173 (932)
.. ....+...++|+|.+....+ ....++ +..++...+..+++++...|-++++++..... .+....+.+.+
T Consensus 72 ~~-~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 144 (268)
T cd06271 72 DP-RVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRR 144 (268)
T ss_pred Ch-HHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHH
Confidence 22 23445678999999854322 122343 33566677788888887789999999975432 33445788889
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++++.|..+.....+....+.......+.++.+. .+++|+.. +...+..+++++++.|+..++.+-+++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~iig 215 (268)
T cd06271 145 ALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSVVG 215 (268)
T ss_pred HHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeEEE
Confidence 9998886542222221122223333455555433 35655554 456677899999999987665444443
No 138
>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=97.78 E-value=0.0025 Score=68.62 Aligned_cols=214 Identities=7% Similarity=-0.006 Sum_probs=121.7
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||+++|.. +.+-.....+++.++++. |+++ .+.++. ++..-.+....++.. ++.+||= |..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~-~~~~~~~~i~~~~~~-~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-------GFTV--VKIDVP-DGEKVLSAIDNLGAQ-GAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-------CCEE--EEccCC-CHHHHHHHHHHHHHc-CCCEEEEccCchhhhH
Confidence 589998854 345556677777777752 3444 455665 665555555566654 7887775 22333445
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHH----HcCC--eEEEEEEE---cCCcCCChH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIK----AFGW--REAVPIYV---DNQYGEEMI 168 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~----~~~w--~~v~ii~~---d~~~g~~~~ 168 (932)
.....+...++|+|.+....+.......+.+..+..+....+..+++++. ..|+ +++++|.. +........
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 55666778999999976432211100112223344556655666656543 3577 68888752 223445668
Q ss_pred HHHHHHHHhCCceeeeeeecCCC-CChhHHHHHHHHHhcCC--ceE-EEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 169 PSLTDALQAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQ--TRV-FILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 169 ~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~--~~v-iil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
+.+.+++++.|+........... .+.+.....+..+.... ++. .|++.+...+..+++++++.|+..++...+..+
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 88899998877653221111111 11122223445544333 443 456666677888999999999874344444433
No 139
>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=97.78 E-value=0.0031 Score=68.42 Aligned_cols=216 Identities=7% Similarity=-0.004 Sum_probs=122.5
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~ 97 (932)
|||++.|... .+-.....+++-++++++ ..+.+.+.+...++..-.+....++.+ ++.+|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~-------~g~~~~~~~~~~~~~~q~~~i~~l~~~-~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG-------GKVEFTFYDAKNNQSTQNEQIDTALAK-GVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC-------CCeeEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEecCchhhHH
Confidence 5899998543 444456667777776651 225566667777877666666677765 888766 454444334
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCe---------E--EEEEEEcC--C
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWR---------E--AVPIYVDN--Q 162 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~---------~--v~ii~~d~--~ 162 (932)
.+...+...++|+|.+....+.......+-+..+.+++...+..+++++... +-+ + ++++..+. .
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 5555567789999998653221111111223445667777777777777543 221 2 34454332 2
Q ss_pred cCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC-C--ceEEEEEeChhhHHHHHHHHHhCCcccc---
Q 002352 163 YGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM-Q--TRVFILHMLPSLGSRIFEKANEIGLMNK--- 236 (932)
Q Consensus 163 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~-~--~~viil~~~~~~~~~l~~~a~~~g~~~~--- 236 (932)
........+.+++++.|..+..........+.+.....+.++... . +++| ++.+...+..+++++++.|+..|
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai-~~~~d~~a~g~~~al~~~g~~~p~~~ 231 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAV-IANNDAMALGAIEALQKYGYNKGDKS 231 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEE-EECCchHHHHHHHHHHHcCCCcCCCC
Confidence 223346778889988886543222222222333333445555433 2 4543 33455556778899999998654
Q ss_pred -ceEEEEec
Q 002352 237 -GCVWIMTE 244 (932)
Q Consensus 237 -~~~wi~t~ 244 (932)
+...+..+
T Consensus 232 ~di~iig~d 240 (303)
T cd01539 232 KNIPVVGVD 240 (303)
T ss_pred CceEEEccC
Confidence 44444443
No 140
>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=97.74 E-value=0.0019 Score=68.23 Aligned_cols=201 Identities=12% Similarity=0.056 Sum_probs=125.4
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||+++|.-. .+-.....+++.++++. |+++ .+.++..++..-.+...+++.+ +++++|.-.... ...+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~~dgii~~~~~~-~~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-------GYQM--LLMNTNFSIEKEIEALELLARQ-KVDGIILLATTI-TDEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHhc-CCCEEEEeCCCC-CHHH
Confidence 788887533 44456677777776653 3454 4455556776666667777665 888888643322 2344
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc-C--CcCCChHHHHHHHHH
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD-N--QYGEEMIPSLTDALQ 176 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~~~l~ 176 (932)
...+...++|+|......+ .+..+..+....+..+++++...|-++++++... + ..+....+.++++++
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 4555667899999864221 1223556777788889999888888999998643 2 223455688899999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|...... .....+.....+.+.++.+.. +++|+... ...+..+++.+++.|+..|+.+.+++
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 888611111 111112223334555555444 56554444 55677899999999987666666664
No 141
>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=97.72 E-value=0.0015 Score=69.34 Aligned_cols=205 Identities=14% Similarity=0.029 Sum_probs=122.5
Q ss_pred EEEEEEeCC--CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 20 NVGLVLDMN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s--~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
.||+++|.. +.+......+++.++++. |+.+ .+.++..++..-.+....+... ++++||-........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-------GYLL--LVVNTGGDDELEAEAVEALLDH-RVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCChh
Confidence 389999874 455556667777776652 3444 3444444554444455556554 888877643322111
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDAL 175 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l 175 (932)
.......++|+|......+. . .+..+.+++...+..+++++...|-++++++..+.. ......+.+.+.+
T Consensus 71 --~~~~~~~~ipvv~~~~~~~~---~---~~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 --TLPPELLSVPTVLLNCYDAD---G---ALPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred --HHHHHhcCCCEEEEecccCC---C---CCCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 12234468999987543221 1 123455677888888999887779999999975432 2344577888899
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++.|+.+..........+..+....+.++.+. ++++|+ +.+...+..+++++++.|+..++-+.+++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIF-CGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEE-EeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 88886532211111112222333445555544 356664 45556677899999999987665555554
No 142
>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=97.72 E-value=0.0025 Score=67.69 Aligned_cols=205 Identities=13% Similarity=0.040 Sum_probs=120.1
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||++.|... .+-.....+++.++++. |+.+. +.++..++..-.+...+++.+ ++++||--..... ...
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~-~~~ 70 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA-------GYQLL--LGNTGYSPEREEELLRTLLSR-RPAGLILTGLEHT-ERT 70 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc-------CCEEE--EecCCCCchhHHHHHHHHHHc-CCCEEEEeCCCCC-HHH
Confidence 789998644 33344556666665542 34443 344445554545555566654 7888875222211 233
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHHh
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQA 177 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 177 (932)
...+...++|+|......+ .+....+..+....+..+++++...|-+++++|..+. .........+.+.+++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~------~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~ 144 (268)
T cd01575 71 RQLLRAAGIPVVEIMDLPP------DPIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA 144 (268)
T ss_pred HHHHHhcCCCEEEEecCCC------CCCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHH
Confidence 3445567999998753211 1122234566777788888998888999999998653 2334556778889988
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.|.....................+.++.+. ++++|+ +++...+..+++.+++.|...++.+-+++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~di~vig 211 (268)
T cd01575 145 AGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVPEDIAIAG 211 (268)
T ss_pred cCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCcceEEEe
Confidence 876432221211112223344555555433 356554 44555677899999999986555544443
No 143
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=97.69 E-value=0.0027 Score=67.48 Aligned_cols=206 Identities=11% Similarity=0.022 Sum_probs=121.4
Q ss_pred EEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||++.|.. +.+......+++.++++. |+++. +.++..++..-.+....+..+ ++++||=..........
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~ 71 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQ-------GYNLI--LCNTEGDPERQRSYLRMLAQK-RVDGLLVMCSEYDQPLL 71 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHc-------CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEecCCCChHHH
Confidence 88999854 355556677777776652 34443 455555666555556666655 77766642222222222
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHHh
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQA 177 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 177 (932)
..+....++|+|......+ ....++ +..+....+..+++++...|-++++++.... .......+.|.+.+++
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 3333456999998764322 112232 4456666778888888888999999997432 2234456778889988
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.|..+..........+.....+.++++.+.. +++ |++++...+..+++.+++.|...|+.+-+++
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vvg 212 (269)
T cd06275 146 AGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTA-VFCGNDLMAMGALCAAQEAGLRVPQDLSIIG 212 (269)
T ss_pred cCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcE-EEECChHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 8876532111111222233445566655443 444 3445556677889999999986555555544
No 144
>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=97.68 E-value=0.0029 Score=69.55 Aligned_cols=206 Identities=15% Similarity=0.089 Sum_probs=122.3
Q ss_pred ccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE--ccCCh
Q 002352 17 IPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL--GPEKS 93 (932)
Q Consensus 17 ~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii--Gp~~s 93 (932)
..-.||+++|.- +.+-.....+++-++++. |+.+.+ .++..++..-.+....++. .++++|| ++..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~-------g~~~~i--~~~~~~~~~~~~~~~~l~~-~~vdGiIi~~~~~- 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMY-------KYNIIL--SNSDEDPEKEVQVLNTLLS-KQVDGIIFMGGTI- 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHc-------CCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCC-
Confidence 456799999853 344444555555554432 355544 3444455444444555555 4788777 3222
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--C-cCCChHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--Q-YGEEMIPS 170 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~-~g~~~~~~ 170 (932)
...........++|+|......+ ....+ ....++..-+..+++++...|.++++++.... . .+....+.
T Consensus 127 --~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 127 --TEKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred --ChHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 22334455667899998754321 11222 34556666677788888788999999996432 2 23556788
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
|.+++++.|+.+..........+.++-...+.++.+..+++|+. .+...+..+++++++.|+..|+-+-++
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~dvsvv 269 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPEDLEVI 269 (329)
T ss_pred HHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 99999998876542211111122233345556666566776665 455677899999999998655443333
No 145
>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=97.66 E-value=0.0048 Score=65.50 Aligned_cols=206 Identities=14% Similarity=0.060 Sum_probs=122.5
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|... .+-.....+++.++++. |+++.+. ++..++..-.+....++.+ ++++||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~-------g~~~~~~--~~~~~~~~~~~~i~~~~~~-~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA-------GKHLIIT--AGHHSAEKEREAIEFLLER-RCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC-------CCEEEEE--eCCCchHHHHHHHHHHHHc-CCCEEEEecCCCCHHH
Confidence 3899998644 45555666776666653 3455543 3444554444455555654 8888876333222222
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l~ 176 (932)
...+...++|+|.+....+ ....++ +..+....+..+++++...|-+++++|..+... .....+.|.+.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3445668999999864322 112232 456777788889999888899999999754322 2344677888888
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+..........+..+..+.+.++.+.+ +++|+ .++...+..+++.+++.|+..|+-+-+++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~v~g 211 (268)
T cd06270 144 EAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQDVSIIG 211 (268)
T ss_pred HcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceeEEE
Confidence 88865422111111223334455666665444 45444 44556678899999999986555443443
No 146
>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=97.65 E-value=0.0049 Score=65.35 Aligned_cols=206 Identities=12% Similarity=0.084 Sum_probs=122.2
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||++.|... .+-.....+++-|+++. |+.+ .+.+...++..-......++.. ++++||=-........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH-------GYQV--LVCNSDNDPEKEKEYLESLLAY-QVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-------CCEE--EEEcCCCCHHHHHHHHHHHHHc-CcCEEEEeCCCCChHH
Confidence 3789997644 44455667777776653 3444 4455555665555556666665 7777774222222223
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC-cC--CChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ-YG--EEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g--~~~~~~l~~~l 175 (932)
+ ..+...++|+|.+....+ .. .+..+..++...+..+++.+...|-++++++..... .. ......+.+.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---EL---GVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CC---CCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 445678999999865322 11 122344566777888899988889999999975432 11 24567788888
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++.|.............+..+....+.++.+.. +++|+.. +...+..+++.+++.|+..++-+-|++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v~g 212 (267)
T cd06283 144 AEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGLIG 212 (267)
T ss_pred HHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEEE
Confidence 888743222111111122334556666665443 4555444 455667889999999986555444443
No 147
>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=97.63 E-value=0.0032 Score=67.23 Aligned_cols=203 Identities=14% Similarity=0.041 Sum_probs=116.7
Q ss_pred EEEEEEEeCC--------CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-
Q 002352 19 VNVGLVLDMN--------GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG- 89 (932)
Q Consensus 19 i~IG~i~~~s--------~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG- 89 (932)
=.||++.|.. ..+-..+..+++-++++. |+++.+...+. +. ...+.+.+.+.++++||-
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~v~~~~~--~~---~~~~~~~l~~~~~dgiii~ 71 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER-------GYDLLLSFVSS--PD---RDWLARYLASGRADGVILI 71 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHc-------CCEEEEEeCCc--hh---HHHHHHHHHhCCCCEEEEe
Confidence 4689999852 233334445555444432 45565544333 21 234455555457887763
Q ss_pred cCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCCh
Q 002352 90 PEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEM 167 (932)
Q Consensus 90 p~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~ 167 (932)
|.... . .....+...++|+|.+....+. +.+..+.+++...+..+++++...|.++++++..+.. .+...
T Consensus 72 ~~~~~-~-~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r 143 (275)
T cd06295 72 GQHDQ-D-PLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEER 143 (275)
T ss_pred CCCCC-h-HHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHH
Confidence 22212 2 2244556789999998653221 2233455677778888899988889999999975432 33445
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
.+.|.+++++.|..+.....+....+.......+.++.+.+ +++|+.. +...+..+++.+++.|+..++-+.|+
T Consensus 144 ~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii 219 (275)
T cd06295 144 LEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVV 219 (275)
T ss_pred HHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEE
Confidence 68889999888754332212221222233344555554443 4555544 44566788899999998544444444
No 148
>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=97.62 E-value=0.008 Score=63.74 Aligned_cols=194 Identities=12% Similarity=0.070 Sum_probs=116.7
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
||++.|... .+-.....+++.++++ .|++ +.+.++..++....+....++.+ +++++|- |..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~-------~g~~--~~i~~~~~~~~~~~~~~~~~~~~-~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK-------QKVN--LIVSIANQDLNKQLSDVEDFITK-KVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh-------cCCE--EEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChhhhHH
Confidence 788888754 3333455555555553 1344 44566766776666667777765 8888876 444333333
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcC-CcCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDN-QYGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~l 175 (932)
....+...++|+|.+....+ ....+.....++...+..+++++... |-+++++++..+ .......+.+++++
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 34445678999999864211 11223346666667777788887654 778999997432 22334567888899
Q ss_pred HhC-CceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 176 QAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 176 ~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
++. |+.+.... .....+.....+.++.+. ++++ |++++...+..+++++++.|.
T Consensus 147 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAVQ---PGITRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEec---CCCChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC
Confidence 888 87764221 111222333444554433 3454 444555567788899999997
No 149
>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=97.61 E-value=0.0032 Score=66.98 Aligned_cols=205 Identities=11% Similarity=0.012 Sum_probs=121.1
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|.. +.+-.....+++.++++. |+. +.+.++..++....+....++.. +|++||--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-------g~~--~~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-------GYS--LLIANSLNDPERELEILRSFEQR-RMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-------CCE--EEEEeCCCChHHHHHHHHHHHHc-CCCEEEEecCCCCcHH
Confidence 389999854 355556667777776653 344 44556666766555555555554 8888885322222344
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 176 (932)
+...+...++|+|......+ ...+ ....++..-+..+++.+...|-++++++..... .+......+.++++
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 55566678999999865332 1122 234455555566777777779999999975322 22344677889999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+.......... .......+.++.. ..+++|+ +.+...+..+++++++.|+..|+-+-+++
T Consensus 144 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~iig 210 (269)
T cd06281 144 AAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLSVIS 210 (269)
T ss_pred HcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEEE
Confidence 8886542111111111 2222344445443 3467765 34556677899999999986555444443
No 150
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.61 E-value=0.0041 Score=68.79 Aligned_cols=211 Identities=10% Similarity=0.031 Sum_probs=121.4
Q ss_pred ccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 17 IPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 17 ~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
..-+||+++|... .+-.....+++-++++. |+.+ .+.++..++..-.+....++.+ ++++||--.....
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~ 127 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK-------GYTL--ILCNAWNNLEKQRAYLSMLAQK-RVDGLLVMCSEYP 127 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCC
Confidence 3457999998754 44445556666655543 2333 3445555665555555555554 7887764211112
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 173 (932)
...+..+.+..++|+|.+....+. ...+. ...++....+..+++.+...|-+++++|..+ ........+.|.+
T Consensus 128 ~~~~~~l~~~~~iPvV~~d~~~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 128 EPLLAMLEEYRHIPMVVMDWGEAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHHHHHHHhcCCCCEEEEecccCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 222333333269999987643221 11122 2344555567778888877788999999643 3334455688899
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++++.|+.+.............+....+.++.+. .+++|+ +++...+..+++++++.|...|+-+.|++
T Consensus 203 ~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ip~dv~vvg 273 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLRVPQDISVIG 273 (341)
T ss_pred HHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999887654321111112223344555555443 355555 45566677899999999986565555553
No 151
>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=97.61 E-value=0.011 Score=62.93 Aligned_cols=202 Identities=10% Similarity=0.004 Sum_probs=118.2
Q ss_pred EEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
||++.|.. ..+-.....+++.+.++....+ ..+.+.+.+...++..-.+....++.+ ++++||= |........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~----~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY----PDVEFILVTASNDTEQQNAQQDLLINR-KIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC----CCeEEEEEcCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhhHH
Confidence 78888643 3444556777777777665432 235566677766665544444456654 7776663 443333333
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC-cCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ-YGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~l~~~l 175 (932)
....+...+||+|.+....+ .. ......+.++....+..+++++... +-++++++..... ......+.+.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~-~~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SP-GAQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CC-cccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 33445678999999864321 11 0112235666677788888887655 7789999975332 2234467888899
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
++.++++... .....+.......+.++.+.. +++|+. .+...+..+++++++.|..
T Consensus 153 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC
Confidence 8888665432 211222223334444544333 455433 3444577888999999975
No 152
>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=97.59 E-value=0.0064 Score=64.62 Aligned_cols=206 Identities=12% Similarity=-0.006 Sum_probs=120.2
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||++.|..+ .+-.....+++-++++. |+.+. +.++..++..-.+....+. ..++++||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-------gy~v~--~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-------GLSLV--LCATRNRPERELTYLRWLD-TNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-------CCEEE--EEeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCCHHH
Confidence 4899998543 44445566666665532 35554 4444445544444444444 458888886332212222
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l~ 176 (932)
+..+. ..++|+|......+. ... ....+++...+..+++.+...|-+++++|..+... .....+.|.++++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~~---~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AKV---PKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CCC---CEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 347999998653221 112 23556788888889999888899999999754332 2345688999999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+..........+.+...+.+.++.+. .+++|+. ++...+..+++++++.|...|+-+-|++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~g 211 (269)
T cd06293 144 EAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLVG 211 (269)
T ss_pred HcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEe
Confidence 8886542211111112223333455555433 3565544 4566677899999999986665555553
No 153
>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=97.57 E-value=0.0046 Score=65.48 Aligned_cols=206 Identities=12% Similarity=0.075 Sum_probs=118.7
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|.. +.+-..+..+++.++++. |+.+. +.++..++..-......++.. ++++||--........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA-------GYSTI--IGNSDENPETENRYLDNLLSQ-RVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc-------CCEEE--EEeCCCCHHHHHHHHHHHHhc-CCCEEEEcCCCCChHH
Confidence 489999854 344455667777776653 23343 445555665544545555544 8887775322222333
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 176 (932)
..-+...++|+|......+ ....+++ ..++...+..+++.+...|-++++++.... .......+.+.++++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 4455567999998765322 2223433 234444455666777677889999996533 223344578889998
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+.............+....+.++.+..+++|+ +++...+..+++++++.|+..++-+.|++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~-~~~d~~a~gv~~al~~~g~~vp~dv~v~g 209 (265)
T cd06299 144 SLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAII-AGDSMMTIGAIRAIHDAGLVIGEDISLIG 209 (265)
T ss_pred HCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEE-EcCcHHHHHHHHHHHHhCCCCCcceeEEE
Confidence 8885432211111111222334455565545577544 45566678899999999986555444443
No 154
>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=97.56 E-value=0.0085 Score=63.74 Aligned_cols=207 Identities=8% Similarity=-0.018 Sum_probs=121.8
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~ 97 (932)
+||+++|... .+-.....+++-++++++ ..+.+.+.++..++..-.+....++.+ ++++|| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN-------PGVKVTVVSADYDLNKQVSQIDNFIAA-KVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC-------CCeEEEEccCCCCHHHHHHHHHHHHHh-CCCEEEEeCCChhHhH
Confidence 4899998654 444556777777777652 235556666667776555555555554 777664 444333333
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC-cCCChHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ-YGEEMIPSLTDA 174 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~l~~~ 174 (932)
.....+.+.++|+|.+....+ + ....+..++...++.+++++... |.++++++..... ......+.+.++
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 444445667999999865322 1 11235667777788888888766 8999999975432 223446778888
Q ss_pred HHhC-CceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc
Q 002352 175 LQAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG 245 (932)
Q Consensus 175 l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~ 245 (932)
+++. +++.... ......+...-...+.++.+. .+++|+. .+...+..+++++++.|+ .+..++..+.
T Consensus 146 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d~ 215 (271)
T cd06321 146 LAKYPGIKLLSD-DQNGKGSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVDG 215 (271)
T ss_pred HHhCCCcEEEee-ecCCCCChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEecC
Confidence 8887 5643211 111111212222344454433 3455443 455567788899999997 3445555443
No 155
>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=97.55 E-value=0.0073 Score=63.95 Aligned_cols=206 Identities=13% Similarity=0.048 Sum_probs=118.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|... .+-..+..+++-++++ . |+.+. +.++..++..-.+....++.+ ++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~~---~----g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALARE---R----GYQLL--IACSDDDPETERETVETLIAR-QVDALIVAGSLPPDDP 70 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHHH---C----CCEEE--EEeCCCCHHHHHHHHHHHHHc-CCCEEEEcCCCCchHH
Confidence 3899998644 3333344444444332 1 34444 445555665555555566665 8887774333222222
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 176 (932)
+. .+...++|+|.+....+ ....++ +..++..-+..+++++...|-++++++.... .......+.+.+.++
T Consensus 71 ~~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (264)
T cd06274 71 YY-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALA 143 (264)
T ss_pred HH-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHH
Confidence 33 45668899999865322 122233 4445666677788888778889999997543 233455788899999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+.....+....+.+.....+.++.+. .+++|+. .+...+..+++++++.|+..++-+-|++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~ip~dv~v~g 212 (264)
T cd06274 144 DAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFT-TSYTLLEGVLRFLRERPGLAPSDLRIAT 212 (264)
T ss_pred HcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEE-cChHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 8875432211111112222333445554433 3565554 4556677899999999987665555554
No 156
>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=97.55 E-value=0.0094 Score=63.81 Aligned_cols=211 Identities=9% Similarity=0.047 Sum_probs=115.2
Q ss_pred EEEEEEeCC--CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCC--CHHHHHHHHHHHHhcCCeEEEEccCChh-
Q 002352 20 NVGLVLDMN--GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKG--DVVAAAAAALDLLNNVLVQAILGPEKSM- 94 (932)
Q Consensus 20 ~IG~i~~~s--~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~--~~~~a~~~a~~li~~~~v~aiiGp~~s~- 94 (932)
|||+++|.. +.+-.....+++.++++ . |+.+.+...++.. ++..-......++.+ +|++||=...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~---~----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEE---L----NIPYELTQFSSRPGIDHRLQSQQLNEALQS-KPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHH---c----CCcEEEEEeccCcccCHHHHHHHHHHHHHc-CCCEEEEcCCchh
Confidence 589999863 23323334444444332 2 4566665444332 444444445555554 888887533322
Q ss_pred HHHHHHHhcCCCCccEEeccc-CCCCccCCCCCceEecccCchhHHHHHHHHHHH--cCCeEEEEEEEcC-CcCCChHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSA-TSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA--FGWREAVPIYVDN-QYGEEMIPS 170 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a-~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~ 170 (932)
....+..+. ..++|.|.... ..+.......+....+..++..-+..+++.+.. .|.+++++|.... .......+.
T Consensus 73 ~~~~~~~l~-~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~g 151 (280)
T cd06303 73 HRKLIERVL-ASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDT 151 (280)
T ss_pred hHHHHHHHH-hCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHH
Confidence 223334433 45667666522 222100000122344566777777888888866 7889999997532 223445678
Q ss_pred HHHHHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 171 LTDALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 171 l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
|.+++++. |+.+... +....+..+....+.++.+.. +++ |++++...+..+++++++.|+. ++...+.-
T Consensus 152 f~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDF-IYACSTDIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcE-EEECCcHHHHHHHHHHHHcCCC-CCcEEEec
Confidence 88899887 6654322 222223333344555554443 444 4455666778899999999985 33344443
No 157
>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=97.53 E-value=0.0056 Score=65.04 Aligned_cols=204 Identities=11% Similarity=0.012 Sum_probs=120.0
Q ss_pred EEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
||++.|.. +.+-.....+++.++++. |+++ .+.++..++..-.+....++++ ++++||- |.... . .
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~~~~-~-~ 69 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAA-------GYDV--VLSESGRRTSPERQWVERLSAR-RTDGVILVTPELT-S-A 69 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHc-------CCeE--EEecCCCchHHHHHHHHHHHHc-CCCEEEEecCCCC-h-H
Confidence 78999764 455556667776666652 3444 4445555553333444555554 8887763 33322 2 2
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 176 (932)
....+...++|+|.+...... ....+ ...+++...+..+++.+...|.++++++..+. .......+.|.++++
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 345566789999998753211 11123 35566777788888888778999999997532 233455688888998
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
+.|..+..........+.+.....+.++.+. .+++|+ +.+...+..+++.+++.|...++-+-|+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~ 211 (270)
T cd06296 145 EAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVV 211 (270)
T ss_pred HcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 8776543211111112233334445555433 344444 4455667789999999998654444333
No 158
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.53 E-value=0.0049 Score=65.45 Aligned_cols=206 Identities=14% Similarity=0.084 Sum_probs=118.5
Q ss_pred EEEEEEeC------CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh
Q 002352 20 NVGLVLDM------NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS 93 (932)
Q Consensus 20 ~IG~i~~~------s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s 93 (932)
.||+++|. +..+-..+..+++-++++. |+++.+ .+... +..-.+...+++...++++||-....
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~--~~~~~-~~~~~~~~~~~~~~~~~dgiii~~~~ 70 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-------GYDISL--ATGKN-EEELLEEVKKMIQQKRVDGFILLYSR 70 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-------CCEEEE--ecCCC-cHHHHHHHHHHHHHcCcCEEEEecCc
Confidence 37899985 3344445566666666553 355544 34332 33345566666665567776653222
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSL 171 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l 171 (932)
.. ......+...++|+|.+....+ . .+.+..+..++...++.+++.+...|-++++++.....+ .....+.|
T Consensus 71 ~~-~~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 71 ED-DPIIDYLKEEKFPFVVIGKPED---D--KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred CC-cHHHHHHHhcCCCEEEECCCCC---C--CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 12 2334445678999999864321 1 112222445666667788888877788999999754332 23346788
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
.+++++.|+.+..........+.....+.+.++.+.. +++|+. .+...+..+++++++.|+..|+-+-++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vi 216 (270)
T cd06294 145 KQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSII 216 (270)
T ss_pred HHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8999988753221111111122233445555554443 555544 455678889999999998655544344
No 159
>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=97.52 E-value=0.0098 Score=63.98 Aligned_cols=199 Identities=11% Similarity=0.097 Sum_probs=116.7
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||+++|.. ..+-.....+++-++++. |+. +.+.++..++..-.+....++.+ ++++||- |..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~-------g~~--~~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL-------GAE--VIVQNANGDPAKQISQIENMIAK-GVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc-------CCE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhHH
Confidence 489999853 344445666777666652 333 44566666776666666677765 8887764 43333334
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc------CCeEEEEEEEcCC--cCCChHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF------GWREAVPIYVDNQ--YGEEMIP 169 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~v~ii~~d~~--~g~~~~~ 169 (932)
.....+...++|+|......+. ....+ -+..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4555566789999998654321 11222 23455566677777776544 8889999975432 2233467
Q ss_pred HHHHHHHhCC----ceeeeeeecCCCCChhHHHHHHHHHhcCC---ceEEEEEeChhhHHHHHHHHHhCCccc
Q 002352 170 SLTDALQAID----TRVPYRSVISPLATDDQIEKELYKLFTMQ---TRVFILHMLPSLGSRIFEKANEIGLMN 235 (932)
Q Consensus 170 ~l~~~l~~~g----~~v~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~l~~~a~~~g~~~ 235 (932)
.|.+++++.+ +.+... ......+...-...+.++.+.. +++|+ +.+...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~I~-~~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPDWDPETAQKRMENALTANYNKVDGVL-AANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCCCCHHHHHHHHHHHHHhCCCCccEEE-eCCcHHHHHHHHHHHHcCCCC
Confidence 7788888877 443322 1111222223334455554433 34443 344566778999999999864
No 160
>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=97.52 E-value=0.0034 Score=66.97 Aligned_cols=207 Identities=13% Similarity=0.044 Sum_probs=133.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
+||+++|.-. .+-.....+++.++++. |+.+-+ .++..++..- + +.+++.+.+|+++|=-........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~-------Gy~l~l--~~t~~~~~~e-~-~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH-------GYQLLL--CNTGDDEEKE-E-YIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT-------TCEEEE--EEETTTHHHH-H-HHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc-------CCEEEE--ecCCCchHHH-H-HHHHHHhcCCCEEEEecccCChHH
Confidence 6999999876 44455666666666653 355543 4555565554 4 444455558888886533333466
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeE-EEEEEEcCCc--CCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWRE-AVPIYVDNQY--GEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~-v~ii~~d~~~--g~~~~~~l~~~l 175 (932)
+..+.+. ++|+|......... ...|++ ..++..-+..+++++...|-++ ++++..+... .....+.+.+++
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 7777776 99999976532111 123433 2446666778888888889999 9999976544 345567799999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHhCC-ccccceEEEEe
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRV-FILHMLPSLGSRIFEKANEIG-LMNKGCVWIMT 243 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~l~~~a~~~g-~~~~~~~wi~t 243 (932)
++.|+.+..........+.++-...++++.+.++++ .|++++...+..+++++++.| ...+.-+-+..
T Consensus 146 ~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di~~~~ 215 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDIVSGF 215 (279)
T ss_dssp HHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEEEECS
T ss_pred HHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhheeee
Confidence 999986654444332334444456667777666662 445667778889999999999 77676553333
No 161
>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=97.50 E-value=0.013 Score=62.35 Aligned_cols=205 Identities=7% Similarity=-0.077 Sum_probs=120.6
Q ss_pred EEEEEe-CCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLD-MNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~-~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
+|+... +++.+-.....+++-+.++ .| +.+.+.++..++..-.+....++.+ ++++||= |..+.....
T Consensus 2 ~~~~~~~~~~~f~~~~~~gi~~~~~~-------~G--~~~~~~~~~~d~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~~ 71 (272)
T cd06313 2 AAFSNIGLQATWCAQGKQAADEAGKL-------LG--VDVTWYGGALDAVKQVAAIENMASQ-GWDFIAVDPLGIGTLTE 71 (272)
T ss_pred cceeecccCChHHHHHHHHHHHHHHH-------cC--CEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHhHH
Confidence 344432 2333434455555555554 23 3444556666887777777777765 8877665 443343344
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCC--cCCChHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQ--YGEEMIPSLTDA 174 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~ 174 (932)
....+...++|+|.+....+ ....+.+....+++...+..+++++... |.++++++..+.. ......+.|.+.
T Consensus 72 ~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~ 148 (272)
T cd06313 72 AVQKAIARGIPVIDMGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDV 148 (272)
T ss_pred HHHHHHHCCCcEEEeCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHH
Confidence 44455567999999865322 1112223446677777888899988666 8889999975432 233457888999
Q ss_pred HHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 175 LQAID-TRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 175 l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++.+ .++... .....+.......+.++.+.+ +++ |++.+...+..+++.+++.|+ .+...+.-
T Consensus 149 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgf 215 (272)
T cd06313 149 IKKYPDIEVVDE--QPANWDVSKAARIWETWLTKYPQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGV 215 (272)
T ss_pred HHhCCCCEEEec--cCCCCCHHHHHHHHHHHHHhCCCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEee
Confidence 98875 554331 111223233445555554443 444 444556677788999999997 34434433
No 162
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.49 E-value=0.00087 Score=73.16 Aligned_cols=109 Identities=18% Similarity=0.207 Sum_probs=64.0
Q ss_pred CCCHHHHHhCCCcEEEEcChhHHHHH----HhcCCCcccc-cccCCHHHHHHHhhcccCCCceeEEEecccccccccccC
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVFGIL----KQLGFDEKKL-IAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQY 737 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~~~l----~~~~~~~~~~-~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~ 737 (932)
|++++||. |+++++..++..+.++ ++.+.+...+ ..+.+..+..++|.+|+ +||++...++......+.
T Consensus 121 i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~ep~~~~~~~~~ 194 (314)
T PRK11553 121 IKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGN----VDAWAIWDPYYSAALLQG 194 (314)
T ss_pred CCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCC----CCEEEEcCcHHHHHHhcC
Confidence 78999998 9999998887665554 4444433222 23456778889999999 999988776655544433
Q ss_pred CcceEEecccccccceEEEecCC--CCChHHHHHHHHhhhcc
Q 002352 738 CSKYTLIERTFETAGFGFAFPLH--SPLVPEVSRAILNVTEG 777 (932)
Q Consensus 738 ~~~l~~~~~~~~~~~~~~~~~k~--s~l~~~in~~il~l~e~ 777 (932)
..++......+......+++.+. ....+.+++.+..+.+.
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A 236 (314)
T PRK11553 195 GVRVLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEA 236 (314)
T ss_pred CcEEeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHH
Confidence 22222223323333323333321 23445566655555554
No 163
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.48 E-value=0.0087 Score=65.74 Aligned_cols=211 Identities=10% Similarity=0.031 Sum_probs=115.3
Q ss_pred CCCCccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-c
Q 002352 13 KNTTIPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-P 90 (932)
Q Consensus 13 ~~~~~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p 90 (932)
.+..+..+||++.+.. +.+-.....+++-++++.+ + ..+.+.++..++....+....++.+ +|++||= |
T Consensus 19 ~~~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g------~--~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~ 89 (330)
T PRK15395 19 AAAAADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAP------D--VQLLMNDSQNDQSKQNDQIDVLLAK-GVKALAINL 89 (330)
T ss_pred hhhcCCceEEEEEecCcchHHHHHHHHHHHHHHhcC------C--eEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEec
Confidence 3566678899999743 3444455666666655532 1 3444556666666555555566654 8887774 3
Q ss_pred CChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc------------CCeEEEEEE
Q 002352 91 EKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF------------GWREAVPIY 158 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------------~w~~v~ii~ 158 (932)
..+.........+...++|+|.+....+.-.-...+-...+..++..-+..+++++..+ |-.++++|.
T Consensus 90 ~~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~ 169 (330)
T PRK15395 90 VDPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLK 169 (330)
T ss_pred cCHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEe
Confidence 33333344445566789999998763211000111212234555655566656655332 333445554
Q ss_pred EcC--CcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC----CceEEEEEeChhhHHHHHHHHHhCC
Q 002352 159 VDN--QYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM----QTRVFILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 159 ~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~l~~~a~~~g 232 (932)
... .........+.+++++.|+.+..........+.+.-...+.++.+. .+++|+ +++...+..+++++++.|
T Consensus 170 g~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~G 248 (330)
T PRK15395 170 GEPGHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHN 248 (330)
T ss_pred cCCCCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcC
Confidence 322 2233456778889988887654321111111222333455555433 244444 556666788999999999
Q ss_pred c
Q 002352 233 L 233 (932)
Q Consensus 233 ~ 233 (932)
+
T Consensus 249 l 249 (330)
T PRK15395 249 K 249 (330)
T ss_pred C
Confidence 7
No 164
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.46 E-value=0.011 Score=65.55 Aligned_cols=203 Identities=10% Similarity=0.015 Sum_probs=119.3
Q ss_pred ccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 17 IPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 17 ~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
..-.||+++|.. ..+-.....+++-++++. |+.+. +.++..++..-......++.+ ++++||=-.....
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~-------g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEAQ-------GRMVF--LLQGGKDGEQLAQRFSTLLNQ-GVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHHc-------CCEEE--EEeCCCCHHHHHHHHHHHHhC-CCCEEEEeCCCCC
Confidence 446799999853 344445556666655532 34443 334445555444445555554 7887774222222
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~ 173 (932)
.......+...++|+|...... .....++ +..++...+..++++|...|.+++++|..+... .......+.+
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 3445556677899999875421 1112232 456677778888888888899999999654322 2335677899
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
++++.|+.+.....+............+.++.+.. +++|+ +.+...+..+++.+.+.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 99998876432222111112223334455554443 45544 4566677889999999998654
No 165
>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=97.44 E-value=0.011 Score=64.20 Aligned_cols=209 Identities=13% Similarity=0.038 Sum_probs=121.0
Q ss_pred EEEEEeCC-C-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhc-CCeEEEEc-cCChhHH
Q 002352 21 VGLVLDMN-G-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNN-VLVQAILG-PEKSMQT 96 (932)
Q Consensus 21 IG~i~~~s-~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~~v~aiiG-p~~s~~a 96 (932)
||+++|.. . .+-.....+++.++++. |+.+.+ .++..+...-......++.+ .+|++||= |... ..
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEKS-VA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-ch
Confidence 78898765 3 44445566666666542 445544 45555665555555566553 17777663 3222 23
Q ss_pred HHHHHhcCCCCccEEecccCCCCcc-------CCCC-CceEecccCchhHHHHHHHHHHHcCCeE--------EEEEEEc
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLT-------SIRS-SYFFRGSLNDSSQVGAITAIIKAFGWRE--------AVPIYVD 160 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~-------~~~~-p~~~r~~ps~~~~~~ai~~~l~~~~w~~--------v~ii~~d 160 (932)
......+...++|+|.+....+... ...+ .++-...+++...++.+++.+...|-++ ++++...
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 3444566678999999875432211 0111 2345566788888888899887666553 6666532
Q ss_pred C--CcCCChHHHHHHHHHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccc
Q 002352 161 N--QYGEEMIPSLTDALQAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMN 235 (932)
Q Consensus 161 ~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~ 235 (932)
. .........+++++++.| ..+.. .+........-...+.++.+. ++++|+ +.+...+..+++++++.|+..
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~v 228 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQ--VVYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRKP 228 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEee--eecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCCc
Confidence 2 223445677888998887 33322 122222333334455555433 355544 455667788999999999865
Q ss_pred cceEEEE
Q 002352 236 KGCVWIM 242 (932)
Q Consensus 236 ~~~~wi~ 242 (932)
++-+-|+
T Consensus 229 p~di~vi 235 (305)
T cd06324 229 GRDVLFG 235 (305)
T ss_pred CCCEEEE
Confidence 5443333
No 166
>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=97.44 E-value=0.013 Score=62.31 Aligned_cols=208 Identities=12% Similarity=0.109 Sum_probs=121.2
Q ss_pred EEEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||++.|. .+.+-.....+++.++++. + |+++ .+.++..++..-.+....++.+ ++++||= |.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~---~---g~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY---P---DVEL--IIADAADDNSKQVADIENFIRQ-GVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc---C---CcEE--EEEcCCCCHHHHHHHHHHHHHh-CCCEEEEecCchhhch
Confidence 58999974 3334444455555444432 1 3444 4456666776666666666665 7776653 33333223
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCc--CCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQY--GEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 173 (932)
.....+...++|+|.+....+ + ..+...+..++...+..+++++... |-++++++...... .....+.+.+
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---S--DKYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---C--ccceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 333444568999999864221 1 1223445667777788888888664 88999999753322 2334677888
Q ss_pred HHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecc
Q 002352 174 ALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEG 245 (932)
Q Consensus 174 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~ 245 (932)
++++. |+.+..... .....+.....+.++.+. ++++ |++.+...+..+++++++.|+. .+...+.-|.
T Consensus 147 ~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQD--GDWLKEKAEEKMEELLQANPDIDL-VYAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEecC--CCccHHHHHHHHHHHHHhCCCCcE-EEeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99888 876543211 111222223344454332 3554 4445666677899999999987 4445555444
No 167
>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=97.44 E-value=0.01 Score=62.84 Aligned_cols=202 Identities=15% Similarity=0.112 Sum_probs=119.0
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~ 97 (932)
.||+++|... .+-.....++.-++++. |+++ .+.++..++..-.+....+... ++++|| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-------~~~~--~~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-------GYST--FVANTGDNPDAQRRAIEMLLDR-RVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCC-ChH
Confidence 3899998643 44445566666665543 3444 3445555665544444455554 888766 44332 223
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTDAL 175 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 175 (932)
. ...+...++|+|.+....+ ..++ +..++..-+..+++++...|-++++++..+. ..+....+.|.+.+
T Consensus 70 ~-~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 F-LDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred H-HHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 3 3444667999999865321 1232 3456667778888888888999999997543 23445578888899
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
++.|..+.....+....+.......+.++.... +++ |++++...+..+++.+++.|+..|+-+-++
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~di~ii 208 (265)
T cd06285 141 AEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLRVPDDVALV 208 (265)
T ss_pred HHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 888876532211111222223334555554333 454 444566677889999999998654443333
No 168
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.41 E-value=0.016 Score=63.58 Aligned_cols=207 Identities=13% Similarity=0.037 Sum_probs=119.7
Q ss_pred ccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC-hh
Q 002352 17 IPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK-SM 94 (932)
Q Consensus 17 ~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~-s~ 94 (932)
..-.||+++|.. +.+-.....+++.++++. |+.+.+ .++..++..-.+....++. .++++||=... ..
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~-------g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQR-------GYQLLI--ACSDDQPDNEMRCAEHLLQ-RQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHc-------CCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCCC
Confidence 456799999853 333334555666665532 355544 3444455444444444554 48888774222 22
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLT 172 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 172 (932)
....+ ..+...++|+|......+ ....++ ...++...+..+++.+...|-++++++..... ......+.|.
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 22223 333467899998764321 122332 34566667777888887788999999975432 3344568899
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++++.|+.+.... ....+.++-...+.++.+. .+++|+.. +...+..+++++.+.|+..|+-+=|++
T Consensus 203 ~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~disv~g 272 (328)
T PRK11303 203 QALKDDPREVHYLY--ANSFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDLAIAT 272 (328)
T ss_pred HHHHHcCCCceEEE--eCCCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 99999887543221 1111222333445555443 35655544 455677889999999986665554443
No 169
>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=97.41 E-value=0.016 Score=61.39 Aligned_cols=203 Identities=13% Similarity=0.113 Sum_probs=118.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
.||+++|.-. .+-.....+++.++++. |+.+.+...+. .++..-.+....++++ +++++|- +..... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~~~~~~~~-~~~~~~~~~~~~l~~~-~vdgiii~~~~~~~-~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-------GYAVTLSMLAE-ADEEALRAAVRRLLAQ-RVDGVIVNAPLDDA-D 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-------CCeEEEEeCCC-CchHHHHHHHHHHHhc-CCCEEEEeCCCCCh-H
Confidence 3899998544 44445566666666652 35555543332 2333444444455544 8888873 332222 2
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSLTDAL 175 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l 175 (932)
.+... ...++|+|.+....+ +.+..+..++..-+..+++++...|-++++++..+... .....+.|.+++
T Consensus 71 ~~~~~-~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALAA-APADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHHH-HhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 33333 467899999865321 12234556777778889999888899999999754332 234456788888
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ-TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.+.|..+..... ...+.+.-.+.+.++.+.. +++| ++++...+..+++++++.|...++.+-|++
T Consensus 143 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~ai-~~~~d~~a~g~~~~~~~~g~~ip~~i~ii~ 208 (264)
T cd01574 143 EAAGIAPPPVLE--GDWSAESGYRAGRELLREGDPTAV-FAANDQMALGVLRALHELGLRVPDDVSVVG 208 (264)
T ss_pred HHCCCCcceeee--cCCCHHHHHHHHHHHHhCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCccceEEec
Confidence 888876543211 1222333344455554433 5554 344566678899999999975454444443
No 170
>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=97.40 E-value=0.014 Score=62.17 Aligned_cols=207 Identities=14% Similarity=0.092 Sum_probs=121.7
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCC-hh--H
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEK-SM--Q 95 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~-s~--~ 95 (932)
||+++|... .+-.....+++.++++. |+.+. +.++..++..-.+....++.+ +++++|= |.. .. .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQY-------GYTVL--LCNTYRGGVSEADYVEDLLAR-GVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHC-------CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEeCCCCCcccc
Confidence 799998644 44445566666666652 45553 445555665555556666665 8887773 221 11 1
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLTD 173 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~ 173 (932)
.......+...++|+|.+....+. ....+ .+..++...+..+++.+...|-++++++.... .......+.|.+
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 122233346689999998653321 01123 35567777788888888888999999987532 223445678888
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++++.|+.......+....+.+.....+.++....+++|+ +++...+..+++.+++.|+..++-+-|++
T Consensus 147 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii~ 215 (273)
T cd06292 147 ALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVVG 215 (273)
T ss_pred HHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 9988885432111111111222233444555444477655 44566677889999999986555555554
No 171
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.38 E-value=0.022 Score=60.91 Aligned_cols=200 Identities=12% Similarity=0.066 Sum_probs=115.1
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||++.|... .+-.....+++.+.++. |+.+ .+.++..++..-.+....++.. ++++||= +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-------g~~v--~~~~~~~~~~~~~~~i~~~~~~-~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-------GYEL--ISTDAQGDLTKQIADVEDLLTR-GVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-------CCEE--EEEcCCCCHHHHHHHHHHHHHc-CCCEEEEecCCccchH
Confidence 5899988643 34444556666666642 3444 4566666776655555566655 8877664 33333223
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCe--EEEEEEEc--CCcCCChHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWR--EAVPIYVD--NQYGEEMIPSLT 172 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~--~v~ii~~d--~~~g~~~~~~l~ 172 (932)
.....+...++|+|.+....+. ..+.+..+..++...+..+++.+.. .|-+ +++++..+ ...+....+.|.
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 3444556789999998653211 0123345666777778888888754 6754 88888753 334556677888
Q ss_pred HHHHhCCce------eeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 173 DALQAIDTR------VPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 173 ~~l~~~g~~------v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
+++++.|.. +..........+..+....+.++... ++++| ++.+...+..+++++++.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVV-YSENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEE-EECCcchHHHHHHHHHHcCCC
Confidence 999887642 11111011112222333444554433 34444 344455677899999999984
No 172
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.38 E-value=0.023 Score=61.82 Aligned_cols=204 Identities=12% Similarity=0.014 Sum_probs=118.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||++.|... .+-.....+++-++++. |+.+.+...+...+...-.+....++.+ ++++||- |..+....
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-------g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-------GVSVDIFASPSEGDFQSQLQLFEDLSNK-NYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-------CCeEEEecCCCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChHHHH
Confidence 7999998643 44445566666665542 4556554335555665556666666665 7877764 33333222
Q ss_pred HHHHhcCCCCccEEecccCCCC--ccCCCCCceEecccCchhHHHHHHHHHHH-cCC--eEEEEEEEcC--CcCCChHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPS--LTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGW--REAVPIYVDN--QYGEEMIPS 170 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~--l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w--~~v~ii~~d~--~~g~~~~~~ 170 (932)
.....+...++|+|.+....+. +.........-+..+....+...++++.. .|- ++++++..+. .......+.
T Consensus 98 ~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 98 MPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 2233345689999998753221 11111112234567777778888888744 453 7898886433 233455678
Q ss_pred HHHHHHhCC-ceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 171 LTDALQAID-TRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 171 l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
+.+++++.| +++..... .....++-...+.++.+. ++++ |++.+...+..+++++++.|..
T Consensus 178 f~~al~~~~~~~~~~~~~--~~~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 178 ATEAFKKASQIKLVASQP--ADWDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHhCCCcEEEEecC--CCCCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC
Confidence 889998887 66543211 112222233455555433 3454 4455566778899999999985
No 173
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=97.37 E-value=0.012 Score=62.09 Aligned_cols=203 Identities=12% Similarity=0.044 Sum_probs=119.9
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|..+ .+-.....+++.++++. |+.+.+ .++..++..-.+....+... ++++||=..+......
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~-------g~~~~~--~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH-------GYKVVL--LQTNYDKEKELEYLELLKTK-QVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc-------CCEEEE--EeCCCChHHHHHHHHHHHHc-CCCEEEEeCCCCCHHH
Confidence 3889998643 55556777777777643 355544 45555665555555555554 7887764222222333
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~ 176 (932)
+..+.+ .+ |+|......+ ...+ .+.++....+..+++.+...|-+++++|..+ +.......+.|.++++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444444 34 8887653211 1122 3556777778888898888899999999754 2334455788889999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
+.|+.+.....+....+..+-...+..+.+. .+++| ++++...+..+++.+++.|+..++-+-++
T Consensus 142 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ip~di~v~ 208 (260)
T cd06286 142 EYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIRVPEDLAII 208 (260)
T ss_pred HcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9886543211111111222333445555433 45644 45666677889999999998655444444
No 174
>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=97.35 E-value=0.016 Score=61.44 Aligned_cols=201 Identities=11% Similarity=0.037 Sum_probs=112.7
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||+++|... .+-.....+++-++++. |+.+.+ .++..++..-.+....+.. .+++++|--.+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------gy~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNGS-------GYSPII--ATGHWNQSRELEALELLKS-RRVDALILLGGDLPEEE 70 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHHC-------CCEEEE--EeCCCCHHHHHHHHHHHHH-CCCCEEEEeCCCCChHH
Confidence 3889987533 44444455554444322 344443 4444566444444444554 48888773222211222
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~ 176 (932)
+..+ . .++|+|.+....+ ....+ .+..++..-+..+++.+...|-++++++..+ ........+.+.+.+.
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2233 3 4899999875322 11123 3445677777888888877798999999754 2333445677888888
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceE
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCV 239 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~ 239 (932)
+.|..+.....+............+.++.+.. +++|+ +++...+..+++.+++.|+..|+.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~di 206 (265)
T cd06290 143 EAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPEDV 206 (265)
T ss_pred HcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 87765432211111112222334555555433 46544 4566678889999999998655443
No 175
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.35 E-value=0.018 Score=63.28 Aligned_cols=208 Identities=11% Similarity=0.051 Sum_probs=118.3
Q ss_pred ccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCC-h
Q 002352 17 IPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEK-S 93 (932)
Q Consensus 17 ~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~-s 93 (932)
..-.||+++|... .+-.....+++-++++ . |+.+.+ .++..++..-.+....+.+. +|++||= |.. +
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~----g~~~~~--~~~~~~~~~~~~~~~~l~~~-~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE---R----GYSLVL--CNTEGDEQRMNRNLETLMQK-RVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH---c----CCEEEE--EeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCcc
Confidence 4467999998643 4444556666666554 1 355543 44555665544555555554 7887763 222 2
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSL 171 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l 171 (932)
...... +....++|+|.+..... .. .. .....++..-+..+++.+...|-+++++|... ........+.|
T Consensus 125 ~~~~~~--l~~~~~iPvV~i~~~~~---~~-~~--~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 QPSREI--MQRYPSVPTVMMDWAPF---DG-DS--DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred hhhHHH--HHhcCCCCEEEECCccC---CC-CC--CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 111111 22224899999864211 11 11 12334444557778888888899999999643 23334557889
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.+++++.|+.+.....+......+.-...+.++.+. .+++| ++++...+..+++.+++.|+..|+-+-|++
T Consensus 197 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAV-FTGNDAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred HHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 999999887643221111111222233445555433 34544 445566678899999999987665555554
No 176
>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=0.015 Score=61.56 Aligned_cols=201 Identities=14% Similarity=0.075 Sum_probs=116.1
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||++.|... .+-.....++.-++++. |+++.+...++ +. ...+...+++.. ++++||--.+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~~~~~~~--~~-~~~~~i~~~~~~-~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQAR-------GYQPLLINTDD--DE-DLDAALRQLLQY-RVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHC-------CCeEEEEcCCC--CH-HHHHHHHHHHHc-CCCEEEEecCCCCH-HH
Confidence 788988643 44444455554444432 45666555553 33 333444555554 88887753332222 33
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHHHh
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDALQA 177 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~ 177 (932)
...+...++|+|.+....+ + ..+..+..++...+..+++++...|-++++++..+.. ......+.|.+.+++
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 5556678999999865322 1 2234466778888889999988888899999985433 334456788889988
Q ss_pred CCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhC-CccccceEEEE
Q 002352 178 IDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEI-GLMNKGCVWIM 242 (932)
Q Consensus 178 ~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~-g~~~~~~~wi~ 242 (932)
.|..+... .. ...+.......+.++.+. .+++|+.. +...+..+++.+++. |...++-+.++
T Consensus 144 ~~~~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~~~~~p~di~i~ 208 (266)
T cd06278 144 AGVPVVVE-EA-GDYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEGGLRVPEDVSVI 208 (266)
T ss_pred cCCChhhh-cc-CCCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhcCCCCccceEEE
Confidence 88764321 11 112223344455555444 34554443 445566788888775 44333333333
No 177
>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=97.34 E-value=0.013 Score=62.47 Aligned_cols=206 Identities=13% Similarity=0.137 Sum_probs=121.7
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChh---H
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSM---Q 95 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~---~ 95 (932)
||++.|... .+-.....+++-++++. |+.+ .+.++..++..-.+....++.. +|++||= |..+. .
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEK-------GYSL--LLASTNNDPERERKCLENMLSQ-GIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHc-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeccccccccc
Confidence 788887533 33334455554444432 3444 4556666777667777777765 8888873 33221 1
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC-CcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN-QYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 174 (932)
.......+...++|+|......+. . -+..+..++..-+..+++++...|.++++++...+ ..+....+.+.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---L---NFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---C---CCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112333446678999998653221 1 12345667777788889998888999999886432 2233446778888
Q ss_pred HHhCCceeeeee--ecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 175 LQAIDTRVPYRS--VISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 175 l~~~g~~v~~~~--~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++.|..+.... ............+.+.++.+. .+++| ++.+...+..+++++++.|+..|+-+-|++
T Consensus 146 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vvg 217 (273)
T cd01541 146 YREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVVG 217 (273)
T ss_pred HHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 888886432211 111111112344555555443 35554 445566677899999999986665555554
No 178
>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=97.33 E-value=0.013 Score=61.95 Aligned_cols=200 Identities=14% Similarity=0.043 Sum_probs=114.2
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||++.|.- ..+-.....+++-++++. |+++. +.++..++..-.+....++. .++.+||--......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~~-- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-------GYKLI--LCNSDNDPEKEREYLEMLRQ-NQVDGIIAGTHNLGI-- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-------CCeEE--EecCCccHHHHHHHHHHHHH-cCCCEEEEecCCcCH--
Confidence 378898743 344444555555555442 34443 44555566554444445544 477777632222111
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC---CcCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN---QYGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l 175 (932)
. .+...++|+|......+ ...+ .+..+....+..+++++...|.++++++.... .......+.|.+++
T Consensus 69 -~-~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 139 (265)
T cd06291 69 -E-EYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVL 139 (265)
T ss_pred -H-HHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHH
Confidence 1 33467999999875432 1123 24556666778888888778999999997533 23445567889999
Q ss_pred HhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 176 QAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 176 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
++.|..+.... .....+..+....+.++.+.. +++|+ +++...+..+++++++.|...++-+-++
T Consensus 140 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~~vp~di~v~ 206 (265)
T cd06291 140 KENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIF-ASNDLTAILVLKEAQQRGIRVPEDLQII 206 (265)
T ss_pred HHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEE-ECChHHHHHHHHHHHHcCCCCCcceEEe
Confidence 88887543221 111112222334455554443 34443 3445567789999999998645444343
No 179
>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=97.33 E-value=0.022 Score=61.37 Aligned_cols=211 Identities=8% Similarity=0.079 Sum_probs=117.4
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
|||++.|... .+-.....+++-++++. |+++.++ .++..++..-.+....++.+ ++++||= |.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~-------g~~~~~~-~~~~~~~~~~~~~l~~~~~~-~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKL-------GIEVVAT-TDAQFDPAKQVADIETTISQ-KPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHc-------CCEEEEe-cCCCCCHHHHHHHHHHHHHh-CCCEEEEcCCCchhhh
Confidence 6899987433 33233444444443332 3555432 35666776666667677765 7776654 43333233
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCc--CCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQY--GEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 173 (932)
.....+...++|+|.+....+.... ...++.-+..++..-+..+++++... |-++++++..+.+. .....+.+.+
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 4445566789999988654332211 11233445566666678888888665 77899999754333 2334677888
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
.+++.+..+....... ..........++++... .+++|+ +.+...+..+++.+++.|+ .+..++.-+
T Consensus 151 ~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 151 TIKKNYPDITIVAEKG-IDGPSKAEDIANAMLTQNPDLKGIY-AVWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHHhCCCcEEEeecC-CcchhHHHHHHHHHHHhCCCeeEEE-eCCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 8876553222111111 11112233445555433 345444 3456678899999999997 333444443
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=97.32 E-value=0.037 Score=58.92 Aligned_cols=210 Identities=14% Similarity=0.080 Sum_probs=113.9
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~s~~a~ 97 (932)
+||++.|... .+-.....+++-++++..-. ...+..... ...++..-.+.... +.. ++++|| .|.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~----~~~~~~~~~-~~~~~~~~~~~i~~-~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA----RIRVRIHFV-ESFDPAALAAALLR-LGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc----CceEEEEEc-cCCCHHHHHHHHHH-HHh-cCCEEEEeCCCcHHHH
Confidence 5899987643 44445666777666664322 122322222 23455444444444 444 777765 344433333
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc-C--CeEEEEEEEcCC--cCCChHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF-G--WREAVPIYVDNQ--YGEEMIPSLT 172 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~--w~~v~ii~~d~~--~g~~~~~~l~ 172 (932)
.....+.+.++|+|.+....+. .. .+..+..++...+..+++++... | -++++++..... ......+.+.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~---~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SP---RAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cc---eeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3445555689999987542211 11 12224455556666667776543 4 369999875432 2334467888
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFT--MQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
+++++.+..+.....+....+.++....++++.+ .++++|+...+. +..+++++++.|+. .+...+..|
T Consensus 149 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 8998877544322222212222333455555543 346676666543 46899999999975 344444443
No 181
>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=97.32 E-value=0.022 Score=60.46 Aligned_cols=194 Identities=9% Similarity=-0.073 Sum_probs=115.4
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCC--CCHHHHHHHHHHHHhcCCeEEEEc-cCChhH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSK--GDVVAAAAAALDLLNNVLVQAILG-PEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~--~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~ 95 (932)
+||+++|.- +.+-.....+++.++++. |+++.+ .+.. .+...-.+....++.. ++++||- |.....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-------g~~~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL-------GVSLKL--LEAGGYPNLAKQIAQLEDCAAW-GADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc-------CCEEEE--ecCCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChhh
Confidence 589999853 344445666777777654 344444 4433 2444444555566655 8887764 333222
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCC-----eEEEEEEEcCC--cCCChH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGW-----REAVPIYVDNQ--YGEEMI 168 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w-----~~v~ii~~d~~--~g~~~~ 168 (932)
.. ....+...++|+|.+....+ +. .....+..++...+..+++++...+- ++++++..... ......
T Consensus 71 ~~-~~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~ 144 (268)
T cd06306 71 LN-EILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVE 144 (268)
T ss_pred HH-HHHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHH
Confidence 22 23445678999998753211 11 12224566667778888888866554 79999975332 334557
Q ss_pred HHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 169 PSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 169 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
+.+.+++++.++++... .....+.+.-...++++.+. ++++|+. ....+..+++.+++.|+
T Consensus 145 ~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 145 KGFRDALAGSAIEISAI--KYGDTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHhhcCcEEeee--ccCCccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 78889999888876542 11112223334455554433 4677653 46677889999999997
No 182
>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=97.29 E-value=0.012 Score=63.46 Aligned_cols=186 Identities=12% Similarity=0.114 Sum_probs=112.4
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
+||++...+...-.....|++-++++..- .. ..+++.+.+.++|+..+.+.+.++..+ +++.|+-- .+..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~---~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~-~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGY---DE-KNVEIEYKNAEGDPEKLRQIARKLKAQ-KPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT-----C-CCEEEEEEE-TT-HHHHHHHHHHHCCT-S-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCC---cc-ccEEEEEecCCCCHHHHHHHHHHHhcC-CCCEEEEe-CcHHHHHH
Confidence 68888888876555667888887776532 22 568899999999998888888876654 77777753 34455666
Q ss_pred HHhcCCCCccEEecccCCCCccC----CCC--CceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCc-CCChHHH
Q 002352 100 IQLGNKSQVPILSFSATSPSLTS----IRS--SYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQY-GEEMIPS 170 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~----~~~--p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~-g~~~~~~ 170 (932)
....... +|+|-.+.++|...+ ... .++.-+. +........++++.+ +-++++++|.+++- +....+.
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 5555444 999887776664322 223 3554443 444555666666554 46899999976543 4456778
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
+++.+++.|+++..... .+.+++...+..+. .+.+++++..+..
T Consensus 152 ~~~~a~~~g~~l~~~~v----~~~~~~~~~~~~l~-~~~da~~~~~~~~ 195 (294)
T PF04392_consen 152 LRKAAKKLGIELVEIPV----PSSEDLEQALEALA-EKVDALYLLPDNL 195 (294)
T ss_dssp HHHHHHHTT-EEEEEEE----SSGGGHHHHHHHHC-TT-SEEEE-S-HH
T ss_pred HHHHHHHcCCEEEEEec----CcHhHHHHHHHHhh-ccCCEEEEECCcc
Confidence 88888899998775433 34567888888775 5678888876543
No 183
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.29 E-value=0.046 Score=60.45 Aligned_cols=209 Identities=7% Similarity=-0.072 Sum_probs=119.6
Q ss_pred CCccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCC
Q 002352 15 TTIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEK 92 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~ 92 (932)
+..+-+||++.|... .+-.....+++-++++. |+.+.+...++..+...-.+....++.+ ++++|| .|..
T Consensus 43 Ar~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-------G~~l~i~~~~~~~~~~~q~~~i~~l~~~-~vdgIIl~~~~ 114 (343)
T PRK10936 43 AKKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-------GVDLKVLEAGGYYNLAKQQQQLEQCVAW-GADAILLGAVT 114 (343)
T ss_pred cCCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-------CCEEEEEcCCCCCCHHHHHHHHHHHHHh-CCCEEEEeCCC
Confidence 345789999998754 33344566777666653 3444443322233444444555556655 788776 4444
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc-----CCeEEEEEEEcC--CcCC
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF-----GWREAVPIYVDN--QYGE 165 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-----~w~~v~ii~~d~--~~g~ 165 (932)
........ .+...++|+|.+..... +.. ....+..++...+...++++... |-++++++..+. ....
T Consensus 115 ~~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~ 188 (343)
T PRK10936 115 PDGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSK 188 (343)
T ss_pred hHHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHH
Confidence 33322333 45678999998643211 111 12335567777778888877544 468999987532 2223
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
...+.+.+.+++.|+++... .. ...+.+.-...++++.+. ++++|+ +....+..+++.+++.|+ ++.+.|++
T Consensus 189 ~R~~Gf~~~l~~~~i~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~--~~di~Vvg 262 (343)
T PRK10936 189 AVEQGFRAAIAGSDVRIVDI-AY-GDNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL--TDKIKLVS 262 (343)
T ss_pred HHHHHHHHHHhcCCCEEEEe-ec-CCCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC--CCCeEEEE
Confidence 44677888888888876542 11 112222233444454432 467775 445667788899999997 34444443
No 184
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.21 E-value=0.022 Score=60.46 Aligned_cols=202 Identities=13% Similarity=0.049 Sum_probs=116.9
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
||++.|... .+-.....++..++++. |+.+.+...+ .+. ...+...+++...+|++||=-..... ...
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~-------gy~~~~~~~~--~~~-~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~ 70 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQ-------RYDLALFPLL--SLA-RLKRYLESTTLAYLTDGLLLASYDLT-ERL 70 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHC-------CCEEEEEeCC--CcH-HHHHHHHHHHHhcCCCEEEEecCccC-hHH
Confidence 788988643 44455566666666652 4556554443 222 22333444344447777664222222 334
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--C------cCCChHHHH
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--Q------YGEEMIPSL 171 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~------~g~~~~~~l 171 (932)
...+...++|+|.+....+ ..++ ..+++..-+..+++.+... .++++++.... . .+....+.|
T Consensus 71 ~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~gf 141 (269)
T cd06297 71 AERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAGF 141 (269)
T ss_pred HHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHHH
Confidence 4455678999999865321 1233 3457777777777887666 78999886432 2 334557889
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
++++++.|..+.....+....+..+....+.++.+.. +++|+ +++...+..+++.+++.|...|+-+-|++
T Consensus 142 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vP~di~vvg 214 (269)
T cd06297 142 QQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVF-ASADQQALGALQEAVELGLTVGEDVRVVG 214 (269)
T ss_pred HHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999998876533211111122233445666665433 45444 44556778899999999986665555553
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=97.21 E-value=0.016 Score=61.42 Aligned_cols=195 Identities=9% Similarity=0.017 Sum_probs=106.5
Q ss_pred EEEEEEeC----CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDM----NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~----s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
|||++.|. +..+-.....|++.++++. |+.+.+. +.. ++..-.+....++. .+|++||--... .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~-------gy~~~i~--~~~-~~~~~~~~i~~l~~-~~vdgiI~~~~~-~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKEL-------GIEYKYV--ESK-SDADYEPNLEQLAD-AGYDLIVGVGFL-L 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHc-------CCeEEEE--ecC-CHHHHHHHHHHHHh-CCCCEEEEcCcc-h
Confidence 58999985 2344445566666666652 3444443 333 33333444444544 589998862222 2
Q ss_pred HHHHHHhcCCC-CccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cCCeEEEEEEEcCCcC-CChHHHHH
Q 002352 96 TNFIIQLGNKS-QVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FGWREAVPIYVDNQYG-EEMIPSLT 172 (932)
Q Consensus 96 a~~v~~~~~~~-~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g-~~~~~~l~ 172 (932)
.........++ ++|++......+. .+.+-....+...-+..++.++.. .|-+++++|..+.... ....+.+.
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~-----~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDD-----PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCC-----CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23445555554 8999987642211 012223334444444444555554 3889999997532211 12236788
Q ss_pred HHHHhCC---ceeeeeeecCCCCC-hhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCC
Q 002352 173 DALQAID---TRVPYRSVISPLAT-DDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 173 ~~l~~~g---~~v~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g 232 (932)
+.+++.| ..+..........+ .++-...+.++.+..+++|+ +.+...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~-~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIF-AAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEE-ECCCCCchHHHHHHHhcC
Confidence 8888877 54432211111112 23334556666555677644 446666778999999988
No 186
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.20 E-value=0.018 Score=63.15 Aligned_cols=204 Identities=8% Similarity=0.037 Sum_probs=120.3
Q ss_pred CCCccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCC
Q 002352 14 NTTIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEK 92 (932)
Q Consensus 14 ~~~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~ 92 (932)
++++..+||++.+..+ .+......+++-++++. |+.+ .+.++..++..-.+....++.+ ++++||=-..
T Consensus 21 ~~~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~-------g~~l--~i~~~~~~~~~~~~~i~~l~~~-~vDGiIi~~~ 90 (330)
T PRK10355 21 AHAKEVKIGMAIDDLRLERWQKDRDIFVKKAESL-------GAKV--FVQSANGNEETQMSQIENMINR-GVDVLVIIPY 90 (330)
T ss_pred ccCCCceEEEEecCCCchHHHHHHHHHHHHHHHc-------CCEE--EEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCC
Confidence 3456899999998544 55555666776666643 2344 4456666776655656666665 8888764322
Q ss_pred -hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC---CcCCChH
Q 002352 93 -SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN---QYGEEMI 168 (932)
Q Consensus 93 -s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~ 168 (932)
..........+...++|+|.+.... ... +....+..++...+..+++++...|-++++++.... .......
T Consensus 91 ~~~~~~~~l~~~~~~~iPvV~id~~~---~~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~ 165 (330)
T PRK10355 91 NGQVLSNVIKEAKQEGIKVLAYDRMI---NNA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFR 165 (330)
T ss_pred ChhhHHHHHHHHHHCCCeEEEECCCC---CCC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHH
Confidence 2222344455677889999975422 111 122356778888899999998777778877655322 2223345
Q ss_pred HHHHHHHHhC---C-ceeeeeeecCCCCChhHHHHHHHHHhc---CCceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 169 PSLTDALQAI---D-TRVPYRSVISPLATDDQIEKELYKLFT---MQTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 169 ~~l~~~l~~~---g-~~v~~~~~~~~~~~~~~~~~~l~~l~~---~~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
..+.+++++. | +.+...... ...+..+....++++.+ ..+++ |++.+...+..+++++++.|+.
T Consensus 166 ~gf~~~l~~~~~~~~i~~~~~~~~-~~~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 166 AGQMKVLKPYIDSGKIKVVGDQWV-DGWLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHHhhhccCCCeEEecccCC-CCCCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 6677777653 4 443222111 11122233344455432 23554 4455666677899999999985
No 187
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.18 E-value=0.033 Score=61.08 Aligned_cols=204 Identities=12% Similarity=0.053 Sum_probs=130.4
Q ss_pred CccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 16 TIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 16 ~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
...-.||++.|.-. .+-.....|++.++++. |+. +.+..+..++..-......+. +.+|++||=-. ..
T Consensus 56 ~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~-------gy~--~~l~~~~~~~~~e~~~~~~l~-~~~vdGiIi~~-~~ 124 (333)
T COG1609 56 GRTKTIGLVVPDITNPFFAEILKGIEEAAREA-------GYS--LLLANTDDDPEKEREYLETLL-QKRVDGLILLG-ER 124 (333)
T ss_pred CCCCEEEEEeCCCCCchHHHHHHHHHHHHHHc-------CCE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEec-CC
Confidence 35567999999433 33334555555555442 233 445555446655444444444 45899888633 33
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc--CCcCCChHHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD--NQYGEEMIPSLT 172 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~ 172 (932)
............++|+|......+ + +.+..+..++..-+..+++.+...|-+++++|... ...+..-.+.+.
T Consensus 125 ~~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 198 (333)
T COG1609 125 PNDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYR 198 (333)
T ss_pred CCHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHH
Confidence 444555566667999999775443 1 22334556788888999999999999999999975 445566789999
Q ss_pred HHHHhCCcee--eeeeecCCCCChhHHHHHHHHHhcCC---ceEEEEEeChhhHHHHHHHHHhCCccccceE
Q 002352 173 DALQAIDTRV--PYRSVISPLATDDQIEKELYKLFTMQ---TRVFILHMLPSLGSRIFEKANEIGLMNKGCV 239 (932)
Q Consensus 173 ~~l~~~g~~v--~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~l~~~a~~~g~~~~~~~ 239 (932)
+++++.|+.. .....- ..+..+-...+.++.... +++| ++++...+..+++++++.|+..|+-+
T Consensus 199 ~al~~~~~~~~~~~i~~~--~~~~~~g~~~~~~ll~~~~~~ptAi-f~~nD~~Alg~l~~~~~~g~~vP~di 267 (333)
T COG1609 199 AALREAGLPINPEWIVEG--DFSEESGYEAAERLLARGEPRPTAI-FCANDLMALGALRALRELGLRVPEDL 267 (333)
T ss_pred HHHHHCCCCCCcceEEec--CCChHHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCCee
Confidence 9999999875 222221 123334445555555433 4444 55666778999999999998766533
No 188
>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=97.15 E-value=0.063 Score=58.04 Aligned_cols=201 Identities=8% Similarity=-0.015 Sum_probs=113.9
Q ss_pred EEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
+||++.+.. ..+-.....+++-++++. |+++.+. .++..++....+....++.+ ++++||- +.......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-------g~~v~~~-~~~~~d~~~~~~~i~~~~~~-~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-------GVDAIYV-GPTTADAAGQVQIIEDLIAQ-GVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-------CCeEEEE-CCCCCCHHHHHHHHHHHHhc-CCCEEEEecCCHHHHH
Confidence 588888753 344445666666666652 3444432 24445666666666666665 7887774 33333333
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc-CC-eEEEEEEEcCC--cCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF-GW-REAVPIYVDNQ--YGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w-~~v~ii~~d~~--~g~~~~~~l~~ 173 (932)
.....+...++|+|.+....+. . ...+.....++...+..+++++... +- ++++++..+.. ......+.+.+
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~---~-~~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP---D-NRDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC---C-cceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4444556789999998643211 0 1123334566777778888887655 43 69999875432 22344678889
Q ss_pred HHHhCCce-eeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 174 ALQAIDTR-VPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 174 ~l~~~g~~-v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
++++.|.. +.....+....+.+.-...+.++.+.. +++| ++++...+..+++++++.|+.
T Consensus 148 ~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGDDDADKSYQTAQELLKAYPDLKGI-IGPTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHhhcCCCCeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEE-EECCCcchhHHHHHHHhcCCC
Confidence 99888621 211111111122223234444544333 4443 344556788899999999985
No 189
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.15 E-value=0.032 Score=61.70 Aligned_cols=208 Identities=14% Similarity=0.088 Sum_probs=116.0
Q ss_pred CccEEEEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 16 TIPVNVGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 16 ~~~i~IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
...-.||+++|. ++.+-..+..+++.++++. |+.+ .+.++..++..-.+....++.+ ++++||--....
T Consensus 57 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~ 126 (343)
T PRK10727 57 QSTETVGLVVGDVSDPFFGAMVKAVEQVAYHT-------GNFL--LIGNGYHNEQKERQAIEQLIRH-RCAALVVHAKMI 126 (343)
T ss_pred CCCCeEEEEeCCCCcchHHHHHHHHHHHHHHc-------CCEE--EEEeCCCCHHHHHHHHHHHHhc-CCCEEEEecCCC
Confidence 345679999974 3344344455555554432 2343 3445555655444445555554 788777422111
Q ss_pred HHHHHHHhcCCCCcc-EEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHH
Q 002352 95 QTNFIIQLGNKSQVP-ILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSL 171 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP-~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l 171 (932)
....+..+.+ ++| +|.+....+ ....++ +..++..-+..+++.+...|.+++++|..... ......+.|
T Consensus 127 ~~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 198 (343)
T PRK10727 127 PDAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGY 198 (343)
T ss_pred ChHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHH
Confidence 1222333333 577 676643221 111222 44566666777778887789999999975432 334457889
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
.+++++.|+.+..........+...-...+.++.+.+ +++|+ +.+...+..+++++++.|+..|+-+-|+
T Consensus 199 ~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 199 YDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 9999999876432211111112222233455554333 45554 4566678899999999998766555444
No 190
>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=97.13 E-value=0.023 Score=60.00 Aligned_cols=201 Identities=9% Similarity=0.041 Sum_probs=115.0
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
.||++.|... .+-.....+++.+.++. |+.+.+...+ +... ....+.. .++++||-..+......
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~---~~~~---~~~~l~~-~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN-------GYNMNVSITP---SLAE---AEDLFKE-NRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc-------CCEEEEEecc---cHHH---HHHHHHH-cCcCEEEEeCCCCChHH
Confidence 3789998644 44445556666655532 3555555443 2222 2233443 47887763222222222
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLTDALQ 176 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 176 (932)
.......++|+|.+....+ ...+ .+..++...+..+++.+...|-++++++..... ........+.++++
T Consensus 67 -~~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 -YLYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred -HHHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2344568899998764322 1123 255567777888889888789999999975432 23344677888999
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|..+..........+.+.....+.++.+.. +++ |++++...+..+++.+++.|+..++-+-+++
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~vvg 206 (261)
T cd06272 139 ENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIEIIS 206 (261)
T ss_pred HcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceEEEe
Confidence 88864332111111122233345555555443 444 4455556677899999999986565444443
No 191
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.10 E-value=0.0021 Score=67.22 Aligned_cols=120 Identities=19% Similarity=0.172 Sum_probs=74.1
Q ss_pred CCCCHHHHHhCCCcEEEEcChhH------HHHH-HhcCCCcc---cccccCCHHHHHHHhhcccCCCceeEEEecccccc
Q 002352 662 TITDFQMLIKSGDNVGYRKDSFV------FGIL-KQLGFDEK---KLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTK 731 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~~------~~~l-~~~~~~~~---~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~ 731 (932)
.|++++||. |+++++...+.. ...| ++.+.+.. +.+...+.++.+++|.+|+ +++.+......+
T Consensus 96 ~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~~~~~~~~~ 169 (243)
T PF12974_consen 96 PITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGK----ADAAAIPSDAFE 169 (243)
T ss_dssp S--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTS----SSEEEEEHHHHH
T ss_pred CCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCC----ccEEEEechhHH
Confidence 389999998 999998654422 2234 34444421 2234457888999999999 898887766665
Q ss_pred cccccC---CcceEEecccccccceEEEecCCCC--ChHHHHHHHHhhhccchHHHHHHHh
Q 002352 732 PFIGQY---CSKYTLIERTFETAGFGFAFPLHSP--LVPEVSRAILNVTEGNKMKEIEDEW 787 (932)
Q Consensus 732 ~~~~~~---~~~l~~~~~~~~~~~~~~~~~k~s~--l~~~in~~il~l~e~G~~~~~~~~~ 787 (932)
.+.... .+.++++...-......++..++-+ .++.|-++++.+..+-.-..+.+.+
T Consensus 170 ~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 170 RLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 555442 4457777554333445677777644 8889999999999865555555554
No 192
>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=0.037 Score=60.70 Aligned_cols=206 Identities=11% Similarity=0.038 Sum_probs=118.1
Q ss_pred ccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChh
Q 002352 17 IPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSM 94 (932)
Q Consensus 17 ~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~ 94 (932)
..-.||+++|.. ..+-.....+++-++++ .|+.+.+. ++..++..-.+....++. .++++||= |....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~-------~gy~~~i~--~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE-------AGYQLLIA--CSDDNPDQEKVVIENLLA-RQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH-------CCCEEEEE--eCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCCC
Confidence 456899999853 34444455555555543 24555443 444455544444555554 48888663 33321
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLT 172 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 172 (932)
....+ ..+...++|+|......+ +...++ +..++..-+..+++.+...|.++++++..... ......+.+.
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22233 334557899998764322 112232 44456666777778887788999999975432 2344567888
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++++.|+.+..... .....++-...+.++.+. .+++|+. .+...+..+++++++.| ..|+-+-|++
T Consensus 202 ~al~~~~~~~~~~~~--~~~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsvig 271 (327)
T TIGR02417 202 QALKQATLEVEWVYG--GNYSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHLAT 271 (327)
T ss_pred HHHHHcCCChHhEEe--CCCChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceEEE
Confidence 999988875322111 112222333455555433 3566554 45566788999999999 6665544443
No 193
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=97.09 E-value=0.081 Score=56.19 Aligned_cols=205 Identities=12% Similarity=0.086 Sum_probs=113.1
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHH-H
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQT-N 97 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a-~ 97 (932)
+||++...+..+-.....+++-++++. |+.+.+.. ++..++..-.+....++.+ +|+++|= |...... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~-~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-------GVDVEFVV-PQQGTVNAQLRMLEDLIAE-GVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-------CCeEEEeC-CCCCCHHHHHHHHHHHHhc-CCCEEEEecCChhHhHH
Confidence 478887666554445556666665552 34444432 3444555555555555554 8887773 4433322 3
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcC--CcCCChHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDN--QYGEEMIPSLTD 173 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 173 (932)
.+..+ .+ ++|+|......+. . +.+.-+..++..-+..+++++... +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~---~--~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD---S--GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc---c--ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 9999998642211 1 112224456666678888887553 334666666432 223445678889
Q ss_pred HHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCCccccceEEEEec
Q 002352 174 ALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
++++.|+.+... .. ......+....+.++.+.. +++|+ +++...+..+++++++.|.. .+...+.-+
T Consensus 145 ~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 145 AIKDSKIEIVDT-RG-DEEDFAKAKSNAEDALNAHPDLKCMF-GLYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHhcCCcEEEEE-ec-CccCHHHHHHHHHHHHHhCCCccEEE-ecCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 999988876542 11 1122233445555555443 45554 34445556678888998876 333344433
No 194
>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=97.08 E-value=0.039 Score=58.25 Aligned_cols=195 Identities=9% Similarity=0.034 Sum_probs=105.2
Q ss_pred EEEEEEeC---CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 20 NVGLVLDM---NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 20 ~IG~i~~~---s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
|||+++|. +..+-.....+++.+.++ .|+.+ .+.++. ++....+....+... ++++||=.... ..
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~-------~gy~~--~~~~~~-~~~~~~~~~~~l~~~-~vdgiii~~~~-~~ 68 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKE-------LGVEV--KYVESV-EDADYEPNLRQLAAQ-GYDLIFGVGFG-FM 68 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHh-------cCceE--EEEecC-CHHHHHHHHHHHHHc-CCCEEEECCcc-hh
Confidence 68999985 223333344444444443 23444 444444 554444555555554 78877653222 22
Q ss_pred HHHHHhcCC-CCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHc-CCeEEEEEEEcC-CcCCChHHHHHH
Q 002352 97 NFIIQLGNK-SQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAF-GWREAVPIYVDN-QYGEEMIPSLTD 173 (932)
Q Consensus 97 ~~v~~~~~~-~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~l~~ 173 (932)
..+....++ .++|++......+. ....+ ....++..-+..++.++..+ |-+++++|..+. .......+.|.+
T Consensus 69 ~~~~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~ 143 (260)
T cd06304 69 DAVEKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAA 143 (260)
T ss_pred HHHHHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHH
Confidence 344455543 37898887643211 01112 22233333344445555544 889999997532 222334678888
Q ss_pred HHHhCCceeeeeeecCCCCC-hhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCC
Q 002352 174 ALQAIDTRVPYRSVISPLAT-DDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 174 ~l~~~g~~v~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g 232 (932)
++++.|..+..........+ .+.-...++++.+.++++| ++.+...+..+++++++.|
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 144 GAKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 99988864332111111111 2233345666665667765 5566667778999999988
No 195
>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=97.04 E-value=0.045 Score=57.99 Aligned_cols=202 Identities=13% Similarity=0.032 Sum_probs=113.6
Q ss_pred EEEEEeC----CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 21 VGLVLDM----NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 21 IG~i~~~----s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
||+++|. +..+-.....+++-++++. |+.+.+...|.. ... .....+.+.+.++++||--.....
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~~~~~~~~--~~~-~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY-------GYNLILKFVSDE--DEE-EFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc-------CCEEEEEeCCCC--hHH-HHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 8999987 2344445555665555542 466666655543 322 223333333448888885332222
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCc--CCChHHHHHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQY--GEEMIPSLTDA 174 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~ 174 (932)
.....+...++|+|......+ ....++ +..++...+..+++++...|.++++++..+... .....+.|.++
T Consensus 71 -~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 71 -EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred -HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 224456677999998764322 112233 444556666777778877799999999755432 23456778899
Q ss_pred HHhCCceeeeeeecCC-CCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEE
Q 002352 175 LQAIDTRVPYRSVISP-LATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~-~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
+++.|+.+........ ......+...+..+. ..+++ |+.++...+..+++++++.|+..++-+-++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~a-i~~~~d~~a~g~~~a~~~~g~~~p~di~vi 210 (268)
T cd06277 144 LLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTA-FFCSNDGVAFLLIKVLKEMGIRVPEDVSVI 210 (268)
T ss_pred HHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCE-EEECCcHHHHHHHHHHHHcCCCCCCcceEE
Confidence 9988876533221111 111223333333322 23555 444455666788888899998654433333
No 196
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.04 E-value=0.025 Score=59.95 Aligned_cols=201 Identities=10% Similarity=0.108 Sum_probs=116.1
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
+||++.|.+..+...+..+++-++++. + |+.+.+. +. +. . ...+.+.+.+|++||-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~---g~~~~~~--~~--~~---~-~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G---PWSIYLE--PR--GL---Q-EPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C---CeEEEEe--cc--cc---h-hhhhhccccccceEEEECCCH---HH
Confidence 589999966656556666666666653 1 3444432 22 11 2 233334455899888533222 22
Q ss_pred HHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC-cCCChHHHHHHHHHhC
Q 002352 100 IQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ-YGEEMIPSLTDALQAI 178 (932)
Q Consensus 100 ~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~ 178 (932)
.......++|+|.+....+. +.+-.+..++...+..+++.+...|-++++++..... ......+.+.+++++.
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 23445679999998653221 2234566777777888888888889999999864332 1223357788899998
Q ss_pred Cceeeeeee--cCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccc-eEEEEec
Q 002352 179 DTRVPYRSV--ISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKG-CVWIMTE 244 (932)
Q Consensus 179 g~~v~~~~~--~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~-~~wi~t~ 244 (932)
|..+..... .....+.++-...+.++.+. ++++ |++++...+..+++.+++.|+..++ ...+.-|
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 876521111 11011112223445554433 3454 4455667778899999999985443 3344433
No 197
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.02 E-value=0.048 Score=59.83 Aligned_cols=202 Identities=4% Similarity=-0.018 Sum_probs=113.3
Q ss_pred cEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhH
Q 002352 18 PVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQ 95 (932)
Q Consensus 18 ~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~ 95 (932)
..+||++....+ .+-..+..|++.+.++. |+++.+. ..+..++..-.+...+++.+ +|.+|+- |.....
T Consensus 23 ~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-------G~~v~~~-~~~~~d~~~q~~~i~~li~~-~vdgIiv~~~d~~a 93 (336)
T PRK15408 23 AERIAFIPKLVGVGFFTSGGNGAKEAGKEL-------GVDVTYD-GPTEPSVSGQVQLINNFVNQ-GYNAIIVSAVSPDG 93 (336)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHHHHHHh-------CCEEEEE-CCCCCCHHHHHHHHHHHHHc-CCCEEEEecCCHHH
Confidence 348999987665 55455667777777653 3555442 33445665556667777776 8887775 555554
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-c--CCeEEEEEEEcCC--cCCChHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-F--GWREAVPIYVDNQ--YGEEMIPS 170 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~--~w~~v~ii~~d~~--~g~~~~~~ 170 (932)
......-+...+||+|++.+..+. .. ..++-...++...+..+++++.+ . +-.+++++..... ......+.
T Consensus 94 l~~~l~~a~~~gIpVV~~d~~~~~--~~--~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 94 LCPALKRAMQRGVKVLTWDSDTKP--EC--RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHHCCCeEEEeCCCCCC--cc--ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 456666677889999998754221 11 11111112234556666666643 3 3468888874322 12233456
Q ss_pred HHHHHHhC--CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhH-HHHHHHHHhCCcc
Q 002352 171 LTDALQAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLG-SRIFEKANEIGLM 234 (932)
Q Consensus 171 l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~-~~l~~~a~~~g~~ 234 (932)
+.+.+++. +++++... ....+.+.-....+.+.+..+++=.+.|..+.+ ...++++++.|..
T Consensus 170 ~~~~l~~~~p~~~vv~~~--~~~~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ--FGYNDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCCCEEEeec--CCCCcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCCC
Confidence 66666543 45554321 112222333345566665555544444444433 4588888888863
No 198
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=96.94 E-value=0.1 Score=57.02 Aligned_cols=215 Identities=13% Similarity=0.121 Sum_probs=138.8
Q ss_pred CCCccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccC
Q 002352 14 NTTIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPE 91 (932)
Q Consensus 14 ~~~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~ 91 (932)
+.....+||++.+..+ .+-..+..+++-+.+++. ....+...|.+.|+..-.+...+++.+ ++++|+ .|.
T Consensus 29 a~~~~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g-------~~~~~~~~~~~~d~~~Q~~~i~~~ia~-~~daIiv~~~ 100 (322)
T COG1879 29 AAAAGKTIGVVVPTLGNPFFQAVRKGAEAAAKKLG-------VVVAVVIADAQNDVAKQIAQIEDLIAQ-GVDAIIINPV 100 (322)
T ss_pred HhccCceEEEEeccCCChHHHHHHHHHHHHHHHcC-------CcEEEEecccccChHHHHHHHHHHHHc-CCCEEEEcCC
Confidence 3444488999998776 454455666666655543 256777888888998888899999876 776654 688
Q ss_pred ChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH-HHcCC-eEEEEEEEc--CCcCCCh
Q 002352 92 KSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII-KAFGW-REAVPIYVD--NQYGEEM 167 (932)
Q Consensus 92 ~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w-~~v~ii~~d--~~~g~~~ 167 (932)
++.....+..-+...+||+|.+....+.- ......+..+....+...++++ ++++- -+++++... .......
T Consensus 101 d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R 176 (322)
T COG1879 101 DPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEER 176 (322)
T ss_pred ChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHH
Confidence 88889999999999999999987643321 2223333335555666667776 44442 346666643 3334556
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHhCCccccceEEEE
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANEIGLMNKGCVWIM 242 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~~g~~~~~~~wi~ 242 (932)
...+.+.+++.+..+..........+.+.-.+....+....+++-.+++.. ..+.-..+++++.|... .+.+.
T Consensus 177 ~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 177 VKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred HhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 788899999887432222222222334444566677777778877666554 44556667777788754 34444
No 199
>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=96.94 E-value=0.051 Score=58.19 Aligned_cols=196 Identities=16% Similarity=0.147 Sum_probs=113.6
Q ss_pred EEEEEeC------CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 21 VGLVLDM------NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 21 IG~i~~~------s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
||++.|. +..+-.....+++-++++. |+.+.+...+. .. + ..+.+...++++||--.+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~-------g~~~~~~~~~~---~~---~-~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDAA-------GVNLLLLPASS---ED---S-DSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHHC-------CCEEEEecCcc---HH---H-HHHHHHhcCCCEEEEeCCCC
Confidence 8999986 2344445566665555542 35555543332 11 2 22333445888888633322
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC-------------
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN------------- 161 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~------------- 161 (932)
.. .....+...++|+|.+....+ +.+-.+..++...+..+++++...|-++++++..+.
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 334445678999998864321 122345567777888888998888999999997532
Q ss_pred ------CcCCChHHHHHHHHHhCCceeeeeeecC-CCCChhHHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHhCC
Q 002352 162 ------QYGEEMIPSLTDALQAIDTRVPYRSVIS-PLATDDQIEKELYKLFTMQ--TRVFILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 162 ------~~g~~~~~~l~~~l~~~g~~v~~~~~~~-~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~l~~~a~~~g 232 (932)
.......+.+.+++++.|+.......+. ...+.+.....+.++.+.. +++ |++++...+..+++++++.|
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~gv~~al~~~g 218 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTA-ILCMSDVLALGALQVARELG 218 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcE-EEECCcHHHHHHHHHHHHcC
Confidence 1123346778888888875432211111 1122234445566655443 444 34555666778999999999
Q ss_pred ccccceE
Q 002352 233 LMNKGCV 239 (932)
Q Consensus 233 ~~~~~~~ 239 (932)
+..|+-+
T Consensus 219 ~~ip~di 225 (283)
T cd06279 219 LRVPEDL 225 (283)
T ss_pred CCCCCce
Confidence 8655433
No 200
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=96.94 E-value=0.12 Score=55.86 Aligned_cols=203 Identities=7% Similarity=-0.061 Sum_probs=111.5
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhH-H
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQ-T 96 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~-a 96 (932)
|||+++|... .+-.....+++-+.++. |+.+.+...+...+...-.+....++.+ +|++||= |..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~-------g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHL-------GVELKVLEAGGYPNLDKQLAQIEQCKSW-GADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHh-------CCEEEEEcCCCCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhhh
Confidence 5899998543 33334445555555532 4555554434333554444555555554 8888764 332222 2
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH-cC----CeEEEEEEEcC--CcCCChHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA-FG----WREAVPIYVDN--QYGEEMIP 169 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~----w~~v~ii~~d~--~~g~~~~~ 169 (932)
..+..+ . .++|+|.+..... .. ..+..+..++..-+..+++++.. +. -++++++.... .......+
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 4899998632211 11 12233555666667777777755 21 24699997543 33455678
Q ss_pred HHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 170 SLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 170 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.+.+++++.|+.+... .....+...-...+.++.+. .+++| +++...+..+++++++.|+ ++-+.+++
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~--~~dv~vvg 215 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM--TQQIKLVS 215 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc--cCCeEEEE
Confidence 8999999888876532 11122222333445555433 35654 4566667888999888886 33344443
No 201
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.91 E-value=0.062 Score=59.06 Aligned_cols=208 Identities=9% Similarity=-0.003 Sum_probs=118.2
Q ss_pred ccEEEEEEEeC-CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 17 IPVNVGLVLDM-NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 17 ~~i~IG~i~~~-s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
..-.||++.|. ++.+-.....+++-++++. |+++. +.+...++..-.+....++. .+|++||--.....
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~~~~-~~vdgiI~~~~~~~ 131 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDAH-------GYQTM--LAHYGYKPEMEQERLESMLS-WNIDGLILTERTHT 131 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHHC-------CCEEE--EecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCCCC
Confidence 34579999984 3344444555666555532 34554 44444555444444444544 48888774222111
Q ss_pred HHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC-CcCCChHHHHHHH
Q 002352 96 TNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN-QYGEEMIPSLTDA 174 (932)
Q Consensus 96 a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 174 (932)
......+...++|+|....... .. ... .+..++..-+..+++.+...|-++++++.... .........|.++
T Consensus 132 -~~~~~~l~~~~iPvV~~~~~~~---~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~a 204 (331)
T PRK14987 132 -PRTLKMIEVAGIPVVELMDSQS---PC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQA 204 (331)
T ss_pred -HHHHHHHHhCCCCEEEEecCCC---CC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHH
Confidence 2333445667999998532110 11 111 25567777788888888888999999996432 2223346788899
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++.|+.... ..+......+.-...+.++.+. ++++|+ +++...+..+++++++.|+..|+-+-|++
T Consensus 205 l~~~g~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvig 273 (331)
T PRK14987 205 MLDAGLVPYS-VMVEQSSSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIAG 273 (331)
T ss_pred HHHcCCCccc-eeecCCCChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEEe
Confidence 9998863211 1111111112223345555443 355544 45666778899999999997776555554
No 202
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.84 E-value=0.1 Score=57.84 Aligned_cols=208 Identities=12% Similarity=0.080 Sum_probs=116.0
Q ss_pred ccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 17 IPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 17 ~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
..-.||+++|... .+-.....+++-++++. |+.+ .+.++..++..-.+....+.. .++++||--.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~-------gy~~--~~~~~~~~~~~~~~~i~~l~~-~~vdGiIi~~~~~~ 127 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH-------QKYV--LIGNSYHEAEKERHAIEVLIR-QRCNALIVHSKALS 127 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEcCCCChHHHHHHHHHHHh-cCCCEEEEeCCCCC
Confidence 3457999998533 44444555665555542 2343 344555555544444445544 47887764211111
Q ss_pred HHHHHHhcCCCCcc-EEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHHH
Q 002352 96 TNFIIQLGNKSQVP-ILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSLT 172 (932)
Q Consensus 96 a~~v~~~~~~~~iP-~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 172 (932)
...+..+.+ ++| +|......+ ....++ +..++..-+..+++++...|-+++++|.... .......+.|.
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVP---GYAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 122333433 355 676553222 111222 4446666677777888788999999997533 23445678899
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++++.|+.+..............-...+.++.+. .+++|+ +.+...+..+++++++.|+..|+-+-|++
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disvig 271 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSIIG 271 (346)
T ss_pred HHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 99999987543221111111222223445555433 356554 45667778999999999987665555443
No 203
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.82 E-value=0.098 Score=56.80 Aligned_cols=210 Identities=9% Similarity=0.044 Sum_probs=119.2
Q ss_pred CccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 16 TIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 16 ~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
.++-+||++.|... .+-..+..+++-++++. |+.+.+ .+...+...-.+....++. .++++||=-.+..
T Consensus 33 ~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~--~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~ 102 (309)
T PRK11041 33 NESRTILVIVPDICDPFFSEIIRGIEVTAAEH-------GYLVLI--GDCAHQNQQEKTFVNLIIT-KQIDGMLLLGSRL 102 (309)
T ss_pred CCCcEEEEEeCCCcCccHHHHHHHHHHHHHHC-------CCEEEE--EeCCCChHHHHHHHHHHHH-cCCCEEEEecCCC
Confidence 34568999998543 55556667777776653 344433 4444455444444445554 4888777421211
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC--cCCChHHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ--YGEEMIPSLT 172 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 172 (932)
....... ......|++......+. ...++ +..++...+..+++.+...|-+++++|..... ......+.|+
T Consensus 103 ~~~~~~~-~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 103 PFDASKE-EQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred ChHHHHH-HHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1111111 12223467765433221 11232 44567777888888887789899999975432 2334578889
Q ss_pred HHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 173 DALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 173 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+++++.|+.+.....+....+.+.....+.++.+. .+++|+. ++...+..+++++++.|+..++-+.|++
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 176 QALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 99998887653221111122233344555665543 3566664 5666677899999999986555555554
No 204
>PRK09526 lacI lac repressor; Reviewed
Probab=96.72 E-value=0.14 Score=56.51 Aligned_cols=206 Identities=11% Similarity=0.089 Sum_probs=117.0
Q ss_pred ccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc--cCCh
Q 002352 17 IPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG--PEKS 93 (932)
Q Consensus 17 ~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG--p~~s 93 (932)
..-.||+++|... .+-..+..+++-++++ .|+.+.+...+.. ++..-.+....++. .++++||- |..+
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~-------~g~~~~i~~~~~~-~~~~~~~~l~~l~~-~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ-------LGYSVVISMVERS-GVEACQAAVNELLA-QRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH-------CCCEEEEEeCCCC-hHHHHHHHHHHHHh-cCCCEEEEecCCCc
Confidence 3457999998543 3333445555555543 2466665443321 23333344445554 48888774 4333
Q ss_pred hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC--CcCCChHHHH
Q 002352 94 MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN--QYGEEMIPSL 171 (932)
Q Consensus 94 ~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l 171 (932)
.....+. ....++|+|.+... + ... +..+..++..-+..+++++...|-++++++.... .........|
T Consensus 133 ~~~~~~~--~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 133 ADAEKIV--ADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred chHHHHH--hhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 2222222 12358999987542 1 111 2235566777778888888888999999997532 2233446788
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.+++++.|+.+..... ...+.++-...+.++.+. .+++|+ +++...+..+++++++.|+..|+-+-|++
T Consensus 204 ~~al~~~gi~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disvig 274 (342)
T PRK09526 204 LEYLTDYQLQPIAVRE--GDWSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISVIG 274 (342)
T ss_pred HHHHHHcCCCcceEEe--CCCchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 9999998876432211 112222223344555433 355544 45566778899999999987665554443
No 205
>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=96.70 E-value=0.11 Score=54.91 Aligned_cols=201 Identities=14% Similarity=0.126 Sum_probs=117.7
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~ 97 (932)
.||+++|... .+-..+..+++.++++. |+++.+ .++..++..-......+.. .++++||= |......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~~-------g~~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYRA-------GLRVIL--CNTDEDPEKEAMYLELMEE-ERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHHC-------CCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCCch-
Confidence 3889988754 34445666776666652 455544 4444555443444444444 47776654 3222221
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcC-CcCCChHHHHHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDN-QYGEEMIPSLTDALQ 176 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 176 (932)
... ....++|+|.+....+ ....+++ ..++..-+..+++.+...|-++++++..+. .........+.++++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~v---~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDAV---VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCEE---EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 2456899999865432 2223442 356667778888888888999999987532 223344677888998
Q ss_pred hCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccccceEEEEe
Q 002352 177 AIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 177 ~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
+.|...... .+. .+.++....+.++... .+++| ++.+...+..+++.+++.|+..++-+.|++
T Consensus 142 ~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 142 RHGLAPDAR-FVA--PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred HcCCCCChh-hcc--cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 888654321 111 2223333445555433 35554 445666688899999999986665555543
No 206
>PRK09492 treR trehalose repressor; Provisional
Probab=96.60 E-value=0.16 Score=55.38 Aligned_cols=191 Identities=11% Similarity=0.008 Sum_probs=111.2
Q ss_pred ccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccC-Chh
Q 002352 17 IPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPE-KSM 94 (932)
Q Consensus 17 ~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~-~s~ 94 (932)
..-+||++.|.-. .+-.....++.-++ ++. |+.+ .+.++..++....+....+. +.+|+++|--. +..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~---~~~----gy~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTMLPAF---YEQ----GYDP--IIMESQFSPEKVNEHLGVLK-RRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHHHHH---HHc----CCeE--EEEecCCChHHHHHHHHHHH-hcCCCEEEEeCCCcc
Confidence 4457999998533 33333444444433 333 3444 45566666655544444444 44898888532 222
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc-C--CcCCChHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD-N--QYGEEMIPSL 171 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l 171 (932)
... .....++|++...... +.+-.+..++..-+..+++.+...|-++++++... . ..+....+.|
T Consensus 131 ~~~----~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf 198 (315)
T PRK09492 131 TEE----MLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAY 198 (315)
T ss_pred cHH----HHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHH
Confidence 222 2233466777764311 11233455666677778888878899999999632 2 2345567889
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
.+++++.|+.+... .. ..+...-...+.++.+.++++|+.. +...+..+++++++.|+
T Consensus 199 ~~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 199 LAFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVCA-TDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 99999999865321 11 1122222334455544567777644 45677889999999997
No 207
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=96.47 E-value=0.018 Score=62.49 Aligned_cols=67 Identities=21% Similarity=0.212 Sum_probs=48.8
Q ss_pred CCCHHHHHhCCCcEEEEcChhHHHHH----HhcCCCcc--cccccCCHHHHHHHhhcccCCCceeEEEeccccccccccc
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVFGIL----KQLGFDEK--KLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQ 736 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~~~l----~~~~~~~~--~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~ 736 (932)
|++++||+ |++|++..++..+.+| ++.+.... .++.. ++.+...++.+|+ +||+....++......+
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-SDADIVAAFITKD----VTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhcCC----CcEEEEcCchHHHHHhC
Confidence 79999999 9999999998766444 44555433 33333 4577899999999 99998877776544443
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=96.43 E-value=0.25 Score=53.40 Aligned_cols=197 Identities=8% Similarity=0.058 Sum_probs=110.1
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
||++.|.-+ .+-.....+++.+.++. |+.+ .+.++..++..-.+....++.+ +|++||= |........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~-------g~~v--~~~~~~~~~~~q~~~i~~l~~~-~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL-------GAKV--FVQSANGNEAKQISQIENLIAR-GVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhHHHH
Confidence 567775433 33334444555554443 3444 4567777776666666666665 7776664 333333344
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCe-EEEEEEEcCC--cCCChHHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWR-EAVPIYVDNQ--YGEEMIPSLTDAL 175 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~-~v~ii~~d~~--~g~~~~~~l~~~l 175 (932)
....+...++|+|.+....+. .+....+..+...-+..+++++...+-+ +++++..+.. ........+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~~-----~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIND-----ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCCC-----CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 555567789999998653211 1122345566777788888888666655 7888764322 2223356677777
Q ss_pred HhC----CceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 176 QAI----DTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 176 ~~~----g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
++. ++.+...... ......+....+.++... .+++|+. ++...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGDQWV-DGWLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecCcCC-CCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 753 3444221111 112233344556665432 3555443 4455567889999999974
No 209
>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=96.37 E-value=0.0095 Score=64.51 Aligned_cols=67 Identities=24% Similarity=0.206 Sum_probs=46.6
Q ss_pred CCCHHHHHhCCCcEEEEcChhHHH----HHHhcCCCcccccc-cCCHHHHHHHhhcccCCCceeEEEecccccccccc
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVFG----ILKQLGFDEKKLIA-YSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIG 735 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~~----~l~~~~~~~~~~~~-~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~ 735 (932)
|++++||. |++||+..++..+. +|+..+.+...+.. .-...+...+|.+|+ ++|++...++.....+
T Consensus 92 I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~~p~~~~~~~ 163 (300)
T TIGR01729 92 IEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQRGD----IDAAYVWPPALSELLK 163 (300)
T ss_pred CCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHcCC----cCEEEEecHHHHHHHh
Confidence 88999999 99999987765443 34444544333322 234677899999999 9999888776654443
No 210
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.28 E-value=0.13 Score=54.18 Aligned_cols=195 Identities=9% Similarity=-0.029 Sum_probs=102.1
Q ss_pred EEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHH
Q 002352 20 NVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFI 99 (932)
Q Consensus 20 ~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v 99 (932)
|||++++- +.....+..+...+++++.+.. | +++.+.+...++........+++++ ++.+||+ .+.....++
T Consensus 1 kva~l~~g-~~~D~~~n~~~~~G~~~~~~~~---g--v~~~~~e~~~~~~~~~~~i~~~~~~-g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVG-PIGDQGWNYAHDEGRKAAEKAL---G--VEVTYVENVPEGADAERVLRELAAQ-GYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeC-CCCccchhHHHHHHHHHHHHhc---C--CeEEEEecCCchHhHHHHHHHHHHc-CCCEEEE-CchhhhHHH
Confidence 58899872 2111223333444455554432 2 3455556655677777778888776 8999998 344445555
Q ss_pred HHhcCCC-CccEEecccCCCCccCCCCCceEecccCch---hHHHHHHHHHHHcCCeEEEEEEEcC-CcCCChHHHHHHH
Q 002352 100 IQLGNKS-QVPILSFSATSPSLTSIRSSYFFRGSLNDS---SQVGAITAIIKAFGWREAVPIYVDN-QYGEEMIPSLTDA 174 (932)
Q Consensus 100 ~~~~~~~-~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~---~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 174 (932)
..++.++ ++..+...+.. . .|++........ ..+-.+|..+..- .+|++|...+ +.-......|..-
T Consensus 73 ~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t~t--~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMTKT--NKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhhcC--CcEEEEcCcccHHHHHHHHHHHHH
Confidence 6666555 34444433211 1 133333322222 2333445544433 5899987543 2223344566665
Q ss_pred HHhCCceeeeeeecCCCCChhH-HHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 175 LQAIDTRVPYRSVISPLATDDQ-IEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~-~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
++..+-.+.....+.-...+.+ -......+.+.++|+|+-.+ .....+++|++.|.
T Consensus 145 ~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 145 ARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKGV 201 (258)
T ss_pred HHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhCC
Confidence 5544333322222211122222 24455566778999887777 23468889998773
No 211
>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=96.22 E-value=0.38 Score=50.94 Aligned_cols=195 Identities=8% Similarity=-0.075 Sum_probs=108.7
Q ss_pred EEEEEEeCCC------ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEE-ccCC
Q 002352 20 NVGLVLDMNG------EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAIL-GPEK 92 (932)
Q Consensus 20 ~IG~i~~~s~------~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aii-Gp~~ 92 (932)
|||++.+.+. .+-..+..+++.++++ . |+.+.+... ..+. .+. ..+++++| .+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~----~---g~~~~~~~~--~~~~--------~~~-~~~vdgii~~~~~ 62 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE----L---GIELTKFFR--DDDL--------LEI-LEDVDGIIAIGKF 62 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH----c---CCEEEEEec--cchh--------HHh-ccCcCEEEEecCC
Confidence 5899988542 3333444455555444 2 455554433 2221 112 23677665 2222
Q ss_pred hhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCC-------cCC
Q 002352 93 SMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQ-------YGE 165 (932)
Q Consensus 93 s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~-------~g~ 165 (932)
+. .....+...++|+|...... .+...+ .+..++...+..+++.+...|-++++++..... ...
T Consensus 63 ~~---~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~ 133 (270)
T cd01544 63 SQ---EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIED 133 (270)
T ss_pred CH---HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhh
Confidence 22 33344556789999976432 122233 355577777888888888889999999976432 234
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC----CceEEEEEeChhhHHHHHHHHHhCCccccceEEE
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM----QTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWI 241 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi 241 (932)
.....+.+++.+.|.. .....+....+..+....++++.+. .+++ |++++...+..+++.+++.|+..|+-+-|
T Consensus 134 ~R~~gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~v 211 (270)
T cd01544 134 PRETAFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRALQEAGIKVPEDVSV 211 (270)
T ss_pred HHHHHHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 4477788899888741 1101111111222233444454332 2454 44456777889999999999875554444
Q ss_pred Ee
Q 002352 242 MT 243 (932)
Q Consensus 242 ~t 243 (932)
++
T Consensus 212 ~g 213 (270)
T cd01544 212 IS 213 (270)
T ss_pred EE
Confidence 43
No 212
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.17 E-value=0.67 Score=49.41 Aligned_cols=205 Identities=11% Similarity=0.043 Sum_probs=106.6
Q ss_pred EEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh-hHHH
Q 002352 20 NVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS-MQTN 97 (932)
Q Consensus 20 ~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s-~~a~ 97 (932)
+||++.|.-. .+-.....++..++++. |+.+ .+.++..++..-.+....++. .+|++||=-... ....
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~-------gy~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI-------GWNL--RILDGRGSEAGQAAALNQAIA-LKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc-------CcEE--EEECCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCHHHHH
Confidence 5888887533 34334555555555543 3443 445666666655555555555 488877753222 2112
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCC-CceEecccCchhHHHHHHHHHHHc--CCeEEEEEEEcCCcCCC--hHHHHH
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRS-SYFFRGSLNDSSQVGAITAIIKAF--GWREAVPIYVDNQYGEE--MIPSLT 172 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~-p~~~r~~ps~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~--~~~~l~ 172 (932)
.....+...++|+|.+...... ..... ..+-.+..++...+..+++++... |-++++++.... .... ..+.++
T Consensus 72 ~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~-~~~~~~r~~~~~ 149 (280)
T cd06315 72 AELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSR-FSIAKAKANAMK 149 (280)
T ss_pred HHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCC-CccHHHHHHHHH
Confidence 2223345679999998653111 00001 113446667777778888888665 888999886432 2111 123444
Q ss_pred HHHHhC-CceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHhCCccccc
Q 002352 173 DALQAI-DTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFILHMLPSLGSRIFEKANEIGLMNKG 237 (932)
Q Consensus 173 ~~l~~~-g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~l~~~a~~~g~~~~~ 237 (932)
..++.. +..+...................+++.+. .+++ |++++...+..+++.+++.|+..++
T Consensus 150 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p~ 217 (280)
T cd06315 150 EIIEACKGCTVLSIEDVPISRTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKADE 217 (280)
T ss_pred HHHHhCCCCEEEEecccCcchhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCCC
Confidence 444432 33331111111111111112344444432 2454 4555666677888999999986553
No 213
>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=96.14 E-value=0.86 Score=49.19 Aligned_cols=198 Identities=9% Similarity=0.008 Sum_probs=102.3
Q ss_pred EEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChhHHHH
Q 002352 21 VGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSMQTNF 98 (932)
Q Consensus 21 IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~~a~~ 98 (932)
||++.+..+ .+-.....+++.+.++.+ +...+...++..++..-.+....++.+ ++.+||= |..+.....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~g-------~~~~i~~~~~~~d~~~q~~~i~~l~~~-~vdgiIi~~~~~~~~~~ 72 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKELG-------SVYIIYTGPTGTTAEGQIEVVNSLIAQ-KVDAIAISANDPDALVP 72 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHhC-------CeeEEEECCCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChHHHHH
Confidence 577776533 344445666666666542 211122234455676666666666665 7776554 444444344
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEeccc-CchhHHHHHHHHH-HHc-CCeEEEEEEEcCCc--CCChHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSL-NDSSQVGAITAII-KAF-GWREAVPIYVDNQY--GEEMIPSLTD 173 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~p-s~~~~~~ai~~~l-~~~-~w~~v~ii~~d~~~--g~~~~~~l~~ 173 (932)
...-+...++|+|.+....+. . ........ +....++..++.+ +++ +-.++++|..+... .....+.+.+
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 445566689999987643211 1 11233333 3333344444544 332 22689998754322 1223466666
Q ss_pred HHHhCC---ceeeeeeecCCCCChhHHHHHHHHHhcCCc--eEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 174 ALQAID---TRVPYRSVISPLATDDQIEKELYKLFTMQT--RVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 174 ~l~~~g---~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~--~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
.+++.| .++... +....+.+.-.+.+.++.+..+ ++|+. .....+...++++++.|..
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 776643 333221 1111222333445555544444 44443 3455667788888888864
No 214
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=95.83 E-value=0.019 Score=60.30 Aligned_cols=71 Identities=24% Similarity=0.240 Sum_probs=47.8
Q ss_pred CCCCHHHHHh-----CCCcEEE-EcChhHH----HHHHhcCCCc---ccccccCCHHHHHHHhhcccCCCceeEEEeccc
Q 002352 662 TITDFQMLIK-----SGDNVGY-RKDSFVF----GILKQLGFDE---KKLIAYSSPEECDELFQKGSAGGGIAAAFDEIP 728 (932)
Q Consensus 662 ~i~s~~dL~~-----~~~~vg~-~~~s~~~----~~l~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~ 728 (932)
.+++++||.+ .|+++++ ..|+... .+|++.+.+. .+++.++. .+..+++..|+ +|++....+
T Consensus 105 ~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~----iDa~~~~eP 179 (252)
T PF13379_consen 105 DIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGE----IDAAVLWEP 179 (252)
T ss_dssp TTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-----SEEEEETT
T ss_pred CccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCC----cCEEEecCC
Confidence 4899999933 3889999 5555443 3445555544 45555555 89999999999 999999888
Q ss_pred ccccccccC
Q 002352 729 YTKPFIGQY 737 (932)
Q Consensus 729 ~~~~~~~~~ 737 (932)
+......+.
T Consensus 180 ~~~~~~~~g 188 (252)
T PF13379_consen 180 FASQAEAKG 188 (252)
T ss_dssp HHHHHHHTT
T ss_pred HHHHHHhcc
Confidence 877666555
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=95.76 E-value=0.32 Score=47.60 Aligned_cols=70 Identities=17% Similarity=0.274 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+ ++++++.... ..+++..|.+|++|++++.... ..+.++ ..++.....++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~~~---------~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~ 78 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVEGG---------SSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVV 78 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEECC---------hHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEe
Confidence 345677888888765 3566665532 5689999999999999865433 223333 3567777888887
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 79 ~~~~ 82 (197)
T cd05466 79 PPDH 82 (197)
T ss_pred cCCC
Confidence 7553
No 216
>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=95.73 E-value=0.83 Score=49.59 Aligned_cols=191 Identities=10% Similarity=-0.003 Sum_probs=108.3
Q ss_pred ccEEEEEEEeCC-CccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc-cCChh
Q 002352 17 IPVNVGLVLDMN-GEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG-PEKSM 94 (932)
Q Consensus 17 ~~i~IG~i~~~s-~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG-p~~s~ 94 (932)
..-.||+++|.- ..+-.....++.-+++ +. |+.+ .+.++..++..-.+ ..+.+.+.+++++|- |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~---~~----gy~~--~i~~~~~~~~~~~~-~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFY---TA----GYDP--IIMESQFSPQLTNE-HLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHH---HC----CCeE--EEecCCCChHHHHH-HHHHHHhcCCCEEEEeCCCCC
Confidence 345799999752 2222233344443333 22 3444 34455555544433 334444457887774 22211
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc-C--CcCCChHHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD-N--QYGEEMIPSL 171 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l 171 (932)
.... ....++|+|...... ...+ .+..++..-+..+++++...|-+++++|..+ . ..+....+.+
T Consensus 128 ~~~~----l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEEI----LESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHHH----HHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 1122 234567888765421 1122 3556777777888888888899999999632 2 2345567889
Q ss_pred HHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 172 TDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 172 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
.+++++.|+.... .....+..+....+.++.+.++++| ++++...+..+++.+++.|.
T Consensus 196 ~~a~~~~gi~~~~---~~~~~~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIY---QTGQLSHESGYVLTDKVLKPETTAL-VCATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCcee---eeCCCCHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHHHHHHHcCC
Confidence 9999999976321 1111122233344455444557765 46666778889999999986
No 217
>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=95.09 E-value=0.11 Score=52.93 Aligned_cols=57 Identities=25% Similarity=0.325 Sum_probs=39.9
Q ss_pred CCCHHHHHhCCCcEEEEcChhHH----HHHHhcCCCcccccccC-CHHHHHHHhhcccCCCceeEEEe
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVF----GILKQLGFDEKKLIAYS-SPEECDELFQKGSAGGGIAAAFD 725 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~----~~l~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~~g~~a~~~ 725 (932)
|+++.||. |++||+..++..+ .+|++.+.+...+.... +..+...+|.+|+ ++|...
T Consensus 85 i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~----vDa~~~ 146 (216)
T PF09084_consen 85 IKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQ----VDAAIL 146 (216)
T ss_dssp -SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTS----SSEEEE
T ss_pred CCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCC----CCEEEE
Confidence 89999999 9999998876443 44555666555554433 3566777999999 998883
No 218
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=95.07 E-value=0.15 Score=54.68 Aligned_cols=70 Identities=17% Similarity=0.241 Sum_probs=47.8
Q ss_pred CCCCHHHHHhCCCcEEEEcChhHHH----HHHhcCCCccccc-ccCCHHHHHHHhhcccCCCceeEEEeccccccccccc
Q 002352 662 TITDFQMLIKSGDNVGYRKDSFVFG----ILKQLGFDEKKLI-AYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQ 736 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~~~~----~l~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~ 736 (932)
+|++++||. |+++++..++.... ++++.+.+...+. .+.+..+..+++.+|+ +++++...++...+..+
T Consensus 92 ~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~----vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 92 PIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQ----VDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCC----CCEEEeccchHhHHhhc
Confidence 388999999 99999877764433 3444455433222 2345678899999999 99998877766555444
Q ss_pred C
Q 002352 737 Y 737 (932)
Q Consensus 737 ~ 737 (932)
.
T Consensus 166 ~ 166 (288)
T TIGR01728 166 G 166 (288)
T ss_pred c
Confidence 3
No 219
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.07 E-value=0.32 Score=51.69 Aligned_cols=110 Identities=14% Similarity=0.089 Sum_probs=74.4
Q ss_pred CCCCCHHHHHhCCCcEEEEcChhHH------HHHHhcC-CCc---ccccccCC-HHHHHHHhhcccCCCceeEEEecccc
Q 002352 661 PTITDFQMLIKSGDNVGYRKDSFVF------GILKQLG-FDE---KKLIAYSS-PEECDELFQKGSAGGGIAAAFDEIPY 729 (932)
Q Consensus 661 ~~i~s~~dL~~~~~~vg~~~~s~~~------~~l~~~~-~~~---~~~~~~~~-~~~~~~~l~~g~~~~g~~a~~~~~~~ 729 (932)
++|++++||. |+++++..-+... .+|.+.+ .+. -.-+.+.. .+.++.+|.+|+ +|+.......
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~----vDva~~~~~~ 207 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQ----VDVAAVNSSA 207 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCC----ceEEeccHHH
Confidence 4589999999 9999985443222 3333433 221 11223443 788999999999 8988777655
Q ss_pred cccccccC-C---cceEEecccccccceEEEecCCC--CChHHHHHHHHhhhc
Q 002352 730 TKPFIGQY-C---SKYTLIERTFETAGFGFAFPLHS--PLVPEVSRAILNVTE 776 (932)
Q Consensus 730 ~~~~~~~~-~---~~l~~~~~~~~~~~~~~~~~k~s--~l~~~in~~il~l~e 776 (932)
...+.... - ++++++...-......++++++- .+++.+.++++.+.+
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 55555444 2 36788866555556677888864 499999999999987
No 220
>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=95.06 E-value=0.37 Score=48.26 Aligned_cols=182 Identities=15% Similarity=0.125 Sum_probs=113.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
-+-.+++..+.++.+ .+++++... +...++.+|.+|++|+++..... ....+. ..|+....+++++
T Consensus 19 ~~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~ 84 (209)
T PF03466_consen 19 SLLPPLLAEFRERHP-NIRIEIREG---------DSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVV 84 (209)
T ss_dssp HTHHHHHHHHHHHST-TEEEEEEEE---------SHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEec---------cchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeee
Confidence 345688899988887 356665543 46899999999999999765444 223333 3678888899998
Q ss_pred EccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCCcccccccchhhhHHHHhhhcCcccccccchh
Q 002352 550 PIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLAR 629 (932)
Q Consensus 550 ~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R 629 (932)
++..+..
T Consensus 85 ~~~~pl~------------------------------------------------------------------------- 91 (209)
T PF03466_consen 85 SPDHPLA------------------------------------------------------------------------- 91 (209)
T ss_dssp ETTSGGG-------------------------------------------------------------------------
T ss_pred ecccccc-------------------------------------------------------------------------
Confidence 8664211
Q ss_pred hhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEEEEc-ChhHH----HHHHhcCCCcccccccCCH
Q 002352 630 FVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVGYRK-DSFVF----GILKQLGFDEKKLIAYSSP 704 (932)
Q Consensus 630 ~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg~~~-~s~~~----~~l~~~~~~~~~~~~~~~~ 704 (932)
+ ...+ +++||. +.++.... +.... .++++.+.........++.
T Consensus 92 ----------------------------~-~~~i-~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (209)
T PF03466_consen 92 ----------------------------Q-KKPI-TLEDLA--DYPLILLSPGSPYRDQLDRWLREHGFSPNIVIEVDSF 139 (209)
T ss_dssp ----------------------------T-TSSS-SGGGGT--TSEEEEESTTTSHHHHHHHHHHHTTEEEEEEEEESSH
T ss_pred ----------------------------c-cccc-hhhhhh--hccccccccccccccccccccccccccccccccccch
Confidence 0 1124 789998 66555543 33333 3344445544444567899
Q ss_pred HHHHHHhhcccCCCceeEEEecccccccccccCCcceEEecc-cccccceEEEecCCCCChHHHHHHHHhhhc
Q 002352 705 EECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIER-TFETAGFGFAFPLHSPLVPEVSRAILNVTE 776 (932)
Q Consensus 705 ~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~s~l~~~in~~il~l~e 776 (932)
+...+.+..|. ..+++-+.....+....... ...+.+ .+. ..++++.+++.+....+...+..+.+
T Consensus 140 ~~~~~~v~~g~----gi~~~p~~~~~~~~~~~~l~-~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 140 ESILSLVASGD----GIAILPDSLAQDELESGELV-FLPLPDPPLP-RPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp HHHHHHHHTTS----EBEEEEHHHHHHHHHCTTEE-EEEESSSTEE-EEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred hhhcccccccc----ceeecCcccccccccCCCEE-EEECCCCCCc-eEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 99999999998 56666554333333222211 122333 344 77788888888777777766655543
No 221
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=94.94 E-value=0.15 Score=55.79 Aligned_cols=58 Identities=26% Similarity=0.310 Sum_probs=40.9
Q ss_pred CCCHHHHHhCCCcEEEEcC-hhH----HHHHHhcCCCccc--ccccCCHHHHHHHhhcccCCCceeEEEec
Q 002352 663 ITDFQMLIKSGDNVGYRKD-SFV----FGILKQLGFDEKK--LIAYSSPEECDELFQKGSAGGGIAAAFDE 726 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~-s~~----~~~l~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~~g~~a~~~~ 726 (932)
+++++||. ++++++... +.. ..+++..+..... ...|.+..+..++|..|+ +|+++..
T Consensus 133 i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~~G~~~~~~~~v~~~~~~~~~~al~~G~----vDa~~~~ 197 (320)
T TIGR02122 133 IKTVADLK--GKRVAVGAPGSGTELNARAVLKAAGLTYDDVKKVEYLGYAEAADALKDGK----IDAAFYT 197 (320)
T ss_pred CCcHHHcC--CCEEecCCCCcchHHHHHHHHHHcCCCHHHccchhcCCHHHHHHHHHCCC----ccEEEEe
Confidence 77999998 888877533 222 3445555554322 256778889999999999 9999877
No 222
>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=94.90 E-value=2.3 Score=41.84 Aligned_cols=70 Identities=16% Similarity=0.199 Sum_probs=48.3
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.++.+ ++++++.. ++..+++.+|.+|++|+++... +.....+. +.|+.....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~---------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~ 77 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE---------GNQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVW 77 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE---------CCHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEE
Confidence 4566789999999876 35566654 2467899999999999987532 22223332 467778888888
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
+++.
T Consensus 78 ~~~~ 81 (198)
T cd08412 78 LPAD 81 (198)
T ss_pred ecCC
Confidence 7655
No 223
>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=94.87 E-value=1.7 Score=42.81 Aligned_cols=69 Identities=19% Similarity=0.246 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++.+|.+|++|+++... +.....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~---------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE---------RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVV 78 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe---------cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEe
Confidence 345688899988876 35566544 2357899999999999988532 22233343 3677788888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (198)
T cd08421 79 PRD 81 (198)
T ss_pred CCC
Confidence 755
No 224
>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=94.51 E-value=2.2 Score=41.86 Aligned_cols=69 Identities=13% Similarity=0.257 Sum_probs=47.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+ .+.+++... +..+++..|.+|++|+++..... ....+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~~---------~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 78 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVEY---------GGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVL 78 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEEc---------CcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEe
Confidence 456789999999876 356665542 35789999999999999864322 122233 3567778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (197)
T cd08438 79 PRG 81 (197)
T ss_pred cCC
Confidence 755
No 225
>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=94.40 E-value=1.6 Score=43.15 Aligned_cols=71 Identities=20% Similarity=0.228 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++.. ++..+++.+|.+|++|++++..... .....+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~ 80 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE---------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVA 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe---------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEe
Confidence 455678888888876 45666654 2467899999999999998632211 1112233 3566777888877
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 81 ~~~ 83 (201)
T cd08418 81 RKD 83 (201)
T ss_pred CCC
Confidence 654
No 226
>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=94.27 E-value=2.7 Score=41.39 Aligned_cols=69 Identities=16% Similarity=0.202 Sum_probs=46.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +-.++...|.+|++|+++... +.....+ -+.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~ 78 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVEG---------LSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVG 78 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEec---------CcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEe
Confidence 455688889988876 356666542 246889999999999987532 2222222 23677778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (198)
T cd08433 79 PAD 81 (198)
T ss_pred cCC
Confidence 655
No 227
>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=94.21 E-value=2.4 Score=41.82 Aligned_cols=69 Identities=14% Similarity=0.142 Sum_probs=45.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++..|.+|++|+++.... .....+. ..++.....++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~---------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~ 79 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE---------DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAV 79 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe---------CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEe
Confidence 355688888888876 35555543 24678999999999999985322 1112232 3566777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 80 ~~~ 82 (200)
T cd08411 80 PKD 82 (200)
T ss_pred cCC
Confidence 654
No 228
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=94.21 E-value=2.3 Score=46.25 Aligned_cols=115 Identities=9% Similarity=0.021 Sum_probs=64.4
Q ss_pred CCHHHHHhCCCcEEEEcChh----HHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCc
Q 002352 664 TDFQMLIKSGDNVGYRKDSF----VFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCS 739 (932)
Q Consensus 664 ~s~~dL~~~~~~vg~~~~s~----~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~ 739 (932)
-+++||.+.. -+....++. ...++...+.........++.+...+++..|. -.+++.+. ....... .
T Consensus 184 i~~~dL~~~~-~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gv~~lp~~-~~~~~~~---~ 254 (313)
T PRK12684 184 LTLEDLAQYP-LITYDFAFAGRSKINKAFALRGLKPDIVLEAIDADVIKTYVELGL----GVGIVADM-AFDPERD---R 254 (313)
T ss_pred cCHHHHhcCC-cEecCCCCcHHHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHhCC----ceEEeehh-hcccccc---C
Confidence 3688888322 334444432 23445554554434456678888999999987 45555543 2222221 1
Q ss_pred ceEEe--cccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 740 KYTLI--ERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 740 ~l~~~--~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
.+..+ ........++++.+|+.++...+...+..+.+. +..++.++-+
T Consensus 255 ~l~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~-~~~~~~~~~~ 304 (313)
T PRK12684 255 NLRAIDAGHLFGSSTTRLGLRRGAYLRGYVYTFIELFAPT-LNRKLVEQAL 304 (313)
T ss_pred CeEEEECCCCCcceeEEEEEECCCcCCHHHHHHHHHHHHH-hCHHHHHHHh
Confidence 23333 223334567888899988777777766655542 4444544444
No 229
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.19 E-value=1.9 Score=45.69 Aligned_cols=156 Identities=10% Similarity=0.063 Sum_probs=91.8
Q ss_pred hcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEE
Q 002352 80 NNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYV 159 (932)
Q Consensus 80 ~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~ 159 (932)
...+|+++|-.........+.. ....++|+|........ ....++ +..++...+..+++.+...|-+++++|..
T Consensus 53 ~~~~vdgiIi~~~~~~~~~~~~-l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 53 DALDIDGAILVEPMADDPQVAR-LRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred hccCcCeEEEecCCCCCHHHHH-HHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeC
Confidence 3457887663211111223333 44569999998653210 112333 34566666788888888889999999964
Q ss_pred cC--CcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCccc
Q 002352 160 DN--QYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMN 235 (932)
Q Consensus 160 d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~ 235 (932)
.. .........+.+++++.|...... .+....+.++-...++++.+. ++++|+ +.+...+..+++++++.|+..
T Consensus 127 ~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl~v 204 (269)
T cd06287 127 SARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEAGGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGRAV 204 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCccee-EecCCCChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCC
Confidence 32 233445678889999888754321 111112223333455555433 355554 446677889999999999976
Q ss_pred cceEEEEe
Q 002352 236 KGCVWIMT 243 (932)
Q Consensus 236 ~~~~wi~t 243 (932)
|.-+=|++
T Consensus 205 P~dvsvig 212 (269)
T cd06287 205 PDQLRVVT 212 (269)
T ss_pred CCceEEEe
Confidence 66555543
No 230
>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=94.17 E-value=2.1 Score=41.86 Aligned_cols=69 Identities=16% Similarity=0.227 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++..|.+|++|+++... +.....+. ..+......++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~---------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST---------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVS 78 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe---------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEe
Confidence 455788999999887 35566544 2357899999999999987532 22222232 3567777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (193)
T cd08442 79 PKG 81 (193)
T ss_pred cCC
Confidence 654
No 231
>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=94.12 E-value=1.1 Score=44.49 Aligned_cols=73 Identities=14% Similarity=0.138 Sum_probs=48.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +.++++..|.+|++|+++........-...+.+ .+......++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~ 81 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVHA---------EQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIA 81 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEEC---------ChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEE
Confidence 456788999999876 356666542 467999999999999988643221000123333 577777888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 82 ~~~h 85 (202)
T cd08468 82 SRDH 85 (202)
T ss_pred eCCC
Confidence 7553
No 232
>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=94.06 E-value=1 Score=44.72 Aligned_cols=69 Identities=14% Similarity=0.072 Sum_probs=46.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +.++++.+|.+|++|+++..... ....+. +.|.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~ 78 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVRL---------PVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLV 78 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEec---------CccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEE
Confidence 345678888888876 355665442 35688999999999999854322 122333 4688888888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (201)
T cd08459 79 RKD 81 (201)
T ss_pred cCC
Confidence 755
No 233
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=94.02 E-value=2.4 Score=45.86 Aligned_cols=70 Identities=13% Similarity=0.119 Sum_probs=47.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-..++..+.+..+ .+++.+... +.++++.+|.+|++|+++...... ...+ .+.|+....+++++
T Consensus 104 ~~~~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~l-~~~~l~~~~~~~~~ 169 (305)
T PRK11151 104 YLLPHIIPMLHQTFP-KLEMYLHEA---------QTHQLLAQLDSGKLDCAILALVKE---SEAF-IEVPLFDEPMLLAV 169 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEecCCC---CCCe-EEEEeccCcEEEEe
Confidence 344577788888766 355655442 368999999999999998643222 1122 35788888999988
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 170 ~~~h 173 (305)
T PRK11151 170 YEDH 173 (305)
T ss_pred cCCC
Confidence 7653
No 234
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=93.91 E-value=0.17 Score=55.19 Aligned_cols=64 Identities=23% Similarity=0.282 Sum_probs=45.3
Q ss_pred CCCCHHHHHhCCCcEEEEcChhHH----HHHHhcCCCcccccccC-CHHHHHHHhhcccCCCceeEEEecccccc
Q 002352 662 TITDFQMLIKSGDNVGYRKDSFVF----GILKQLGFDEKKLIAYS-SPEECDELFQKGSAGGGIAAAFDEIPYTK 731 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~~~----~~l~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~~g~~a~~~~~~~~~ 731 (932)
.|++++||. |++||+..++... .+|++.+.+...+.... ...+..+++.+|+ +||+..-.++..
T Consensus 113 ~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~G~----VDAa~~~~p~~~ 181 (320)
T PRK11480 113 TISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQRGD----IDGAYVWAPAVN 181 (320)
T ss_pred CCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHcCC----cCEEEEcchHHH
Confidence 389999999 9999997765433 34566666544443222 4577889999999 999887666543
No 235
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=93.82 E-value=5.9 Score=43.06 Aligned_cols=194 Identities=14% Similarity=0.126 Sum_probs=119.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+- +.+++.. ++.+.++.+|.+|++|+++...... . ...+. +.++.....++++
T Consensus 106 ~~l~~~l~~f~~~~P~-i~l~l~~---------~~~~~~~~~L~~g~~Dl~i~~~~~~-~-~~~l~-~~~l~~~~~~~v~ 172 (316)
T PRK12679 106 YSLPEVIKAFRELFPE-VRLELIQ---------GTPQEIATLLQNGEADIGIASERLS-N-DPQLV-AFPWFRWHHSLLV 172 (316)
T ss_pred cchHHHHHHHHHHCCC-eEEEEec---------CCHHHHHHHHHcCCCCEEEecccCC-C-CCCce-EEEccCCcEEEEe
Confidence 5567888999888762 4555543 2467899999999999987532211 1 12233 3578888888888
Q ss_pred EccCCCCCCceEEeccCchhHHHHHHHHHHHHHHHHHhhhcccCCCCCCcccccccchhhhHHHHhhhcCcccccccchh
Q 002352 550 PIKDNKKKNAWVFLQPLTLDLWVTSGCFFIFIGFVVWVLEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSHRERVISNLAR 629 (932)
Q Consensus 550 ~~~~~~~~~~~~~l~PF~~~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R 629 (932)
++..+..
T Consensus 173 ~~~hpl~------------------------------------------------------------------------- 179 (316)
T PRK12679 173 PHDHPLT------------------------------------------------------------------------- 179 (316)
T ss_pred cCCCccc-------------------------------------------------------------------------
Confidence 7654321
Q ss_pred hhHHHHHHHHHhhhhhhhhhhhhhhhccccCCCCCCHHHHHhCCCcEE-EEcCh----hHHHHHHhcCCCcccccccCCH
Q 002352 630 FVMIVWYFVVLILTQSYTASLSSLLTVQQLQPTITDFQMLIKSGDNVG-YRKDS----FVFGILKQLGFDEKKLIAYSSP 704 (932)
Q Consensus 630 ~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~vg-~~~~s----~~~~~l~~~~~~~~~~~~~~~~ 704 (932)
....-+++||. +.++. ...+. ....++...+.........++.
T Consensus 180 ------------------------------~~~~i~~~~L~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 227 (316)
T PRK12679 180 ------------------------------QITPLTLESIA--KWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDS 227 (316)
T ss_pred ------------------------------cCCCCCHHHHh--CCCeEEecCCCcHHHHHHHHHHHcCCCceEEEEeccH
Confidence 00123688888 44433 33332 2344555555443344456788
Q ss_pred HHHHHHhhcccCCCceeEEEecccccccccccCCcceEEec--ccccccceEEEecCCCCChHHHHHHHHhhhccchHHH
Q 002352 705 EECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIE--RTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKE 782 (932)
Q Consensus 705 ~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~ 782 (932)
+...+.+..|. ..+++-... ... .+ ...+..+. .......++++.+|+.++...+...+..+.+.=-.+.
T Consensus 228 ~~~~~~v~~g~----Gi~~lp~~~-~~~-~~--~~~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~ 299 (316)
T PRK12679 228 DVIKTYVALGL----GIGLVAEQS-SGE-QE--ESNLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVED 299 (316)
T ss_pred HHHHHHHHcCC----cEEEecccc-ccc-cc--CCcEEEEECcccCCCceEEEEEeCCchhhHHHHHHHHHHhcccCHHH
Confidence 88889999987 455555433 332 11 22244332 2334456788899998888888888887777766777
Q ss_pred HHHHhcc
Q 002352 783 IEDEWFK 789 (932)
Q Consensus 783 ~~~~~~~ 789 (932)
+.++.+.
T Consensus 300 ~~~~~~~ 306 (316)
T PRK12679 300 IKRQVME 306 (316)
T ss_pred HHHHHhh
Confidence 8777664
No 236
>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=93.79 E-value=0.27 Score=40.86 Aligned_cols=55 Identities=20% Similarity=0.341 Sum_probs=47.3
Q ss_pred cccccchhhhHHHHhhhcC-cc-cccccchhhhHHHHHHHHHhhhhhhhhhhhhhhh
Q 002352 601 QHQVGTSFWFSFSTMVFSH-RE-RVISNLARFVMIVWYFVVLILTQSYTASLSSLLT 655 (932)
Q Consensus 601 ~~~~~~~~~~~~~~l~~~~-~~-~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt 655 (932)
..++.+++|+++.++...| ++ .|.+..+|++.+++.+.++.+.....+.+++.++
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 5678899999999999877 43 6688889999999999999999999999998875
No 237
>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=93.78 E-value=2.9 Score=41.18 Aligned_cols=69 Identities=13% Similarity=0.123 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +..+++.+|.+|++|+++..... ....+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 78 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDVA---------STADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVV 78 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEeC---------CcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEe
Confidence 345678888888875 355555432 35789999999999999853221 122233 3677888888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (199)
T cd08426 79 PPG 81 (199)
T ss_pred cCC
Confidence 755
No 238
>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=93.77 E-value=3.5 Score=40.51 Aligned_cols=72 Identities=10% Similarity=0.176 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.+..+ ++++++.. ++..+++.++.+|++|+++.... ...+...+. ..|+....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~---------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~ 80 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE---------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVA 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe---------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEE
Confidence 344678888888876 35555543 23678999999999999885321 111122333 3677888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 81 ~~~~ 84 (201)
T cd08435 81 RPGH 84 (201)
T ss_pred eCCC
Confidence 7653
No 239
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=93.75 E-value=3.8 Score=39.99 Aligned_cols=69 Identities=16% Similarity=0.180 Sum_probs=46.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..++...|.+|++|+++.... .....+. +.++.....++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~---------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~~~ 78 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD---------VSAEQVIEAVRSGEVDFGIGSEP---EADPDLE-FEPLLRDPFVLVC 78 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe---------CChHHHHHHHHcCCccEEEEeCC---CCCCCee-EEEeecccEEEEe
Confidence 456788899988876 35566544 23578999999999999986332 2222232 3577778888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (197)
T cd08440 79 PKD 81 (197)
T ss_pred cCC
Confidence 755
No 240
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=93.64 E-value=3.8 Score=43.97 Aligned_cols=70 Identities=10% Similarity=0.069 Sum_probs=48.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+.++.... +...++..|.+|++|+++... +...+.+ .+.++....+++++
T Consensus 104 ~~l~~~l~~~~~~~p-~~~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~l-~~~~l~~~~~~~~~ 169 (296)
T PRK11242 104 YLIGPLIDAFHARYP-GITLTIREM---------SQERIEALLADDELDVGIAFA---PVHSPEI-EAQPLFTETLALVV 169 (296)
T ss_pred hhhHHHHHHHHHHCC-CCEEEEEeC---------CHHHHHHHHHCCCCcEEEEec---CCCCcce-eEEEeeeccEEEEE
Confidence 456688899988875 455655442 367899999999999998532 2222233 34777888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 170 ~~~~ 173 (296)
T PRK11242 170 GRHH 173 (296)
T ss_pred cCCC
Confidence 7653
No 241
>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=93.63 E-value=4.3 Score=39.68 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=48.2
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.+..+ .+++++... +..++..+|.+|++|+++...... ...+ .+.|+.....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v 77 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHTL---------SSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCV 77 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEec---------chHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEE
Confidence 3556789999998876 355665542 367899999999999998643221 2223 3567778888888
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
+++.
T Consensus 78 ~~~~ 81 (196)
T cd08415 78 LPPG 81 (196)
T ss_pred EcCC
Confidence 8754
No 242
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.56 E-value=2.9 Score=45.16 Aligned_cols=73 Identities=15% Similarity=0.256 Sum_probs=47.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+- +.+++.. ++...++..|.+|++|+++..-....+....+ ...++....+++++
T Consensus 108 ~~~~~~l~~~~~~~P~-v~i~~~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~ 176 (305)
T CHL00180 108 YLMPRLIGLFRQRYPQ-INVQLQV---------HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALII 176 (305)
T ss_pred hHHHHHHHHHHHHCCC-ceEEEEe---------CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEE
Confidence 3456788888887663 5555543 23678999999999999986322111111122 34678888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
+...
T Consensus 177 ~~~~ 180 (305)
T CHL00180 177 PKSH 180 (305)
T ss_pred CCCC
Confidence 7653
No 243
>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=93.33 E-value=4.3 Score=40.10 Aligned_cols=72 Identities=19% Similarity=0.248 Sum_probs=48.2
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.++.+ .+++++.. ++...++..|.+|++|+++..... .....+. +.+......+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~v~~~~---------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v 78 (198)
T cd08413 12 RYVLPPVIAAFRKRYP-KVKLSLHQ---------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVI 78 (198)
T ss_pred hhhccHHHHHHHHhCC-ceEEEEEe---------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEE
Confidence 3455688999999887 35565544 236789999999999999853211 1122233 367777888888
Q ss_pred EEccC
Q 002352 549 VPIKD 553 (932)
Q Consensus 549 v~~~~ 553 (932)
+++..
T Consensus 79 ~~~~h 83 (198)
T cd08413 79 VPPGH 83 (198)
T ss_pred ecCCC
Confidence 87553
No 244
>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of dinitrotoluene and similar compounds, such as DntR, NahR, and LinR. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. Also included are related LysR-type regulators clustered together in phylogenetic trees, including NodD, ToxR, LeuO, SyrM, TdcA, and PnbR. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrate
Probab=93.24 E-value=2.9 Score=41.19 Aligned_cols=69 Identities=19% Similarity=0.215 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++...+...|.+|++|+++... +.....+. ..|+....+++++
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~---------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP---------LDRDDLEEALESGEIDLAIGVF---PELPPGLR-SQPLFEDRFVCVA 78 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc---------CCHHHHHHHHHcCCCCEEEeec---ccCCCccc-hhhhhcCceEEEe
Confidence 345577888888775 34454433 3467899999999999998642 22223333 3677888888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (200)
T cd08417 79 RKD 81 (200)
T ss_pred cCC
Confidence 755
No 245
>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity,
Probab=93.16 E-value=4.7 Score=39.30 Aligned_cols=69 Identities=19% Similarity=0.368 Sum_probs=45.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++.. ++...++.+|.+|++|+++... +.....+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~---------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~ 78 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ---------GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVV 78 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec---------CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEe
Confidence 445678888888875 24555543 2357889999999999987532 22223333 3577778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (195)
T cd08434 79 PKD 81 (195)
T ss_pred cCC
Confidence 655
No 246
>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=92.93 E-value=2.3 Score=41.85 Aligned_cols=69 Identities=16% Similarity=0.155 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +.+.+...+.+|++|+++.... .....+. +.++....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~ 78 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRDL---------ESDNLEAQLERGEVDLALTTPE---YAPDGLR-SRPLFEERYVCVT 78 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEeeC---------CcccHHHHHhcCCCcEEEecCc---cCCccce-eeeeecCcEEEEE
Confidence 456788889888876 355655432 2457889999999999875321 1122232 4677778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (198)
T cd08461 79 RRG 81 (198)
T ss_pred cCC
Confidence 755
No 247
>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=92.77 E-value=6.6 Score=38.23 Aligned_cols=70 Identities=13% Similarity=0.095 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ ++.+++... +..+++.+|.+|++|+++..... .....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~ 79 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQA---------GSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVV 79 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEecC---------CHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEe
Confidence 455778888888876 355665442 35789999999999999864322 1222333 3566777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 80 ~~~ 82 (194)
T cd08436 80 APD 82 (194)
T ss_pred cCC
Confidence 655
No 248
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=92.66 E-value=4.1 Score=43.90 Aligned_cols=86 Identities=13% Similarity=0.164 Sum_probs=56.7
Q ss_pred CCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCc
Q 002352 437 KRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGK 516 (932)
Q Consensus 437 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~ 516 (932)
.++++||++... ...+-.+++..+.++.+ .+++++.. ++..+++.+|.+|+
T Consensus 94 ~g~l~I~~~~~~-------------------~~~~l~~~l~~~~~~~p-~i~~~~~~---------~~~~~~~~~l~~g~ 144 (302)
T PRK09791 94 AGQINIGMGASI-------------------ARSLMPAVISRFHQQHP-QVKVRIME---------GQLVSMINELRQGE 144 (302)
T ss_pred ceEEEEEechHH-------------------HHhhhHHHHHHHHHHCC-CeEEEEEe---------CChHHHHHHHHCCC
Confidence 467999985221 23455688888888877 35555543 23679999999999
Q ss_pred ccEEEeeeeeeccccccccccccccccCeEEEEEccC
Q 002352 517 FDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIKD 553 (932)
Q Consensus 517 ~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~~ 553 (932)
+|+++...... .....+.+ .|+.....++++++..
T Consensus 145 ~Di~i~~~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 145 LDFTINTYYQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred ccEEEEecCCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 99987632111 11223443 6888888888887553
No 249
>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=92.40 E-value=7.2 Score=38.08 Aligned_cols=69 Identities=13% Similarity=0.204 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +...++.+|.+|++|+++..... ....+. +.+.....+.+++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 78 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTIG---------NTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVV 78 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEeC---------CcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEe
Confidence 455688888888875 355655442 34688999999999998864322 122232 3677778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (201)
T cd08420 79 PPD 81 (201)
T ss_pred cCC
Confidence 754
No 250
>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=92.35 E-value=0.45 Score=50.04 Aligned_cols=104 Identities=13% Similarity=0.104 Sum_probs=66.9
Q ss_pred CCCCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccc-cccCCc
Q 002352 661 PTITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPF-IGQYCS 739 (932)
Q Consensus 661 ~~i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~-~~~~~~ 739 (932)
.+|++++||. |+++.+..++.....++..+. .. ...+..|...+|++|. +|+++........+ +.+..+
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~~~Ga---~~-v~~~~~e~~~aL~~G~----vDg~~~~~~~~~~~~~~ev~~ 195 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFKALGA---NP-EPMAFSEVYTALQTGV----VDGQENPLSNVYSSKFYEVQK 195 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHHHcCC---cc-cccCHHHHHHHHHcCC----cccccCCHHHHhhcchhhhcc
Confidence 4599999999 999999888877888888753 22 3667789999999999 99988664332211 111133
Q ss_pred ceEEecccccccceEEEecCC--CCChHHHHHHHHhhhc
Q 002352 740 KYTLIERTFETAGFGFAFPLH--SPLVPEVSRAILNVTE 776 (932)
Q Consensus 740 ~l~~~~~~~~~~~~~~~~~k~--s~l~~~in~~il~l~e 776 (932)
.+...+ .......+.+.++ ..|-+....+|....+
T Consensus 196 y~~~~~--~~~~~~~~~~n~~~~~~L~~e~q~~i~~a~~ 232 (257)
T TIGR00787 196 YLSMTN--HGYLGYLVVVNKAFWKSLPPDLQAVVKEAAK 232 (257)
T ss_pred hheecC--CcccceEEEEeHHHHhcCCHHHHHHHHHHHH
Confidence 233222 2234455666664 3466666666655433
No 251
>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=92.29 E-value=5.3 Score=39.29 Aligned_cols=68 Identities=19% Similarity=0.252 Sum_probs=44.7
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-..++..+.++.+- +++++... +...+..+|.+|++|+++..-.. ....+. ..++....++++++
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~ 79 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSSG---------FHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVA 79 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEeC---------CchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEc
Confidence 446788888888763 55655442 35789999999999999853221 122232 35667777777776
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
..
T Consensus 80 ~~ 81 (198)
T cd08441 80 PD 81 (198)
T ss_pred CC
Confidence 54
No 252
>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=92.25 E-value=7 Score=38.38 Aligned_cols=71 Identities=14% Similarity=0.126 Sum_probs=47.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++... +...++..|.+|++|+++... ........++ ..+......++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~~~~ 80 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYEG---------GSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFMIIV 80 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEEc---------CHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEEEEe
Confidence 355688888998876 356666542 367899999999999998532 1111223343 3577778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 81 ~~~ 83 (198)
T cd08437 81 SKD 83 (198)
T ss_pred cCC
Confidence 755
No 253
>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=92.25 E-value=6.1 Score=40.55 Aligned_cols=206 Identities=10% Similarity=0.073 Sum_probs=117.7
Q ss_pred cEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCC--CCHHHHHHHHHHHHhcCCeEEEEccCChh-
Q 002352 18 PVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSK--GDVVAAAAAALDLLNNVLVQAILGPEKSM- 94 (932)
Q Consensus 18 ~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~--~~~~~a~~~a~~li~~~~v~aiiGp~~s~- 94 (932)
.++||++.... +.+....+|++..++..-.. .+...++-+. ..-.........|..++.+-|||--..-.
T Consensus 2 ~~kIGivTgtv-Sq~ed~~r~Ae~l~~~Yg~~------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpG 74 (275)
T PF12683_consen 2 DYKIGIVTGTV-SQSEDEYRGAEELIKKYGDV------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPG 74 (275)
T ss_dssp -EEEEEEE--T-TT-HHHHHHHHHHHHHHHHH------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS--
T ss_pred ceEEEEEeCCc-ccChHHHHHHHHHHHHhCcc------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcc
Confidence 57999988554 44566778888888876543 5666665433 35667788888899999999999644433
Q ss_pred HHHHHHHhcCC-CCccEEecccCCC-CccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCCh----H
Q 002352 95 QTNFIIQLGNK-SQVPILSFSATSP-SLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEM----I 168 (932)
Q Consensus 95 ~a~~v~~~~~~-~~iP~Is~~a~~~-~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~----~ 168 (932)
.+.+...+-++ -+|..|+-....+ ..-..... +-+.++....+..++...+.+|-+.++-+.....-.... .
T Consensus 75 t~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr 152 (275)
T PF12683_consen 75 TAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARRR 152 (275)
T ss_dssp -HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHHH
T ss_pred hHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHHH
Confidence 33444444433 3566665332221 11111122 333467778899999999999999999987544333333 3
Q ss_pred HHHHHHHHhCCceeeeeeecCCCCChhH------H--HHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 169 PSLTDALQAIDTRVPYRSVISPLATDDQ------I--EKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 169 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~------~--~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
+.++++.++.|++.+....-.+. ++.+ | ...-+.+++.+.++-+.+++......+++++.+.|.
T Consensus 153 ~~M~~~C~~lGi~fv~~taPDP~-sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 153 DIMEEACKDLGIKFVEVTAPDPT-SDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHCT--EEEEEE---S-STCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHcCCeEEEEeCCCCC-CCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 45666777899988776542222 2211 1 122345667899999999999999999999888663
No 254
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.24 E-value=7.2 Score=42.55 Aligned_cols=150 Identities=8% Similarity=-0.044 Sum_probs=85.1
Q ss_pred CCeEEEEc-cCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEc
Q 002352 82 VLVQAILG-PEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVD 160 (932)
Q Consensus 82 ~~v~aiiG-p~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d 160 (932)
.+|+++|- |..+. .........++|+|......+ ....+ ....++..-+..+++++...|.++++++...
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 46777664 22222 233444566899998754221 11223 2555666667788888888899999999643
Q ss_pred CC--cCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 161 NQ--YGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM--QTRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 161 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
.. ........+.+++...|+. .....+......++....+.++.+. .+++ |++++...+..+++++++.|+..|
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~vP 261 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLNIP 261 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCCCC
Confidence 32 2333456777788777751 1111111111222233445555432 3555 444556678899999999998655
Q ss_pred ceEEEE
Q 002352 237 GCVWIM 242 (932)
Q Consensus 237 ~~~wi~ 242 (932)
+-+-|+
T Consensus 262 ~di~vi 267 (327)
T PRK10339 262 QDISLI 267 (327)
T ss_pred CceEEE
Confidence 544444
No 255
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=92.23 E-value=10 Score=41.06 Aligned_cols=104 Identities=9% Similarity=0.018 Sum_probs=59.3
Q ss_pred CCHHHHHhCCCcEE-EEcChh----HHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCC
Q 002352 664 TDFQMLIKSGDNVG-YRKDSF----VFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYC 738 (932)
Q Consensus 664 ~s~~dL~~~~~~vg-~~~~s~----~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~ 738 (932)
-+++||. +.++. ...++. ...++.+.+.........++.+...+.+..|. .-+++-.. ...... ..
T Consensus 184 ~~~~~L~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp~~-~~~~~~--~~ 254 (309)
T PRK12683 184 LTLEAIA--EYPIITYDQGFTGRSRIDQAFAEAGLVPDIVLTALDADVIKTYVELGM----GVGIVAAM-AYDPQR--DT 254 (309)
T ss_pred cCHHHHh--cCCeEeccCCCcHHHHHHHHHHHCCCCceeEEEeccHHHHHHHHHhCC----CeEEeehh-hccccC--CC
Confidence 4688888 44333 333432 33445555544433445678888889999887 45555443 222211 12
Q ss_pred cceEEec--ccccccceEEEecCCCCChHHHHHHHHhhhcc
Q 002352 739 SKYTLIE--RTFETAGFGFAFPLHSPLVPEVSRAILNVTEG 777 (932)
Q Consensus 739 ~~l~~~~--~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~ 777 (932)
.+..+. +......++++.+|+.++.......+..+.+.
T Consensus 255 -~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~fi~~l~~~ 294 (309)
T PRK12683 255 -GLVALDTDHLFEANTTRVGLRRGAYLRGYAYRFIELFAPH 294 (309)
T ss_pred -ceEEEeCCCCcccceEEEEEECCCcCCHHHHHHHHHHHhh
Confidence 244332 22334567888899888777777766655554
No 256
>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=92.17 E-value=2.4 Score=43.63 Aligned_cols=93 Identities=13% Similarity=0.122 Sum_probs=72.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCC-------CChhHHHHHHHHHhcCCce
Q 002352 138 QVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPL-------ATDDQIEKELYKLFTMQTR 210 (932)
Q Consensus 138 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~~~~~~ 210 (932)
-..|+.+.++++|-++++++.. |-.+..+.+.+.+.+.|++|+....+... -+.+.+...+.++...++|
T Consensus 107 ~~~A~~~AL~alg~~RIalvTP---Y~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aD 183 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLTP---YTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDAD 183 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEECC---CcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCC
Confidence 3678899999999999999975 66688899999999999999876443221 1234566667777678999
Q ss_pred EEEEEeChhhHHHHHHHHHh-CCc
Q 002352 211 VFILHMLPSLGSRIFEKANE-IGL 233 (932)
Q Consensus 211 viil~~~~~~~~~l~~~a~~-~g~ 233 (932)
+|++.|..-....++.++.+ +|.
T Consensus 184 AifisCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 184 ALFLSCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred EEEEeCCCchhHHHHHHHHHHHCC
Confidence 99999999888888888755 554
No 257
>cd08463 PBP2_DntR_like_4 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=92.06 E-value=5.8 Score=39.51 Aligned_cols=71 Identities=13% Similarity=0.211 Sum_probs=48.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+.+++.... +.++++.+|.+|++|+++..... ..+.+++ .|+.+...++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~~--------~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~~-~~l~~~~~~lv~ 79 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPLG--------PDFDYERALASGELDLVIGNWPE---PPEHLHL-SPLFSDEIVCLM 79 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeCC--------cchhHHHHHhcCCeeEEEecccc---CCCCcEE-eEeecCceEEEE
Confidence 566789999998876 3556655421 34689999999999999863211 1122333 677888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 80 ~~~h 83 (203)
T cd08463 80 RADH 83 (203)
T ss_pred eCCC
Confidence 7663
No 258
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=91.91 E-value=5.6 Score=43.43 Aligned_cols=70 Identities=21% Similarity=0.222 Sum_probs=45.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ ++++++.. ++.++++.+|.+|++|+++.... ......+. ..|+.....++++
T Consensus 106 ~~l~~~l~~f~~~~P-~i~i~i~~---------~~~~~~~~~L~~g~iDl~i~~~~--~~~~~~l~-~~~l~~~~~~~v~ 172 (324)
T PRK12681 106 YALPPVIKGFIERYP-RVSLHMHQ---------GSPTQIAEAAAKGNADFAIATEA--LHLYDDLI-MLPCYHWNRSVVV 172 (324)
T ss_pred HhhHHHHHHHHHHCC-CcEEEEEe---------CCHHHHHHHHHcCCCCEEEecCc--ccCCCCeE-EEEeccceeEEEe
Confidence 345678888888876 35555544 34789999999999999986321 11122233 2566667777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 173 ~~~ 175 (324)
T PRK12681 173 PPD 175 (324)
T ss_pred CCC
Confidence 654
No 259
>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=91.90 E-value=12 Score=36.47 Aligned_cols=71 Identities=10% Similarity=-0.001 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++.. ++..+++..|.+|++|+++....... +...+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~---------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~ 80 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE---------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVAL 80 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE---------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEe
Confidence 456788888988876 35566544 23678999999999999985332110 122232 3567777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 81 ~~~ 83 (197)
T cd08449 81 PEE 83 (197)
T ss_pred cCC
Confidence 654
No 260
>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=91.84 E-value=7.5 Score=38.06 Aligned_cols=69 Identities=10% Similarity=0.137 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..+++.+.++.+ .+.+++... +..++...|.+|++|+++... +.....+. ..++....+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 79 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLREM---------PQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVV 79 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEEC---------cHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEe
Confidence 344688888888876 356666542 356889999999999998532 22222333 3677778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 80 ~~~ 82 (197)
T cd08425 80 GAT 82 (197)
T ss_pred cCC
Confidence 755
No 261
>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=91.81 E-value=14 Score=36.35 Aligned_cols=71 Identities=21% Similarity=0.228 Sum_probs=47.8
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.++.+ .+++++.. ++..+++..|.+|++|+++..-.. .....+. +.++.....+++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v 78 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ---------GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVV 78 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe---------CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEE
Confidence 4567789999998876 35555543 246789999999999999853211 1122333 467777788888
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
++..
T Consensus 79 ~~~~ 82 (198)
T cd08443 79 VKRD 82 (198)
T ss_pred EcCC
Confidence 7655
No 262
>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=91.81 E-value=12 Score=36.76 Aligned_cols=69 Identities=14% Similarity=0.181 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .++++.... +-.++...|.+|++|+++.... .....+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~ 78 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMGL---------SSSQVLEAVASGRADLGIADGP---LEERQGF-LIETRSLPAVVAV 78 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEec---------CcHHHHHHHHcCCccEEEeccC---CCCCCcE-EEEeccCCeEEEe
Confidence 456789999999886 355655442 2368888999999999885322 2222232 3566677777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (196)
T cd08457 79 PMG 81 (196)
T ss_pred eCC
Confidence 654
No 263
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=91.68 E-value=7 Score=38.15 Aligned_cols=68 Identities=10% Similarity=0.142 Sum_probs=45.2
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-..++..+.++.+ .+++++... ....++.+|.+|++|+++...... ...+ ...++....++++++
T Consensus 13 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~ 78 (197)
T cd08419 13 FAPRLLGAFCRRHP-GVEVSLRVG---------NREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAP 78 (197)
T ss_pred HhhHHHHHHHHHCC-CceEEEEEC---------CHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEec
Confidence 45678888888875 355665442 367889999999999998532211 1112 246777788888877
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
..
T Consensus 79 ~~ 80 (197)
T cd08419 79 PD 80 (197)
T ss_pred CC
Confidence 54
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=91.50 E-value=11 Score=37.00 Aligned_cols=72 Identities=19% Similarity=0.258 Sum_probs=48.2
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
.++-.+++..+.++.+ .+.++... ++...++..|.+|++|+++..-.. .....+. +.++....++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~ 78 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ---------GSPEEIASMLANGQADIGIATEAL--ENHPELV-SFPYYDWHHHII 78 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe---------CCHHHHHHHHHCCCccEEEecccc--CCCcCcE-EeeccccceeEE
Confidence 3566788999999876 35565544 246789999999999998853211 1122232 467777888888
Q ss_pred EEccC
Q 002352 549 VPIKD 553 (932)
Q Consensus 549 v~~~~ 553 (932)
+++..
T Consensus 79 ~~~~h 83 (198)
T cd08444 79 VPVGH 83 (198)
T ss_pred ecCCC
Confidence 87553
No 265
>TIGR00035 asp_race aspartate racemase.
Probab=91.49 E-value=1.5 Score=45.13 Aligned_cols=92 Identities=10% Similarity=0.068 Sum_probs=58.2
Q ss_pred cCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHH
Q 002352 63 NSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAI 142 (932)
Q Consensus 63 D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai 142 (932)
++..++...+..+.+.+.+.++.+|+=|..+.... +..+-+..++|+|+. .++.
T Consensus 55 ~~~~~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~ 108 (229)
T TIGR00035 55 RGEDRPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEET 108 (229)
T ss_pred CCcchHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHH
Confidence 33345666677777777777999999877665443 456666678998873 2233
Q ss_pred HHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceee
Q 002352 143 TAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVP 183 (932)
Q Consensus 143 ~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 183 (932)
++.++..+.++|+++.....- ....+++.+++.|+++.
T Consensus 109 ~~~~~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 109 AEAVKEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHHHHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 344455577888888654332 23446677777776554
No 266
>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=91.41 E-value=12 Score=36.77 Aligned_cols=69 Identities=13% Similarity=0.062 Sum_probs=45.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .++++... ++..++...|.+|++|+++...... ...+ -+.++.....++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~ 78 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT---------VPSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLL 78 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec---------cChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEe
Confidence 345688899998887 35565543 2356789999999999998633221 1222 23567777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (196)
T cd08458 79 PPG 81 (196)
T ss_pred cCC
Confidence 654
No 267
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=91.33 E-value=6.4 Score=42.64 Aligned_cols=70 Identities=11% Similarity=0.190 Sum_probs=47.6
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-.+++..+.+..+ .+++++... +..+++.+|.+|++|+++...... .....+ -..|+....++++++
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~lv~~ 178 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYEA---------QLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFVLVAS 178 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEeC---------CHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEEEEEc
Confidence 44588888888876 356666543 368999999999999998532211 111223 246888888888887
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
+.
T Consensus 179 ~~ 180 (312)
T PRK10341 179 KS 180 (312)
T ss_pred CC
Confidence 55
No 268
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=91.32 E-value=7.2 Score=42.09 Aligned_cols=69 Identities=14% Similarity=0.181 Sum_probs=44.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+...++..+.++.+ .+.+.+... ....+...|.+|++|+++..-... ...++ ..|+....+++++
T Consensus 105 ~~~~~~l~~~~~~~p-~i~l~~~~~---------~~~~~~~~l~~g~~Di~i~~~~~~---~~~~~-~~~l~~~~~~lv~ 170 (305)
T PRK11233 105 SLTMPLLQAVRAEFP-GIVLYLHEN---------SGATLNEKLMNGQLDMAVIYEHSP---VAGLS-SQPLLKEDLFLVG 170 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEEC---------CcHHHHHHHHCCCCCEEEEcCCcC---CCCcE-EEEEeeeeEEEEE
Confidence 344568888888875 355555442 356888999999999998532111 12232 3577777887777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 171 ~~~ 173 (305)
T PRK11233 171 TQD 173 (305)
T ss_pred cCc
Confidence 644
No 269
>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=91.31 E-value=8.1 Score=37.74 Aligned_cols=69 Identities=12% Similarity=0.034 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +...++.++.+|++|+++..... ....+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~ 78 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHTR---------DSPTVEQWLSAQQCDLGLVSTLH---EPPGIE-RERLLRIDGVCVL 78 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEecCC---CCCCee-EEEeeccCeEEEe
Confidence 456688899999876 356666542 35788899999999999853211 122222 4567777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (196)
T cd08456 79 PPG 81 (196)
T ss_pred cCC
Confidence 654
No 270
>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=91.00 E-value=6.9 Score=38.46 Aligned_cols=70 Identities=13% Similarity=0.081 Sum_probs=47.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++...++.+|.+|++|+++... +.....+. +.|+....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~---------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~ 78 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP---------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSFK-SELLFEDELVCVA 78 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec---------CchHhHHHHHHcCCccEEEecc---cCCCCCce-eeeecccceEEEE
Confidence 445678888888876 35565543 3467899999999999998532 22222332 3577888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 79 ~~~~ 82 (200)
T cd08466 79 RKDH 82 (200)
T ss_pred eCCC
Confidence 7553
No 271
>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=90.89 E-value=6.8 Score=42.12 Aligned_cols=70 Identities=17% Similarity=0.134 Sum_probs=47.1
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-.+++..+.++.+ .+.+.+... +...++.+|.+|++|++++.... +.....+. ..|......+++++
T Consensus 107 ~~~~~l~~~~~~~P-~~~i~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~~-~~~l~~~~~~~~~~ 174 (300)
T TIGR02424 107 LMPEVVKRFLARAP-RLRVRIMTG---------PNAYLLDQLRVGALDLVVGRLGA-PETMQGLS-FEHLYNEPVVFVVR 174 (300)
T ss_pred hhHHHHHHHHHhCC-CcEEEEEeC---------chHHHHHHHHCCCCCEEEEecCC-ccccccee-eeeecCCceEEEEc
Confidence 45678888888887 355665542 35789999999999999864322 11222333 35777888888887
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
+.
T Consensus 175 ~~ 176 (300)
T TIGR02424 175 AG 176 (300)
T ss_pred CC
Confidence 55
No 272
>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=90.85 E-value=11 Score=40.76 Aligned_cols=197 Identities=10% Similarity=0.043 Sum_probs=101.3
Q ss_pred EEEEEEeCCC---ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 20 NVGLVLDMNG---EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKG-DVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 20 ~IG~i~~~s~---~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
+|+++.+-.- .+......|++.+.++. ..+++...+... ++........++.++ +...||++. ..-
T Consensus 3 ~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~--------~~i~~~~~e~~~~~~~~~~~~~~~~~~~-g~dlIi~~g-~~~ 72 (306)
T PF02608_consen 3 KVALLDPGGINDKGFNQSAYEGLKRAEKEL--------DGIEIIYVENVPETDADYEEAIRQLADQ-GYDLIIGHG-FEY 72 (306)
T ss_dssp EEEEESSS-CCCSSHHHHHHHHHHHHHHHC--------TTEEEEEEES-S-TCHHHHHHHHHHHHT-T-SEEEEES-GGG
T ss_pred EEEEEECCCCCCccHHHHHHHHHHHHHHHc--------CCceEEEEecCCccHHHHHHHHHHHHHc-CCCEEEEcc-HHH
Confidence 5666655432 33334444544444443 125566655554 344555556666654 888888844 344
Q ss_pred HHHHHHhcCCC-CccEEecccCCCCccCCCCCceEecccCc---hhHHHHHHHHHHHcCCeEEEEEE---E-cCCcCCCh
Q 002352 96 TNFIIQLGNKS-QVPILSFSATSPSLTSIRSSYFFRGSLND---SSQVGAITAIIKAFGWREAVPIY---V-DNQYGEEM 167 (932)
Q Consensus 96 a~~v~~~~~~~-~iP~Is~~a~~~~l~~~~~p~~~r~~ps~---~~~~~ai~~~l~~~~w~~v~ii~---~-d~~~g~~~ 167 (932)
..++..++.++ ++-++...+..... .|++.-..... ...+-.+|.++..- .+++.+- . +.+.-...
T Consensus 73 ~~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~ 146 (306)
T PF02608_consen 73 SDALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRF 146 (306)
T ss_dssp HHHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHH
T ss_pred HHHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHH
Confidence 56777777777 55555544322211 13444444332 23344555555443 4788877 3 33433455
Q ss_pred HHHHHHHHHhCCceeeeeeecCCCCChhH-HHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 168 IPSLTDALQAIDTRVPYRSVISPLATDDQ-IEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 168 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~-~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
...|..-++..+-.+.....+.-+..+.+ -......+.+.++|||+-.+.+ ....++++|++.|.
T Consensus 147 ~~gF~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 147 INGFIAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 66677777665544333333322333333 3344456668999999886554 45578899999875
No 273
>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=90.83 E-value=10 Score=37.11 Aligned_cols=72 Identities=18% Similarity=0.229 Sum_probs=46.5
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
.++-.+++..+.++.+ .+++++... ...+++.+|.+|++|+++..... +.....+. +.+.....++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v 79 (199)
T cd08416 12 VNTVPRIIMGLKLRRP-ELDIELTLG---------SNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDIFLA 79 (199)
T ss_pred HhhhHHHHHHHHHhCC-CeEEEEEEc---------CcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceEEEE
Confidence 3456788888988886 355555442 35678999999999999864221 00122222 456777778888
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
+++.
T Consensus 80 ~~~~ 83 (199)
T cd08416 80 VPAT 83 (199)
T ss_pred ECCC
Confidence 7754
No 274
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=90.80 E-value=15 Score=40.01 Aligned_cols=71 Identities=11% Similarity=0.033 Sum_probs=48.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+ .+.+++.. ++.++++.+|.+|++|+++...... ...... ..|++....++++
T Consensus 106 ~~l~~~l~~f~~~~P-~v~i~l~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~~-~~~l~~~~~~l~~ 172 (327)
T PRK12680 106 FVLPPAVAQIKQAYP-QVSVHLQQ---------AAESAALDLLGQGDADIAIVSTAGG--EPSAGI-AVPLYRWRRLVVV 172 (327)
T ss_pred HhhHHHHHHHHHHCC-CcEEEEEe---------CChHHHHHHHHCCCCcEEEEecCCC--CCCcce-EEEeeccceEEEE
Confidence 445688999999887 35566544 2368999999999999988532111 111222 4688888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
+...
T Consensus 173 ~~~h 176 (327)
T PRK12680 173 PRGH 176 (327)
T ss_pred eCCC
Confidence 7653
No 275
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=90.80 E-value=9.9 Score=41.33 Aligned_cols=69 Identities=14% Similarity=0.202 Sum_probs=46.1
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-.+++..+.++.+ .+.+++... .-.++...|.+|++|+++..- +...+.+.+ .++....++++++
T Consensus 103 ~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~L~~g~~Dl~i~~~---~~~~~~~~~-~~l~~~~~~lv~~ 168 (317)
T PRK15421 103 WLTPALENFHKNWP-QVEMDFKSG---------VTFDPQPALQQGELDLVMTSD---ILPRSGLHY-SPMFDYEVRLVLA 168 (317)
T ss_pred HHHHHHHHHHHHCC-CceEEEEeC---------ccHHHHHHHHCCCcCEEEecC---cccCCCceE-EEeccceEEEEEc
Confidence 34677888888765 355665442 246889999999999998532 222233443 6777888888887
Q ss_pred ccC
Q 002352 551 IKD 553 (932)
Q Consensus 551 ~~~ 553 (932)
...
T Consensus 169 ~~h 171 (317)
T PRK15421 169 PDH 171 (317)
T ss_pred CCC
Confidence 553
No 276
>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=90.66 E-value=5.5 Score=39.33 Aligned_cols=68 Identities=19% Similarity=0.230 Sum_probs=44.3
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-..++..+.++.+ .+.++... ++. +++..|.+|++|+++..-.. ....+. ..|.....++++++
T Consensus 14 ~l~~~i~~~~~~~P-~i~l~i~~---------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08462 14 LLPPVIERVAREAP-GVRFELLP---------PDD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVVW 78 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEec---------CCh-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEEc
Confidence 34567888888776 34555543 234 89999999999999863221 112233 35777788888877
Q ss_pred ccC
Q 002352 551 IKD 553 (932)
Q Consensus 551 ~~~ 553 (932)
...
T Consensus 79 ~~h 81 (200)
T cd08462 79 ADN 81 (200)
T ss_pred CCC
Confidence 553
No 277
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A ....
Probab=90.60 E-value=2.2 Score=43.96 Aligned_cols=117 Identities=12% Similarity=0.053 Sum_probs=65.6
Q ss_pred CCCHHHHHhCCCcEEEEcC------hhHHHHHHhcC---CC---ccccc-ccCCHHHHHHHhhcccCCCceeEEEecccc
Q 002352 663 ITDFQMLIKSGDNVGYRKD------SFVFGILKQLG---FD---EKKLI-AYSSPEECDELFQKGSAGGGIAAAFDEIPY 729 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~------s~~~~~l~~~~---~~---~~~~~-~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~ 729 (932)
+++++||.+.+.++++..- ......+.+.+ .- ..++. ..++..+..+.+.+|+ .++.+.....
T Consensus 93 ~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~~g~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~----~d~~~~~~s~ 168 (230)
T PF13531_consen 93 IRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAAAGGQELLDALQKNIVQYVPSTSQVLSAVASGE----ADAGIVYESQ 168 (230)
T ss_dssp TTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHHHTHCHHHHHHHHTEEEEESSHHHHHHHHHTTS----SSEEEEEHHH
T ss_pred cCCHHHHhhccCEEEecCcccChhhHHHHHHHHHcccHHHHHHHHHhCcccccchHHHHHHHHcCC----CcceeeHHHH
Confidence 7788888877668887652 11223333332 10 11222 4567788889999998 8888765444
Q ss_pred cccccccCCcceEE--eccccc--ccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHH
Q 002352 730 TKPFIGQYCSKYTL--IERTFE--TAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDE 786 (932)
Q Consensus 730 ~~~~~~~~~~~l~~--~~~~~~--~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~ 786 (932)
+.+. .+.. .+.. +++.+. ...+.+++.++++-.+.-...+..|... .-+++..+
T Consensus 169 ~~~~-~~~~-~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~-~~q~~l~~ 226 (230)
T PF13531_consen 169 AIFA-RQGD-PLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLSP-EGQQILAK 226 (230)
T ss_dssp HHHC-TSHT-TEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTSH-HHHHHHHH
T ss_pred HHHh-hcCC-CeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCCH-HHHHHHHH
Confidence 4222 1112 2333 344444 2457788888888777777777766654 34444443
No 278
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=90.60 E-value=14 Score=39.80 Aligned_cols=71 Identities=21% Similarity=0.254 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++.+.++..|.+|++|++++.-.. .....++ +.|+.....++++
T Consensus 106 ~~l~~~l~~~~~~~P-~i~i~i~~---------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~l~-~~~l~~~~~~~~~ 172 (309)
T PRK12682 106 YVLPRVVAAFRKRYP-KVNLSLHQ---------GSPDEIARMVISGEADIGIATESL--ADDPDLA-TLPCYDWQHAVIV 172 (309)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEec---------CCHHHHHHHHHcCCccEEEecCcc--cCCCcce-EEEeeeeeEEEEe
Confidence 445678888888876 34555543 235789999999999999863221 1122333 3578888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
+...
T Consensus 173 ~~~~ 176 (309)
T PRK12682 173 PPDH 176 (309)
T ss_pred cCCC
Confidence 7653
No 279
>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=90.54 E-value=15 Score=35.63 Aligned_cols=69 Identities=10% Similarity=0.153 Sum_probs=46.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++.+|.+|++|+++..... ....+. ..|.....+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~---------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 78 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE---------MTTAEQLEALRAGRLDVGFVRPPP---DPPGLA-SRPLLREPLVVAL 78 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec---------CChHHHHHHHHcCCccEEEEcCCC---CCCCee-EEEEeeccEEEEe
Confidence 345678888888875 35555543 235789999999999999864322 122232 3677778888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (197)
T cd08414 79 PAD 81 (197)
T ss_pred cCC
Confidence 755
No 280
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=90.53 E-value=9.3 Score=40.75 Aligned_cols=69 Identities=12% Similarity=0.106 Sum_probs=44.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+.+++... +..+++..|.+|++|+++..... ....+. ..|+....+++++
T Consensus 102 ~~~~~~l~~~~~~~P-~i~i~v~~~---------~~~~~~~~l~~g~~Di~i~~~~~---~~~~~~-~~~l~~~~~~lv~ 167 (290)
T PRK10837 102 YILPAMIARYRRDYP-QLPLELSVG---------NSQDVINAVLDFRVDIGLIEGPC---HSPELI-SEPWLEDELVVFA 167 (290)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEEC---------CHHHHHHHHHhCCceEEEecCCC---CCCcee-EEEeecceEEEEE
Confidence 345678888888875 355555442 35789999999999999853221 112222 3566677777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 168 ~~~ 170 (290)
T PRK10837 168 APD 170 (290)
T ss_pred cCC
Confidence 654
No 281
>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=90.51 E-value=3.8 Score=40.48 Aligned_cols=70 Identities=20% Similarity=0.227 Sum_probs=47.1
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.++.+ .++++... ++. .++.+|.+|++|++++.... ....+. ..|+....++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~---------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v 76 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP---------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGV 76 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec---------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEE
Confidence 3566788888988876 35565543 234 78899999999999863221 122343 367788888888
Q ss_pred EEccC
Q 002352 549 VPIKD 553 (932)
Q Consensus 549 v~~~~ 553 (932)
++...
T Consensus 77 ~~~~h 81 (200)
T cd08460 77 VRAGH 81 (200)
T ss_pred EeCCC
Confidence 87553
No 282
>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=90.37 E-value=8.3 Score=39.09 Aligned_cols=72 Identities=7% Similarity=-0.006 Sum_probs=40.3
Q ss_pred ccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEecc-cccccceEEEecCCCCChHHHHHHHHhhhcc
Q 002352 700 AYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIER-TFETAGFGFAFPLHSPLVPEVSRAILNVTEG 777 (932)
Q Consensus 700 ~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~s~l~~~in~~il~l~e~ 777 (932)
...+..+..+.+.+|+ +++.+......... ..... ...++. ......+++++.|+++-.+.-.+.|..+...
T Consensus 134 ~~~~~~~~~~~~~~Ge----~~~~~~~~~~~~~~-~~~~~-~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s~ 206 (216)
T TIGR01256 134 YGEDVRQALQFVETGN----APAGIVALSDVIPS-KKVGS-VATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKSP 206 (216)
T ss_pred ecCcHHHHHHHHHcCC----CCEEeeehhhhccc-CCccE-EEEeCccccCCccccEEEEECCCChHHHHHHHHHHcCH
Confidence 3446677888999998 77776543222111 11222 222332 2333456889999888766655555554443
No 283
>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=90.36 E-value=4.6 Score=42.23 Aligned_cols=120 Identities=13% Similarity=0.064 Sum_probs=64.3
Q ss_pred CCCCCHHHHHhCCCcEEEEcChhHHH----HHHhcCCC------------------ccccccc-CCHHHHHHHhhcccCC
Q 002352 661 PTITDFQMLIKSGDNVGYRKDSFVFG----ILKQLGFD------------------EKKLIAY-SSPEECDELFQKGSAG 717 (932)
Q Consensus 661 ~~i~s~~dL~~~~~~vg~~~~s~~~~----~l~~~~~~------------------~~~~~~~-~~~~~~~~~l~~g~~~ 717 (932)
..+++++||. .|++|++..+..... .|++.+.- ...+... -...+...++.+|+
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel~~~~~~~al~~g~-- 182 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLDIVENPKKLNITELETSQLPRALDDPK-- 182 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHHHHcCCceecCCCCCcCChhhhhcCCCCCEEEEcCHHHHHHHhhccc--
Confidence 4589999994 388999987654333 36665542 1122111 13456778999998
Q ss_pred CceeEEEecccccccccccC-CcceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHH
Q 002352 718 GGIAAAFDEIPYTKPFIGQY-CSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDE 786 (932)
Q Consensus 718 ~g~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~ 786 (932)
+++++...+++.-.-..- ...+ ...+.-...-..++++.+..=.+.+...+..+++...-+.+.++
T Consensus 183 --vDaa~v~~~~~~~agl~~~~~~i-~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~ 249 (258)
T TIGR00363 183 --VDLAVINTTYAGQVGLNPQDDGV-FVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKH 249 (258)
T ss_pred --ccEEEEChHHHHHcCCCcCcCce-eecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHH
Confidence 899888766544321111 1111 11111111223455665543445666666666655444444444
No 284
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=90.13 E-value=11 Score=40.69 Aligned_cols=69 Identities=13% Similarity=0.092 Sum_probs=44.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.+..+ .++++..... -..++..|.+|++|+++..... ....+. ..+.......+++
T Consensus 107 ~~l~~~l~~~~~~~P-~v~i~i~~~~---------~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~ 172 (309)
T PRK11013 107 SLLPGLCQPFLARYP-DVSLNIVPQE---------SPLLEEWLSAQRHDLGLTETLH---TPAGTE-RTELLTLDEVCVL 172 (309)
T ss_pred hhHHHHHHHHHHHCC-CCeEEEEeCC---------HHHHHHHHHcCCCCEEEEcCCC---CCCCce-eeeecceeEEEEE
Confidence 456788888888875 3566665533 4678899999999998853221 112222 2455566666777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 173 ~~~ 175 (309)
T PRK11013 173 PAG 175 (309)
T ss_pred cCC
Confidence 654
No 285
>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=90.08 E-value=1.2 Score=42.78 Aligned_cols=99 Identities=12% Similarity=0.096 Sum_probs=64.5
Q ss_pred HHHHHHcCCeEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHH-HHHhcCCceEEEEEeChh
Q 002352 143 TAIIKAFGWREAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKEL-YKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 143 ~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l-~~l~~~~~~viil~~~~~ 219 (932)
++++...|-+++++|... ..+.....+.+..++++.|+......... .....+..... ..+++..+++||. ++..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~pdaii~-~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFS-DDDSEDAREAQLLWLRRLRPDAIIC-SNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEE-SSSHHHHHHHHHHHHHTCSSSEEEE-SSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeec-CCcchhHHHHHHHHHhcCCCcEEEE-cCHH
Confidence 466778899999999932 33445557888999999998865544432 22332332222 2233346776655 7888
Q ss_pred hHHHHHHHHHhCCccccceEEEEe
Q 002352 220 LGSRIFEKANEIGLMNKGCVWIMT 243 (932)
Q Consensus 220 ~~~~l~~~a~~~g~~~~~~~wi~t 243 (932)
.+..+++++.+.|+..|+-+-|++
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred HHHHHHHHHHHcCCcccccccEEE
Confidence 899999999999996665545554
No 286
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=90.00 E-value=5.3 Score=43.46 Aligned_cols=68 Identities=9% Similarity=0.126 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..+++.+.+..+ ++.++.. ..++++..|.+|++|+++..... ..+.+.+ .|.....+++++
T Consensus 130 ~~l~~~l~~f~~~~P-~i~i~~~-----------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~ 193 (317)
T PRK11482 130 LVMPVIYQAIKTHYP-QLLLRNI-----------PISDAENQLSQFQTDLIIDTHSC---SNRTIQH-HVLFTDNVVLVC 193 (317)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEe-----------cchhHHHHHHCCCcCEEEeccCC---CCCceEE-EEEecCcEEEEE
Confidence 356678888888876 3444321 24578999999999999864322 2233443 677888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
+...
T Consensus 194 ~~~h 197 (317)
T PRK11482 194 RQGH 197 (317)
T ss_pred eCCC
Confidence 7653
No 287
>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=6.8 Score=38.77 Aligned_cols=69 Identities=14% Similarity=0.107 Sum_probs=46.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-.+++..+.++.+ .++++... ++..+++.+|.+|++|++++.... ....+.. .+.....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~---------~~~~~~~~~L~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~ 78 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ---------ASREAMLAQVADGEIDLALGVFPE---LPEELHA-ETLFEERFVCLA 78 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec---------CChHhHHHHHHCCCccEEEecccc---CCcCeeE-EEeeeccEEEEE
Confidence 555688888888866 35555543 347899999999999998863221 1223333 466677788888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (200)
T cd08465 79 DRA 81 (200)
T ss_pred eCC
Confidence 755
No 288
>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=89.70 E-value=13 Score=36.28 Aligned_cols=73 Identities=10% Similarity=0.118 Sum_probs=47.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeee--ccccccccccccccccCeEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTIL--ANRSKFVEFTLPYTESGVSM 547 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it--~~R~~~vdfs~p~~~~~~~~ 547 (932)
.+-.+++..+.++.+ .+++++... +...++.+|.+|++|+++...... ......+ .+.+......++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~ 81 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLREA---------EPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDL 81 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEeC---------CHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEE
Confidence 345678888888876 356666542 357889999999999988532110 1122233 346777888888
Q ss_pred EEEccC
Q 002352 548 IVPIKD 553 (932)
Q Consensus 548 lv~~~~ 553 (932)
++++..
T Consensus 82 ~~~~~~ 87 (200)
T cd08423 82 VLPADH 87 (200)
T ss_pred EecCCC
Confidence 887553
No 289
>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=89.52 E-value=20 Score=35.09 Aligned_cols=73 Identities=14% Similarity=0.100 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++... +...+..+|.+|++|+++............+. +.|.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~ 81 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLREA---------TSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAV 81 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEeC---------CHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEE
Confidence 455688888888876 355665542 35789999999999998753211110112232 4677778888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 82 ~~~h 85 (200)
T cd08453 82 PAAW 85 (200)
T ss_pred ECCC
Confidence 7553
No 290
>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=89.47 E-value=11 Score=37.30 Aligned_cols=69 Identities=14% Similarity=0.118 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +..+++..|.+|++|+++... +.....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCPI---------GDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLV 78 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEecC---------CcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEE
Confidence 455688888888876 355655442 356889999999999988532 11122233 3577788888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 79 ~~~ 81 (200)
T cd08467 79 RHG 81 (200)
T ss_pred cCC
Confidence 754
No 291
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=89.47 E-value=9.3 Score=38.11 Aligned_cols=71 Identities=13% Similarity=0.197 Sum_probs=44.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .++++... ++..+++..|.+|++|+++........-...+ ...|+....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~---------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 81 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE---------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFA 81 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe---------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEe
Confidence 455678888888875 35565544 35789999999999999875322111100111 13477777777765
Q ss_pred Ec
Q 002352 550 PI 551 (932)
Q Consensus 550 ~~ 551 (932)
+.
T Consensus 82 ~~ 83 (204)
T cd08429 82 AP 83 (204)
T ss_pred cC
Confidence 53
No 292
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=89.23 E-value=24 Score=36.64 Aligned_cols=148 Identities=8% Similarity=0.004 Sum_probs=88.2
Q ss_pred HHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHH--cCCe
Q 002352 75 ALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKA--FGWR 152 (932)
Q Consensus 75 a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~ 152 (932)
..+.+. .+|+++|=-.+..............++|+|...-..+. ...++ ....++..-+..+++.+.. .|-+
T Consensus 45 ~~~~~~-~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~ 118 (247)
T cd06276 45 IISNTK-GKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYK 118 (247)
T ss_pred HHHHHh-cCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCC
Confidence 344433 46776663111111122445556678999987643211 11223 3455677777778888877 8999
Q ss_pred EEEEEEEcC-CcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 153 EAVPIYVDN-QYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 153 ~v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
++++|.... ..+....+.+.+++++.|+.... .. .... .. . .+++ .|++++...+..+++.+++.
T Consensus 119 ~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~--~~--~~~~----~~----~-~~~~-ai~~~~d~~A~g~~~~l~~~ 184 (247)
T cd06276 119 KLILVFPNKTAIPKEIKRGFERFCKDYNIETEI--IN--DYEN----RE----I-EKGD-LYIILSDTDLVFLIKKARES 184 (247)
T ss_pred EEEEEecCccHhHHHHHHHHHHHHHHcCCCccc--cc--ccch----hh----c-cCCc-EEEEeCHHHHHHHHHHHHHc
Confidence 999997533 34455678889999999875432 11 0011 00 0 1234 45666777888999999999
Q ss_pred CccccceEEEE
Q 002352 232 GLMNKGCVWIM 242 (932)
Q Consensus 232 g~~~~~~~wi~ 242 (932)
|+..|.-+=|+
T Consensus 185 g~~iP~disvi 195 (247)
T cd06276 185 GLLLGKDIGII 195 (247)
T ss_pred CCcCCceeEEE
Confidence 98666544444
No 293
>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=89.21 E-value=22 Score=34.43 Aligned_cols=69 Identities=12% Similarity=0.092 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..++...+.+|++|+++... ......+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~---------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE---------MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCL 78 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe---------CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEe
Confidence 455788899988876 35666654 2467899999999999987532 22223333 3677778888877
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (197)
T cd08448 79 PAG 81 (197)
T ss_pred eCC
Confidence 654
No 294
>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=89.18 E-value=18 Score=35.18 Aligned_cols=71 Identities=17% Similarity=0.237 Sum_probs=46.8
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
..+-.+++..+.++.+ .++++... ++...++.+|.+|++|+++...... ....+. ..++....++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~~~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~ 78 (199)
T cd08430 12 YSFLPPILERFRAQHP-QVEIKLHT---------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFI 78 (199)
T ss_pred eeeccHHHHHHHHHCC-CceEEEEe---------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEE
Confidence 3556788999999986 35566544 2467899999999999998532111 112232 356677777777
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
+++.
T Consensus 79 ~~~~ 82 (199)
T cd08430 79 APNI 82 (199)
T ss_pred EeCC
Confidence 7654
No 295
>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=89.03 E-value=24 Score=34.44 Aligned_cols=69 Identities=10% Similarity=0.100 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. +++..+..+|.+|++|+++..... ....+. +.++....+++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~---------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 79 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN---------MTKDEQIEALRAGRIHIGFGRFYP---VEPDIA-VENVAQERLYLAV 79 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee---------CCHHHHHHHHHCCCccEEEEecCC---CCCCce-eEEeeeccEEEEE
Confidence 345688888888876 35565544 346789999999999999853221 112222 4567777888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 80 ~~~ 82 (198)
T cd08446 80 PKS 82 (198)
T ss_pred eCC
Confidence 755
No 296
>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=88.92 E-value=24 Score=34.66 Aligned_cols=69 Identities=9% Similarity=0.101 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .++++... ++...++.+|.+|++|+++... +.....++ +.+.....+++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~---------~~~~~l~~~l~~g~~D~~~~~~---~~~~~~~~-~~~l~~~~~~lv~ 79 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH---------MTKDEQVEGLLAGTIHVGFSRF---FPRHPGIE-IVNIAQEDLYLAV 79 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE---------CCHHHHHHHHHcCCceEEEecC---CCCCCceE-EEEEeeccEEEEe
Confidence 445688888888876 35555544 2478999999999999998532 11122233 3566777888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 80 ~~~ 82 (198)
T cd08486 80 HRS 82 (198)
T ss_pred cCC
Confidence 754
No 297
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=88.85 E-value=8.7 Score=38.64 Aligned_cols=70 Identities=16% Similarity=0.141 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +..++...|.+|++|++++.. +.....+. ..|......++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~~---------~~~~~~~~l~~g~~Di~i~~~---~~~~~~l~-~~~l~~~~~~~v~ 78 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRPV---------TRLDLAEQLDLGRIDLVIGIF---EQIPPRFR-RRTLFDEDEVWVM 78 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEeeC---------ChhhHHHHHHCCCccEEEecC---CCCCccce-eeeeeccceEEEE
Confidence 345678888888776 355655442 356899999999999998633 22223343 3677888888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
+...
T Consensus 79 ~~~~ 82 (221)
T cd08469 79 RKDH 82 (221)
T ss_pred eCCC
Confidence 7553
No 298
>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=88.85 E-value=24 Score=34.66 Aligned_cols=69 Identities=13% Similarity=0.219 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++.+|.+|++|++++..... ...+. +.|+....+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~---------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~ 79 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE---------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVAL 79 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe---------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEe
Confidence 566788888888876 35555543 2357899999999999998532211 12233 3567777888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 80 ~~~ 82 (203)
T cd08445 80 PAG 82 (203)
T ss_pred eCC
Confidence 754
No 299
>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=88.79 E-value=21 Score=34.74 Aligned_cols=69 Identities=16% Similarity=0.203 Sum_probs=46.6
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-.++++.+.++.+ .+.+++.. ++..+++..|.+|++|+++...... ....+ .+.+.....++++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~ 81 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE---------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALP 81 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec---------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEec
Confidence 56688999999876 35555543 2367899999999999998543221 11222 346777888888886
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
..
T Consensus 82 ~~ 83 (199)
T cd08451 82 AG 83 (199)
T ss_pred CC
Confidence 54
No 300
>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=88.65 E-value=8.2 Score=38.41 Aligned_cols=102 Identities=14% Similarity=0.132 Sum_probs=63.4
Q ss_pred CCCCHHHHHhCCCcEEE-EcChhHHHHHHh----cCCCccccccc----CCHHHHHHHhhcccCCCceeEEEeccccccc
Q 002352 662 TITDFQMLIKSGDNVGY-RKDSFVFGILKQ----LGFDEKKLIAY----SSPEECDELFQKGSAGGGIAAAFDEIPYTKP 732 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~-~~~s~~~~~l~~----~~~~~~~~~~~----~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~ 732 (932)
.|++++||.+.+.++.- ..||-...+|.+ .+.....+.-| .+..+...+|..|. .|+-+.-......
T Consensus 82 ~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~----AD~G~g~~~~A~~ 157 (193)
T PF12727_consen 82 GITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGK----ADAGIGIRAAAEE 157 (193)
T ss_pred cCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCC----CCEEeehHHHHHh
Confidence 38999999876765544 567766655543 44444444444 46678889999999 8887765443321
Q ss_pred ccccCCcceEEecccccccceEEEecCCCCChHHHHHHHHhh
Q 002352 733 FIGQYCSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNV 774 (932)
Q Consensus 733 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l 774 (932)
+. .-+ +. ++....|-++++|..-..+.+.+.|.-+
T Consensus 158 ~~--gL~-Fv----pl~~E~~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 158 FY--GLD-FV----PLAEERYDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred hc--CCC-cE----EccccceEEEEEhhHcCCHHHHHHHHHh
Confidence 10 111 22 2344677889999776666666666443
No 301
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=88.42 E-value=16 Score=38.29 Aligned_cols=211 Identities=9% Similarity=0.049 Sum_probs=112.5
Q ss_pred CCCCCccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccC
Q 002352 12 SKNTTIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPE 91 (932)
Q Consensus 12 ~~~~~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~ 91 (932)
+.+..+...||+..|.-.. .++..--...++.+++. |.++. +.+-.++...-......++.+.-=+.||+|.
T Consensus 19 ~aa~~~d~~IGis~~d~~~--eRW~~D~~~~~~~~e~~----g~k~~--~q~A~~~~~~Q~~qien~i~qg~~vlvi~a~ 90 (341)
T COG4213 19 AAAAAKDGVIGISMPDLRS--ERWIKDRDAFVKKAEAL----GAKVD--VQSADGDEEKQLAQIENMINQGVKVLVIGAI 90 (341)
T ss_pred hhhhccCCeEEEEcCChhH--hhhhhhhHHHHHHHHhc----cchhh--hhhhccChhHHHHHHHHHHhcCCCEEEEEec
Confidence 3456677889999886541 12222222233334333 34444 4444456666677889999883344567999
Q ss_pred ChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCc---hhHHHHHHHHHHHcC---CeEEEEEEE--cCCc
Q 002352 92 KSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLND---SSQVGAITAIIKAFG---WREAVPIYV--DNQY 163 (932)
Q Consensus 92 ~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~---~~~~~ai~~~l~~~~---w~~v~ii~~--d~~~ 163 (932)
.+.....+...+...+||+|+|.- .+.+....| |-+.-+. ..|+.++.+-++... -..+.++-. +|.-
T Consensus 91 d~~~l~~~i~~A~~~gikViaYDR---lI~n~dvd~-YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnN 166 (341)
T COG4213 91 DGGVLSNAVEKAKSEGIKVIAYDR---LINNADVDF-YVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNN 166 (341)
T ss_pred cchhHHHHHHHHHHcCCeEEEeec---ccccCCccE-EEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcc
Confidence 999999999999999999999842 233333333 2222222 234445544444333 334555542 2221
Q ss_pred C----CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-C--CceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 164 G----EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-M--QTRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 164 g----~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~--~~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
. .+....|+..+..-.+.++..... .....+.-.+.+..+.. . +.+.|+ ..+...+.-.+.+++..|+.++
T Consensus 167 A~lf~~G~m~VLkp~idsGkik~~Ge~~~-d~W~ps~Aq~~men~lta~~~~vdaVv-A~nDgtagGaI~aL~a~Gl~g~ 244 (341)
T COG4213 167 AKLFFAGAMKVLKPLIDSGKIKVVGEQWT-DGWLPSNAQQIMENLLTANYNDIDAVV-APNDGTAGGAIAALKAQGLAGK 244 (341)
T ss_pred hHHHHhcHHHHHHHHhhCCceEEeeeccc-cccCHHHHHHHHHHHHhcccCceeEEE-cCCCchhHHHHHHHHhcccCCC
Confidence 1 222333333333333444333332 23333333444444332 2 333333 3344567788888889998644
No 302
>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=87.98 E-value=19 Score=34.90 Aligned_cols=71 Identities=20% Similarity=0.259 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.+..+ .+++++.. ++.+.++..|.+|++|+++..-.. ......+ .+.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~---------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~v~ 80 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP---------GLSAELLARVDAGELDAAIVVEPP-FPLPKDL-VWTPLVREPLVLIA 80 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe---------CCcHHHHHHHHCCCCCEEEEcCCC-CccccCc-eEEEcccCcEEEEE
Confidence 455688888888876 35565544 236789999999999999763211 1101223 23567778888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 81 ~~~ 83 (195)
T cd08427 81 PAE 83 (195)
T ss_pred CCC
Confidence 754
No 303
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=87.95 E-value=21 Score=35.12 Aligned_cols=91 Identities=14% Similarity=0.104 Sum_probs=64.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCC-------hhHHHHHHHHHhcCCceEE
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLAT-------DDQIEKELYKLFTMQTRVF 212 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-------~~~~~~~l~~l~~~~~~vi 212 (932)
.|+.+-++.++.+++.++.. |-.+..+...+.+..+|..|+.....-...+ ....-...+++..-++|.+
T Consensus 107 ~Avv~aL~al~a~ri~vlTP---Y~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLTP---YIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEecc---chhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 45777889999999999875 5557788888999999999987654322111 1223345566678899999
Q ss_pred EEEeChhhHHHHHHHHHh-CCc
Q 002352 213 ILHMLPSLGSRIFEKANE-IGL 233 (932)
Q Consensus 213 il~~~~~~~~~l~~~a~~-~g~ 233 (932)
++.|..-....++....+ .|.
T Consensus 184 FiSCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 184 FISCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred EEEeeccccHHHHHHHHHHhCC
Confidence 999887766666665544 554
No 304
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=87.79 E-value=5.1 Score=39.62 Aligned_cols=105 Identities=13% Similarity=0.128 Sum_probs=64.0
Q ss_pred CCCHHHHHhCCCcEEE-EcChhHHHHH----HhcCCCcccccccC----CHHHHHHHhhcccCCCceeEEEecccccccc
Q 002352 663 ITDFQMLIKSGDNVGY-RKDSFVFGIL----KQLGFDEKKLIAYS----SPEECDELFQKGSAGGGIAAAFDEIPYTKPF 733 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~-~~~s~~~~~l----~~~~~~~~~~~~~~----~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~ 733 (932)
|++++||.+.+.++.= .+||-.+.+| .+.+.....+.-|. +.....+++..|+ .|+-+.-+ +.
T Consensus 89 i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~----AD~GvGlr----~~ 160 (223)
T COG1910 89 ISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGR----ADAGVGLR----HA 160 (223)
T ss_pred cccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCC----CCccccHH----HH
Confidence 8999999955543322 4666555444 44444455555554 4455678899999 88887743 33
Q ss_pred cccCCcceEEecccccccceEEEecCCCCChHHHHHHHHhhhccch
Q 002352 734 IGQYCSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNK 779 (932)
Q Consensus 734 ~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~ 779 (932)
.+++--+|. ++..+.|-|+++|+.--.+.+...+..|...++
T Consensus 161 A~~~gL~Fi----pl~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 161 AEKYGLDFI----PLGDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred HHHcCCceE----EcccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 334422233 345667889999976555556666666655443
No 305
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=87.76 E-value=15 Score=38.71 Aligned_cols=120 Identities=13% Similarity=0.118 Sum_probs=59.8
Q ss_pred CCCCHHHHHhCCCcEEEEcCh-h---HHHHHHhcCCC------------------c--ccccccCCHHHHHHHhhcccCC
Q 002352 662 TITDFQMLIKSGDNVGYRKDS-F---VFGILKQLGFD------------------E--KKLIAYSSPEECDELFQKGSAG 717 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s-~---~~~~l~~~~~~------------------~--~~~~~~~~~~~~~~~l~~g~~~ 717 (932)
.|+|++||. .|++|++..+. . .-.+|++.+.- + .+++.. ...+...++.+|+
T Consensus 120 ~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~g~-- 195 (271)
T PRK11063 120 KIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDDAQ-- 195 (271)
T ss_pred CCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccccc--
Confidence 489999994 47899998632 1 12244553330 1 111111 4456778888988
Q ss_pred CceeEEEecccccccccccCCcceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 718 GGIAAAFDEIPYTKPFIGQYCSKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 718 ~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
+++++...+++...-....+.-....+.-...-..+++++...-.+.+...+..++ +..+.+..++-+
T Consensus 196 --vDaa~i~~~~a~~a~~~~~~~~l~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~-s~~v~~~i~~~~ 263 (271)
T PRK11063 196 --IALAVINTTYASQIGLTPAKDGIFVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQ-SDEVYEAANKVF 263 (271)
T ss_pred --ccEEEEChHHHHHcCCCCCCCeeEECCCCCCeEEEEEECCcccCCHHHHHHHHHHc-CHHHHHHHHHHc
Confidence 99988877765532211111111222111111124555655333344444444444 444444444333
No 306
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=86.99 E-value=0.81 Score=48.99 Aligned_cols=103 Identities=13% Similarity=0.079 Sum_probs=62.8
Q ss_pred CCCCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccc-cccCCc
Q 002352 661 PTITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPF-IGQYCS 739 (932)
Q Consensus 661 ~~i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~-~~~~~~ 739 (932)
.+|++++||. |+++-+..+.....+++.++.... .-...|...+|.+|. +|+........... +.+.++
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~~~lGa~pv----~ip~~evy~aLq~G~----vDg~~~~~~~~~~~~~~ev~~ 195 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFFEALGASPV----PIPWSEVYQALQQGV----VDGAENSASSIYSLGLYEVAK 195 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHHHHCTSEEE----E-TGGGHHHHHHTTS----SSEEEEEHHHHHHTTGGGTSS
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHHHHcCCeee----cCcHHHHHHHHhcCC----cCeEecCHHHHHhcChhhhCC
Confidence 4699999999 999988767777888888876432 224567899999999 99998865443211 112255
Q ss_pred ceEEecccccccceEEEecCCC--CChHHHHHHHHhhh
Q 002352 740 KYTLIERTFETAGFGFAFPLHS--PLVPEVSRAILNVT 775 (932)
Q Consensus 740 ~l~~~~~~~~~~~~~~~~~k~s--~l~~~in~~il~l~ 775 (932)
.+...+ ....++.+++.+.. .|-+...++|.+..
T Consensus 196 y~~~~~--~~~~~~~~~~n~~~w~~L~~e~q~~l~~~~ 231 (286)
T PF03480_consen 196 YFTDTN--HGWSPYAVIMNKDWWDSLPDEDQEALDDAA 231 (286)
T ss_dssp EEEEEE--EEEEEEEEEEEHHHHHHS-HHHHHHHHHHH
T ss_pred eeEeec--ccCcceEEEEcHHHHhcCCHHHHHHHHHHH
Confidence 333333 34455666665532 24455555554443
No 307
>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=86.98 E-value=18 Score=35.39 Aligned_cols=69 Identities=14% Similarity=0.140 Sum_probs=44.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-..++..+.++.+ .+++++... +...++..|.+|++|+++.... .....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~ 78 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQV---------DPFNVGDMLDRGEIDLAIGVFG---ELPAWLK-REVLYTEGYACLF 78 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEecC---------CcccHHHHHhcCcccEEEecCC---CCcccce-eeeecccceEEEE
Confidence 455678888888876 355655432 3567889999999999985321 1122232 3577777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (200)
T cd08464 79 DPQ 81 (200)
T ss_pred eCC
Confidence 644
No 308
>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=86.91 E-value=35 Score=35.95 Aligned_cols=68 Identities=7% Similarity=0.152 Sum_probs=45.2
Q ss_pred eHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEc
Q 002352 472 SIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPI 551 (932)
Q Consensus 472 ~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~ 551 (932)
-.+++..+.++.+ .+++++.. ++..+++..|.+|++|+++..-... ...+. ..|+....+++++++
T Consensus 99 ~~~~l~~~~~~~p-~v~l~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~ 164 (279)
T TIGR03339 99 VLDLVARFRQRYP-GIEVSVRI---------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHR 164 (279)
T ss_pred HHHHHHHHHHHCC-CcEEEEEE---------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECC
Confidence 4577888888776 24555544 2367899999999999998633222 12232 367777888888875
Q ss_pred cC
Q 002352 552 KD 553 (932)
Q Consensus 552 ~~ 553 (932)
..
T Consensus 165 ~~ 166 (279)
T TIGR03339 165 QH 166 (279)
T ss_pred CC
Confidence 53
No 309
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=86.89 E-value=6.8 Score=42.50 Aligned_cols=69 Identities=7% Similarity=0.097 Sum_probs=47.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-.+++..+.++.+ .+.+++.. ++...++.+|.+|++|+++.... .....+.+ .++....+++++
T Consensus 125 ~~l~~~l~~f~~~~P-~i~l~i~~---------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~~-~~l~~~~~~lv~ 190 (314)
T PRK09508 125 RLTSQIYNRIEQIAP-NIHVVFKS---------SLNQNIEHQLRYQETEFVISYEE---FDRPEFTS-VPLFKDELVLVA 190 (314)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe---------CcchhHHHHHhcCCccEEEecCC---CCccccce-eeeecCceEEEE
Confidence 456788999999876 35566544 23578999999999999986432 12223433 467778888888
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 191 ~~~ 193 (314)
T PRK09508 191 SKN 193 (314)
T ss_pred cCC
Confidence 755
No 310
>PRK10200 putative racemase; Provisional
Probab=86.30 E-value=5.3 Score=40.99 Aligned_cols=90 Identities=12% Similarity=0.027 Sum_probs=61.3
Q ss_pred CCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHH
Q 002352 64 SKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAIT 143 (932)
Q Consensus 64 ~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~ 143 (932)
+..+|........+.+.+.|+.+|+=|..+..+. .-.+-+..++|+|+. .++.+
T Consensus 56 ~~~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~ 109 (230)
T PRK10200 56 EWDKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATG 109 (230)
T ss_pred CcchHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHH
Confidence 3346888888888888888999999877766655 566667778998873 22344
Q ss_pred HHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC-Ccee
Q 002352 144 AIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI-DTRV 182 (932)
Q Consensus 144 ~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v 182 (932)
+.++..+-++|+++...... ....+++.+.+. |.++
T Consensus 110 ~~~~~~~~~~VglLaT~~Ti---~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 110 RAITGAGMTRVALLGTRYTM---EQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHHHHcCCCeEEEeccHHHH---HHhHHHHHHHHhcCCeE
Confidence 44555577899998875442 244566666654 7665
No 311
>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=86.11 E-value=28 Score=35.13 Aligned_cols=124 Identities=19% Similarity=0.144 Sum_probs=74.6
Q ss_pred HHHhcCCeEEEEccCChhHHHHHHHhc-CCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEE
Q 002352 77 DLLNNVLVQAILGPEKSMQTNFIIQLG-NKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAV 155 (932)
Q Consensus 77 ~li~~~~v~aiiGp~~s~~a~~v~~~~-~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ 155 (932)
+.+.+.++++|+-+.++ ....+..+. ...++|+++. .++..+-++. +-++++
T Consensus 59 ~~l~~~g~d~i~i~C~s-~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~ 111 (216)
T PF01177_consen 59 EKLEKAGVDAIVIACNS-AHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIG 111 (216)
T ss_dssp HHHHHTTESEEEESSHH-HHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEE
T ss_pred HHHHhCCCCEEEEcCCc-hhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEE
Confidence 33444699999984443 334444444 5668888873 2223444445 889999
Q ss_pred EEEEcCCcCCChHHHHHHHHHhC-Cc--eeeeee--ecC----CCC-Ch---hHHHHHHHHH-hcCCceEEEEEeChhhH
Q 002352 156 PIYVDNQYGEEMIPSLTDALQAI-DT--RVPYRS--VIS----PLA-TD---DQIEKELYKL-FTMQTRVFILHMLPSLG 221 (932)
Q Consensus 156 ii~~d~~~g~~~~~~l~~~l~~~-g~--~v~~~~--~~~----~~~-~~---~~~~~~l~~l-~~~~~~viil~~~~~~~ 221 (932)
++.. ++......+.+.+++. |+ ++.... .+. ... +. ..+...+.++ +..++++|++.|..-..
T Consensus 112 vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~ 188 (216)
T PF01177_consen 112 VLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPL 188 (216)
T ss_dssp EEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGG
T ss_pred EEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHH
Confidence 9996 3335567777888887 86 444321 110 122 22 2355556655 48999999999887654
Q ss_pred H-HHHHHHHh
Q 002352 222 S-RIFEKANE 230 (932)
Q Consensus 222 ~-~l~~~a~~ 230 (932)
. ...+.+.+
T Consensus 189 ~~~~~~~l~~ 198 (216)
T PF01177_consen 189 LLGAIEALEE 198 (216)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHhhcc
Confidence 3 56655554
No 312
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=84.51 E-value=52 Score=34.97 Aligned_cols=72 Identities=18% Similarity=0.122 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+ .+.+.+... +-++++.+|.+|++|+++.... .+.....+.+ .|+....+++++
T Consensus 110 ~~l~~~l~~f~~~~p-~i~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~~-~~l~~~~~~~v~ 177 (294)
T PRK09986 110 GRLRPAMRHFLKENP-NVEWLLREL---------SPSMQMAALERRELDAGIWRMA-DLEPNPGFTS-RRLHESAFAVAV 177 (294)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEeC---------CHHHHHHHHHcCCCCEEEecCC-ccCCCCCeEE-EEeecccEEEEE
Confidence 344678888888876 345555432 2468899999999999874211 1122233443 677788888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 178 ~~~~ 181 (294)
T PRK09986 178 PEEH 181 (294)
T ss_pred cCCC
Confidence 7664
No 313
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=83.98 E-value=33 Score=35.85 Aligned_cols=70 Identities=19% Similarity=0.207 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++..+++.+|.+|++|+++..... .....+. ..+.....+++++
T Consensus 80 ~~~~~~l~~~~~~~p-~i~l~i~~---------~~~~~~~~~l~~~~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~ 146 (269)
T PRK11716 80 SHLPPILDRFRAEHP-LVEIKLTT---------GDAADAVEKVQSGEADLAIAAKPE--TLPASVA-FSPIDEIPLVLIA 146 (269)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEE---------CCHHHHHHHHHCCCccEEEEecCC--CCCcceE-EEEcccceEEEEE
Confidence 345688899998876 35555544 236789999999999999853221 1111222 2566677777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 147 ~~~ 149 (269)
T PRK11716 147 PAL 149 (269)
T ss_pred cCC
Confidence 544
No 314
>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=83.97 E-value=3.4 Score=43.42 Aligned_cols=88 Identities=15% Similarity=0.115 Sum_probs=67.7
Q ss_pred EEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 19 VNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 19 i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
=+||+|.......-.....|+...++..|.+ .++...+..+..|+..+.+.+..|+.+ ++++|.+... ...
T Consensus 121 ~kVG~I~g~~~~~~~~~~~gF~~G~~~~~p~-----~~v~~~~~g~~~D~~~a~~~a~~l~~~-G~DvI~~~~~---~~g 191 (258)
T cd06353 121 NKVGYVAAFPIPEVVRGINAFALGARSVNPD-----ATVKVIWTGSWFDPAKEKEAALALIDQ-GADVIYQHTD---SPG 191 (258)
T ss_pred CcEEEEcCcccHHHHHHHHHHHHHHHHHCCC-----cEEEEEEecCCCCcHHHHHHHHHHHHC-CCcEEEecCC---ChH
Confidence 3799998887765566778999999888855 566667777778999999999999986 9998888662 234
Q ss_pred HHHhcCCCCccEEeccc
Q 002352 99 IIQLGNKSQVPILSFSA 115 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a 115 (932)
+...+++.++..|.+..
T Consensus 192 ~~~aa~~~g~~~IG~d~ 208 (258)
T cd06353 192 VIQAAEEKGVYAIGYVS 208 (258)
T ss_pred HHHHHHHhCCEEEeecc
Confidence 55566677899998764
No 315
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=83.49 E-value=3.4 Score=45.36 Aligned_cols=71 Identities=18% Similarity=0.159 Sum_probs=49.6
Q ss_pred CCCCHHHHHhCCCcEEEEcChh-HH----HHHHhcCCCccccc-ccCCHHHHHHHhhcccCCCceeEEEecccccccccc
Q 002352 662 TITDFQMLIKSGDNVGYRKDSF-VF----GILKQLGFDEKKLI-AYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIG 735 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~-~~----~~l~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~ 735 (932)
.|++++||+ |+++|+..++. .. ..|...+.+.+.+. ..-.+.+...++..|+ ++|+..-.++......
T Consensus 127 ~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~----vda~~~~ep~~~~~~~ 200 (335)
T COG0715 127 GIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQ----VDAFVVWEPWNAAAEG 200 (335)
T ss_pred CcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCC----cceEEecCCchhhhhc
Confidence 478899998 99999988874 33 33444555544443 2334558889999999 9998887777666655
Q ss_pred cCC
Q 002352 736 QYC 738 (932)
Q Consensus 736 ~~~ 738 (932)
+.-
T Consensus 201 ~~~ 203 (335)
T COG0715 201 EGG 203 (335)
T ss_pred cCC
Confidence 553
No 316
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=83.34 E-value=1.6 Score=44.11 Aligned_cols=105 Identities=16% Similarity=0.156 Sum_probs=52.3
Q ss_pred CCcEEEEcChhHHHHHHhcCCCcccccccC-CHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEe--cc---
Q 002352 673 GDNVGYRKDSFVFGILKQLGFDEKKLIAYS-SPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLI--ER--- 746 (932)
Q Consensus 673 ~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~--~~--- 746 (932)
|++||+...|.....|.+..+...++...+ +..++++.+.+|. +||.+-...... ... - .+... ..
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 GMRVGIDPSSIDQKILTEAEFEGKNVEFVEIPYNQLLELLRSGE----IDAAIWNYDEIE--DKN-F-GLKYVPLKDDPM 185 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHHHTTS--EEEE--HHHHHHHHHHTS------EEEEE--HHC--CHH-C-TEEEEE--SSCH
T ss_pred eeEeecCCCCccHHHHHHHHhCCCceEEEEecHHHHHHHHHCCC----ccEEEECCcccc--ccc-C-CeeEEeCCchHH
Confidence 789999999998888877545544432222 5578999999999 999997654111 111 1 12222 11
Q ss_pred cccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHhc
Q 002352 747 TFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEWF 788 (932)
Q Consensus 747 ~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~~ 788 (932)
......-.++++|+.+... ..+.++.....+.++.++-.
T Consensus 186 ~~~~seAVivi~~~~~~i~---~ll~~~id~~~vl~iQ~~V~ 224 (232)
T PF14503_consen 186 SKDASEAVIVIRKDNEPIK---ALLRKLIDVEKVLEIQKKVL 224 (232)
T ss_dssp HHHTT-EEEEEETT-HHHH---HHHHHH--HHHHHHHHHHHH
T ss_pred HHhcCeeEEEEeCCCHHHH---HHHHHhcCHHHHHHHHHHHH
Confidence 1123445677888774333 33333444455666666655
No 317
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=82.92 E-value=45 Score=34.88 Aligned_cols=115 Identities=13% Similarity=0.150 Sum_probs=66.1
Q ss_pred CCCHHHHHhC-CCcEEE------EcChhHHHHHHhcCCC---cccccccCCHHHHHHHhhcccCCCceeEEEeccccccc
Q 002352 663 ITDFQMLIKS-GDNVGY------RKDSFVFGILKQLGFD---EKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKP 732 (932)
Q Consensus 663 i~s~~dL~~~-~~~vg~------~~~s~~~~~l~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~ 732 (932)
+.++++|.+. +.++++ .-|.+..+.|+..+.- ..++..-.+.++.+..|.+|. .|+.+.-...+..
T Consensus 124 ~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~v~~~l~~V~~G~----ad~g~vy~sd~~~ 199 (258)
T COG0725 124 IESLEDLLERPDVRLAIGDPKTVPAGKYAKEALELLGLWYTLKDKLVLATNVRQALAYVETGE----ADAGFVYVSDALL 199 (258)
T ss_pred cccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHHhchhhhccccEEecCcHHHHHHHHHcCC----CCeEEEEEEhhhc
Confidence 3447777764 447776 3467778888775432 236666778889999999999 7766553322221
Q ss_pred ccccCCcceEEeccccc-ccceEEEecCCCCC---hHHHHHHHHhhhccchHHHHHHHh
Q 002352 733 FIGQYCSKYTLIERTFE-TAGFGFAFPLHSPL---VPEVSRAILNVTEGNKMKEIEDEW 787 (932)
Q Consensus 733 ~~~~~~~~l~~~~~~~~-~~~~~~~~~k~s~l---~~~in~~il~l~e~G~~~~~~~~~ 787 (932)
.- .-..+..++.... ...|.+++.+++.- ...|-..+.. ..-+++.++|
T Consensus 200 ~~--~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s----~~a~~il~~~ 252 (258)
T COG0725 200 SK--KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS----PEAQEILEKY 252 (258)
T ss_pred cC--CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC----HHHHHHHHHc
Confidence 11 1112333333332 36678888887765 4444444433 2334455544
No 318
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=82.79 E-value=5.8 Score=44.35 Aligned_cols=88 Identities=11% Similarity=0.024 Sum_probs=65.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+|.+++.+++...-...+..+.+.+.|++.|+.+..-..+.++++.+++.+.+...++.++|+||-.+.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGG 98 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGG 98 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 34477788999999999988654444567889999999999876443345556777888888999999999999977655
Q ss_pred h--hHHHHHH
Q 002352 219 S--LGSRIFE 226 (932)
Q Consensus 219 ~--~~~~l~~ 226 (932)
. ++.+.+.
T Consensus 99 S~iD~AK~ia 108 (383)
T PRK09860 99 SPHDCAKGIA 108 (383)
T ss_pred hHHHHHHHHH
Confidence 4 3444443
No 319
>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=82.68 E-value=50 Score=32.27 Aligned_cols=69 Identities=12% Similarity=0.019 Sum_probs=43.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++-++++.+|.+|++|+++...... ...+. +.++....+.+++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~---------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~ 79 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ---------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGA 79 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE---------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEe
Confidence 345678888888776 35555543 2357899999999999988642211 12232 3566666766666
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 80 ~~~ 82 (198)
T cd08485 80 QKS 82 (198)
T ss_pred CCC
Confidence 544
No 320
>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=82.49 E-value=49 Score=31.99 Aligned_cols=69 Identities=17% Similarity=0.233 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.++++.+.++.+ .+++++... +..+++..|.+|++|+++...... ...+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~ 78 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSSL---------FSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPLIVVL 78 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEec---------ChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccceEEEe
Confidence 455788888888877 356666542 357899999999999988532211 12232 3667777888887
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (196)
T cd08450 79 PAD 81 (196)
T ss_pred cCC
Confidence 755
No 321
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=82.31 E-value=7 Score=43.01 Aligned_cols=92 Identities=13% Similarity=0.061 Sum_probs=73.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+|++++-++....-...+..+.+.+.|.+.|+.+..-..+.++++.+.....+..+++.++|.||-.+.+
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 45577778889999999999877777788999999999999777665666677788888888999999999999988665
Q ss_pred h--hHHHHHHHHHh
Q 002352 219 S--LGSRIFEKANE 230 (932)
Q Consensus 219 ~--~~~~l~~~a~~ 230 (932)
+ ++...+....+
T Consensus 97 S~~D~AK~i~~~~~ 110 (377)
T COG1454 97 SVIDAAKAIALLAE 110 (377)
T ss_pred cHHHHHHHHHHHhh
Confidence 5 44455444444
No 322
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=81.91 E-value=52 Score=35.06 Aligned_cols=70 Identities=13% Similarity=0.210 Sum_probs=48.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+..+++..+.++.+ .+.+.+... +.++++..|.+|++|+++..... ....+.+ .|+....+++++
T Consensus 103 ~~l~~~~~~~~~~~p-~v~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~~-~~l~~~~~~~v~ 168 (296)
T PRK09906 103 NLLPKVLPMFRLRHP-DTLIELVSL---------ITTQQEEKLRRGELDVGFMRHPV---YSDEIDY-LELLDEPLVVVL 168 (296)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEeC---------CcHHHHHHHHcCCeeEEEecCCC---CCCCceE-EEEecccEEEEe
Confidence 345678888888876 355555442 35789999999999999864332 2334443 688888999998
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 169 ~~~~ 172 (296)
T PRK09906 169 PVDH 172 (296)
T ss_pred cCCC
Confidence 7653
No 323
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=81.69 E-value=20 Score=35.94 Aligned_cols=88 Identities=15% Similarity=0.074 Sum_probs=61.7
Q ss_pred CCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcC-CCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHH
Q 002352 66 GDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGN-KSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITA 144 (932)
Q Consensus 66 ~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~-~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~ 144 (932)
.++......+.+-+++-|...|+=|.. ++..+++-.+ ..+||+|+. .++.++
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~N--T~H~~~d~iq~~~~iPllhI-------------------------idaTa~ 110 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTN--TMHKVADDIQKAVGIPLLHI-------------------------IDATAK 110 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCC--cHHHHHHHHHHhcCCCeehH-------------------------HHHHHH
Confidence 356666666666666679999997555 4555555444 678999973 566777
Q ss_pred HHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceee
Q 002352 145 IIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVP 183 (932)
Q Consensus 145 ~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 183 (932)
-+++.|-++|+++.....- .....++.|.+.|++++
T Consensus 111 ~ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 111 AIKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 7888899999999875431 23456788999997764
No 324
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=80.38 E-value=7.9 Score=43.45 Aligned_cols=81 Identities=11% Similarity=-0.054 Sum_probs=61.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.+.+.+.++.+|.+++.++....-...+..+.+.+.|++.|+.+..-..+.++++.+...+.+...++.++|+||-.+.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGG 116 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGG 116 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCCh
Confidence 34577788889988888776544444567888999999999876544344556677778888888999999999988766
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 117 S 117 (395)
T PRK15454 117 S 117 (395)
T ss_pred H
Confidence 5
No 325
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=80.25 E-value=3.4 Score=44.94 Aligned_cols=102 Identities=15% Similarity=0.180 Sum_probs=67.0
Q ss_pred CCCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccc----cccccC
Q 002352 662 TITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTK----PFIGQY 737 (932)
Q Consensus 662 ~i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~----~~~~~~ 737 (932)
+|.+.+||. |.++=+.........++..+.....+ ...|.+.+|++|. +|+.-.....+. |-.++|
T Consensus 158 PI~~peDlk--GlkiRv~~s~~~~~~~~a~GA~P~pm----~f~Evy~aLqtGv----VDGqEnp~~~i~~~k~~EVqky 227 (332)
T COG1638 158 PIKTPEDLK--GLKIRVPQSPLLLAMFKALGANPTPM----PFAEVYTALQTGV----VDGQENPLSNIYSAKLYEVQKY 227 (332)
T ss_pred CCCChHHhC--CCeeecCCCHHHHHHHHHcCCCCCCC----CHHHHHHHHHcCC----cccccCCHHHHhhccHHHHhHH
Confidence 699999999 99999999888889999887654443 4567889999999 888765532221 112222
Q ss_pred CcceEEecccccccceEEEecCC--CCChHHHHHHHHhhhccc
Q 002352 738 CSKYTLIERTFETAGFGFAFPLH--SPLVPEVSRAILNVTEGN 778 (932)
Q Consensus 738 ~~~l~~~~~~~~~~~~~~~~~k~--s~l~~~in~~il~l~e~G 778 (932)
+ ++.+.. ..++.+.+.+. ..|-+...++|++..+..
T Consensus 228 ~---t~tnH~--~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 228 L---TLTNHI--YLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred h---hhcccc--ccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 2 222222 22344555554 357777777777766654
No 326
>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=80.08 E-value=8 Score=43.76 Aligned_cols=81 Identities=15% Similarity=0.053 Sum_probs=62.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.+.+.++++.+|.+++.+++....+..+..+.+.+.|.+.|+.+..-..+..+++.+.+.+.+...++.++|+||-.+.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGG 90 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34567788899999999998766555566788999999988876543344556677788888888899999999887665
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 91 S 91 (414)
T cd08190 91 S 91 (414)
T ss_pred c
Confidence 4
No 327
>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=78.85 E-value=9.6 Score=42.46 Aligned_cols=89 Identities=10% Similarity=0.018 Sum_probs=65.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.++++.++.+++.+++.......+..+.+.+.|++.|+++..-..+..+++.+.+.+.+...+..++|+||-.+.+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 91 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGG 91 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34577788888989999988655544556888999999988877543345556677788888888889999999976654
Q ss_pred h--hHHHHHHH
Q 002352 219 S--LGSRIFEK 227 (932)
Q Consensus 219 ~--~~~~l~~~ 227 (932)
. ++..++..
T Consensus 92 SviD~aK~ia~ 102 (370)
T cd08192 92 SALDLAKAVAL 102 (370)
T ss_pred hHHHHHHHHHH
Confidence 4 44444443
No 328
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=78.52 E-value=37 Score=36.29 Aligned_cols=73 Identities=16% Similarity=0.210 Sum_probs=43.8
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEE
Q 002352 469 TGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMI 548 (932)
Q Consensus 469 ~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~l 548 (932)
.++-.+++..+.++.+ .++++... ++.+.++.+|.+|++|+++............+ ...|+.....+++
T Consensus 105 ~~~l~~~l~~f~~~~P-~i~l~~~~---------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~~ 173 (296)
T PRK11062 105 KRLVSRVLLTAVPEDE-SIHLRCFE---------STHEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSFF 173 (296)
T ss_pred HhhHHHHHHHHHhcCC-ceEEEEEe---------CCHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcceE
Confidence 3566778888877664 34444432 24688999999999999875322111111222 2346666666666
Q ss_pred EEcc
Q 002352 549 VPIK 552 (932)
Q Consensus 549 v~~~ 552 (932)
++.+
T Consensus 174 ~~~~ 177 (296)
T PRK11062 174 CTNP 177 (296)
T ss_pred ecCC
Confidence 6543
No 329
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=78.43 E-value=17 Score=40.49 Aligned_cols=89 Identities=11% Similarity=0.075 Sum_probs=64.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.+.+.+.++.+|-+++.+++.......+..+.+.+.|++.|+.+..-..+..+++.+.+.+.+..+++.++|+||-.+.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44567778888888999888655544456788999999988876544445556677788888899999999999976554
Q ss_pred h--hHHHHHHH
Q 002352 219 S--LGSRIFEK 227 (932)
Q Consensus 219 ~--~~~~l~~~ 227 (932)
. ++.+.+..
T Consensus 94 S~~D~aK~ia~ 104 (374)
T cd08189 94 SVIDCAKAIAA 104 (374)
T ss_pred cHHHHHHHHHH
Confidence 4 44444443
No 330
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=77.98 E-value=11 Score=42.31 Aligned_cols=81 Identities=17% Similarity=0.158 Sum_probs=60.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+|.+++.+++...-.-.+..+.+.+.|++.|+.+..-..+..+++.+.....+..+++.++|+||-.+.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 44577888889999999988655554557888999999998876543344455667778888888888999998876654
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 98 S 98 (382)
T PRK10624 98 S 98 (382)
T ss_pred H
Confidence 4
No 331
>PRK07475 hypothetical protein; Provisional
Probab=77.66 E-value=13 Score=38.64 Aligned_cols=85 Identities=19% Similarity=0.135 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHH
Q 002352 65 KGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITA 144 (932)
Q Consensus 65 ~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~ 144 (932)
..++......+.+.+.+.++.+|+.|. .........+.+..++|+++. ..+...
T Consensus 60 ~~~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~ 113 (245)
T PRK07475 60 DPSLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVP 113 (245)
T ss_pred CccHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHH
Confidence 346666666677777777999999954 445566677777789999861 112223
Q ss_pred HHHHc--CCeEEEEEEEcCCcCCChHHHHHHHHHhCCce
Q 002352 145 IIKAF--GWREAVPIYVDNQYGEEMIPSLTDALQAIDTR 181 (932)
Q Consensus 145 ~l~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~ 181 (932)
.++.. +-++|+++..+.. .+ ..+.+++.|+.
T Consensus 114 ~l~~~~~~~~kIGILtt~~t---~l---~~~~l~~~Gi~ 146 (245)
T PRK07475 114 LIQALLPAGQKVGILTADAS---SL---TPAHLLAVGVP 146 (245)
T ss_pred HHHHhccCCCeEEEEeCCch---hh---hHHHHHhCCCC
Confidence 33332 3689999987654 22 24667888875
No 332
>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=77.45 E-value=11 Score=42.11 Aligned_cols=89 Identities=11% Similarity=0.058 Sum_probs=64.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.++++.++.+++.+++...-...+..+.+.+.|++.|+.+.....+..+++.+.+.+.+..+++.++|+||-.+.+
T Consensus 14 l~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 93 (376)
T cd08193 14 LARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGG 93 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34567778888889999888655444556788999999998876544445556677888888999999999999887665
Q ss_pred h--hHHHHHHH
Q 002352 219 S--LGSRIFEK 227 (932)
Q Consensus 219 ~--~~~~l~~~ 227 (932)
. ++...+..
T Consensus 94 s~iD~aK~ia~ 104 (376)
T cd08193 94 SSMDVAKLVAV 104 (376)
T ss_pred hHHHHHHHHHH
Confidence 5 34444433
No 333
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=77.44 E-value=12 Score=41.75 Aligned_cols=89 Identities=13% Similarity=0.062 Sum_probs=65.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.+.+.++++.++.+++.+++....+.....+.+.+.|++.|+.+.....+..+++.+++...+..++..++|+||-.+.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 90 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGG 90 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 35577788888889999998655444467788999999988876543345556677888899999988999999877655
Q ss_pred h--hHHHHHHH
Q 002352 219 S--LGSRIFEK 227 (932)
Q Consensus 219 ~--~~~~l~~~ 227 (932)
. ++.+++..
T Consensus 91 s~~D~AK~va~ 101 (370)
T cd08551 91 SVLDTAKAIAL 101 (370)
T ss_pred hHHHHHHHHHH
Confidence 4 34444443
No 334
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=76.78 E-value=3.9 Score=45.80 Aligned_cols=88 Identities=14% Similarity=0.232 Sum_probs=69.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccCCCCCCcccccccchhhhHHHHhhhcC--cccccccchhhhHHHHHHHHHhhhhhh
Q 002352 569 DLWVTSGCFFIFIGFVVWVLEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSH--RERVISNLARFVMIVWYFVVLILTQSY 646 (932)
Q Consensus 569 ~vWl~i~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Y 646 (932)
+.|..-++.+++.++++++.|.....+-.+......-+++||...+++..| ...|..+.+|++..++-++++-+-+.=
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALP 314 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALP 314 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcc
Confidence 578888889999999999999885444333334567889999999999766 456799999999999988888777777
Q ss_pred hhhhhhhhhc
Q 002352 647 TASLSSLLTV 656 (932)
Q Consensus 647 ta~L~s~Lt~ 656 (932)
.+.|-|-++.
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 7777776654
No 335
>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=76.01 E-value=13 Score=41.46 Aligned_cols=81 Identities=16% Similarity=0.094 Sum_probs=62.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.++++.++.+++.+|+....+..+..+.+.+.|++.|+.+..-..+..+++.+.+.+.+..++..++|+||-.+.+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGG 90 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34466777777889999998655554557788999999999877544455566777788888999999999999977665
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 91 S 91 (375)
T cd08194 91 S 91 (375)
T ss_pred h
Confidence 4
No 336
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=75.94 E-value=57 Score=34.91 Aligned_cols=72 Identities=10% Similarity=0.047 Sum_probs=45.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+- +++.+.. ++..+++..|.+|++|++++.... ......+. ..++....+++++
T Consensus 105 ~~l~~~l~~~~~~~p~-i~i~i~~---------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~ 172 (300)
T PRK11074 105 DRTRQLIVDFYRHFDD-VELIIRQ---------EVFNGVWDALADGRVDIAIGATRA-IPVGGRFA-FRDMGMLSWACVV 172 (300)
T ss_pred hHHHHHHHHHHHhCCC-ceEEEEe---------hhhhHHHHHHHCCCCCEEEecCcc-CCcccccc-eeecccceEEEEE
Confidence 3445888888888773 4555543 235689999999999999863211 11112222 3567777888888
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 173 ~~~h 176 (300)
T PRK11074 173 SSDH 176 (300)
T ss_pred cCCC
Confidence 7653
No 337
>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=75.77 E-value=81 Score=30.64 Aligned_cols=69 Identities=12% Similarity=0.168 Sum_probs=45.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .++++... ++..++..+|.+|++|+++.. .+.....+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~---------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~ 78 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELRE---------LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLAL 78 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEe---------cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEE
Confidence 344688888888876 35565544 246789999999999998853 222222333 3566777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (197)
T cd08452 79 PKQ 81 (197)
T ss_pred eCC
Confidence 654
No 338
>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=75.57 E-value=13 Score=41.57 Aligned_cols=81 Identities=14% Similarity=0.079 Sum_probs=60.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+|.+++.+++.....-.+..+.+.+.|++.|+.+..-..+..+++.+...+.+..+++.++|+||-.+.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGG 96 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGG 96 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 44567778888989999988655444457888999999989876543344455667778888888889999999977665
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 97 S 97 (379)
T TIGR02638 97 S 97 (379)
T ss_pred H
Confidence 4
No 339
>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=75.31 E-value=13 Score=41.37 Aligned_cols=89 Identities=11% Similarity=0.073 Sum_probs=68.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
+.+.+.++.+| ++.+|+...-...+..+.+.+.|++.|+.+..-..+...++.+++...+..+++.++|+||-.+.+.
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 34677778887 9999997644444578999999999999887666667777888999999999999999999887766
Q ss_pred --hHHHHHHHHHh
Q 002352 220 --LGSRIFEKANE 230 (932)
Q Consensus 220 --~~~~l~~~a~~ 230 (932)
++.+++.....
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 44555555444
No 340
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=75.23 E-value=5.3 Score=49.82 Aligned_cols=54 Identities=15% Similarity=0.294 Sum_probs=46.5
Q ss_pred cccchhhhHHHHhhhcC-cc-cccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhc
Q 002352 603 QVGTSFWFSFSTMVFSH-RE-RVISNLARFVMIVWYFVVLILTQSYTASLSSLLTV 656 (932)
Q Consensus 603 ~~~~~~~~~~~~l~~~~-~~-~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 656 (932)
+...++||++.+|+..| ++ .|.+...|++.++|+++++++.++..+++++++..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45568999999999766 44 56899999999999999999999999999998754
No 341
>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=74.96 E-value=40 Score=32.89 Aligned_cols=136 Identities=14% Similarity=0.190 Sum_probs=79.0
Q ss_pred EEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCch
Q 002352 57 LLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDS 136 (932)
Q Consensus 57 l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~ 136 (932)
+++.+++. +-..++..+.+++.++++.+||.-.. .+ .-+-+..++|+|...- +..
T Consensus 10 ~~i~v~~~--~~e~~v~~a~~~~~~~g~dViIsRG~--ta---~~lr~~~~iPVV~I~~------------------s~~ 64 (176)
T PF06506_consen 10 AEIDVIEA--SLEEAVEEARQLLESEGADVIISRGG--TA---ELLRKHVSIPVVEIPI------------------SGF 64 (176)
T ss_dssp SEEEEEE----HHHHHHHHHHHHTTTT-SEEEEEHH--HH---HHHHCC-SS-EEEE---------------------HH
T ss_pred ceEEEEEe--cHHHHHHHHHHhhHhcCCeEEEECCH--HH---HHHHHhCCCCEEEECC------------------CHh
Confidence 44555554 45588889999955669999997222 22 3344556899998432 222
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM 216 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 216 (932)
...+++... +.++ ++++++...+.. .....+.+.+ |..+..... .+.+++...+.++++.+.++|+=..
T Consensus 65 Dil~al~~a-~~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~~----~~~~e~~~~i~~~~~~G~~viVGg~ 133 (176)
T PF06506_consen 65 DILRALAKA-KKYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYPY----DSEEEIEAAIKQAKAEGVDVIVGGG 133 (176)
T ss_dssp HHHHHHHHC-CCCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEEE----SSHHHHHHHHHHHHHTT--EEEESH
T ss_pred HHHHHHHHH-HhcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEEE----CCHHHHHHHHHHHHHcCCcEEECCH
Confidence 333333332 2333 799999876554 2255566665 556654433 3577899999999999999887543
Q ss_pred ChhhHHHHHHHHHhCCcc
Q 002352 217 LPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 217 ~~~~~~~l~~~a~~~g~~ 234 (932)
. ..+.|++.|+.
T Consensus 134 ~------~~~~A~~~gl~ 145 (176)
T PF06506_consen 134 V------VCRLARKLGLP 145 (176)
T ss_dssp H------HHHHHHHTTSE
T ss_pred H------HHHHHHHcCCc
Confidence 2 35677888874
No 342
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=73.85 E-value=87 Score=32.75 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=38.9
Q ss_pred HHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCc-ccEEEeeeeeecccc---cccc-cc-ccccccCeEE
Q 002352 474 AVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGK-FDAVVGDTTILANRS---KFVE-FT-LPYTESGVSM 547 (932)
Q Consensus 474 dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~-~D~~~~~~~it~~R~---~~vd-fs-~p~~~~~~~~ 547 (932)
++.+.+.++.|.++.+++ - .-..+..++.+|. +|+.+.+-.-..++. ..+. .+ .+|....+++
T Consensus 43 ~l~~~Fe~~~g~~v~~~~--~---------~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 43 DIAAQYKKEKGVDVVSSF--A---------SSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHhhhCCeEEEEe--c---------ccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 455666666664443333 1 1236778888877 899877542222222 2221 11 3577778888
Q ss_pred EEEccC
Q 002352 548 IVPIKD 553 (932)
Q Consensus 548 lv~~~~ 553 (932)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888763
No 343
>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=73.57 E-value=90 Score=30.12 Aligned_cols=69 Identities=16% Similarity=0.102 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++.. ++.+.+..++.+|++|+++... +.....+ .+.+......++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~---------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~ 78 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE---------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAV 78 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe---------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEe
Confidence 456788888888876 24555543 2468899999999999998532 1112222 23566677777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 79 ~~~ 81 (198)
T cd08447 79 PAG 81 (198)
T ss_pred cCC
Confidence 644
No 344
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=73.50 E-value=18 Score=38.35 Aligned_cols=97 Identities=15% Similarity=0.016 Sum_probs=76.8
Q ss_pred CCCCceEecccCchhHHHHH----HHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHH
Q 002352 123 IRSSYFFRGSLNDSSQVGAI----TAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIE 198 (932)
Q Consensus 123 ~~~p~~~r~~ps~~~~~~ai----~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~ 198 (932)
+..+|-|-+.|+....+++. +..++..|.|++.++...+.--....+..++.|.++|+++..-....++++...+.
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 34567778888877665543 44568899999999998777667778889999999999887555566677888899
Q ss_pred HHHHHHhcCCceEEEEEeChh
Q 002352 199 KELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 199 ~~l~~l~~~~~~viil~~~~~ 219 (932)
..+.-.+..+.|.++..+.+.
T Consensus 118 ~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHhcccceEEEEcCcc
Confidence 999999999999998876654
No 345
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=72.30 E-value=19 Score=40.24 Aligned_cols=81 Identities=11% Similarity=0.048 Sum_probs=60.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.++++.+|.+++.+++.......+..+.+.+.|.+.|+.+.....+..+++.+++.+.+..++..++|+||-.+.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 95 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGG 95 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44577778888889999988654444456788999999888876543334445667778888888888999999987665
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 96 s 96 (377)
T cd08188 96 S 96 (377)
T ss_pred h
Confidence 4
No 346
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=71.29 E-value=1e+02 Score=32.52 Aligned_cols=122 Identities=11% Similarity=0.066 Sum_probs=60.7
Q ss_pred CCCCCCHHHHHhCCCcEEEEcC--hhHHH--HHHhcC---------CC---------cccccc-cCCHHHHHHHhhcccC
Q 002352 660 QPTITDFQMLIKSGDNVGYRKD--SFVFG--ILKQLG---------FD---------EKKLIA-YSSPEECDELFQKGSA 716 (932)
Q Consensus 660 ~~~i~s~~dL~~~~~~vg~~~~--s~~~~--~l~~~~---------~~---------~~~~~~-~~~~~~~~~~l~~g~~ 716 (932)
...++|++||. .|.+|++..+ ...+. +|+..+ .. +.++.. .-...+...++..|+
T Consensus 119 s~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~~~~q~~~al~dg~- 196 (272)
T PRK09861 119 SKKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMELEGAQLPRVLDDPK- 196 (272)
T ss_pred ccCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEcCHHHhHhhccCcc-
Confidence 34599999995 5779999873 33232 233322 10 011111 114456778888888
Q ss_pred CCceeEEEecccccccccccCC-cceEEecccccccceEEEecCCCCChHHHHHHHHhhhccchHHHHHHHh
Q 002352 717 GGGIAAAFDEIPYTKPFIGQYC-SKYTLIERTFETAGFGFAFPLHSPLVPEVSRAILNVTEGNKMKEIEDEW 787 (932)
Q Consensus 717 ~~g~~a~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~s~l~~~in~~il~l~e~G~~~~~~~~~ 787 (932)
+++++...+++.- ..... ..-.............++++.+..=.+.+.+.+..++....-+.+.++|
T Consensus 197 ---vD~a~i~~~~~~~-ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 197 ---VDVAIISTTYIQQ-TGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred ---cCEEEEchhHHHH-cCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 8888877665532 00111 1111111111111224455554444556666666666554444454443
No 347
>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=71.12 E-value=61 Score=31.51 Aligned_cols=100 Identities=9% Similarity=0.029 Sum_probs=66.1
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC--CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEE
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIL 214 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 214 (932)
.....+.+.+...++ ++.++-.+.+ ..+.+.+.+++. |+.|+....- ..+..+....++.|.++++|++++
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g--~f~~~~~~~i~~~I~~~~pdiv~v 107 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHG--YFDEEEEEAIINRINASGPDIVFV 107 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCC--CCChhhHHHHHHHHHHcCCCEEEE
Confidence 345556666655554 7888776543 456666666665 6777765432 225567778899999999999999
Q ss_pred EeChhhHHHHHHHHHhCCccccceEEEEeccc
Q 002352 215 HMLPSLGSRIFEKANEIGLMNKGCVWIMTEGM 246 (932)
Q Consensus 215 ~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~ 246 (932)
.+..+.-..++...++.. ... +||...+.
T Consensus 108 glG~PkQE~~~~~~~~~l--~~~-v~i~vG~~ 136 (172)
T PF03808_consen 108 GLGAPKQERWIARHRQRL--PAG-VIIGVGGA 136 (172)
T ss_pred ECCCCHHHHHHHHHHHHC--CCC-EEEEECch
Confidence 998887777777766633 122 56655443
No 348
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=70.67 E-value=20 Score=40.07 Aligned_cols=86 Identities=8% Similarity=-0.023 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCC-cCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQ-YGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
..+.++++.+| +++.+|+.... ...+..+.+.+.|++.|+++..-..+.++++.+++.+.+..+++.++|+||-.+.+
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 44667777788 89988886544 24567888999999999877543345556777788888888888999999976654
Q ss_pred h--hHHHHHH
Q 002352 219 S--LGSRIFE 226 (932)
Q Consensus 219 ~--~~~~l~~ 226 (932)
. ++.+.+.
T Consensus 94 S~iD~aK~ia 103 (380)
T cd08185 94 SSMDTAKAIA 103 (380)
T ss_pred cHHHHHHHHH
Confidence 4 3444443
No 349
>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=70.05 E-value=8.6 Score=40.09 Aligned_cols=78 Identities=15% Similarity=0.169 Sum_probs=58.4
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe-ChhhHHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM-LPSLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~l~~~a~~ 230 (932)
|++|.. ++.|.......+++++++.|..+... .+...+.......++++.+.++|.||+.. ++.....+++++.+
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 45677778889999999999888765 22234455666788888889999999874 45567889999999
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 987
No 350
>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=69.91 E-value=23 Score=39.23 Aligned_cols=79 Identities=11% Similarity=0.028 Sum_probs=58.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcC-CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYG-EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.-+.++++.+| +++.+++....+- .+..+.+.+.|++.|+.+..-..+..+++.+++...+..+++.++|+||-.+.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34567778888 8888887654422 345688999999999876544345556777888888889999999999988766
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 94 S 94 (357)
T cd08181 94 S 94 (357)
T ss_pred h
Confidence 5
No 351
>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=68.30 E-value=21 Score=39.78 Aligned_cols=81 Identities=15% Similarity=0.108 Sum_probs=59.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+|-+++.+++.......+..+.+.+.|++.|+.+..-..+..+++.+.+...+..+++.++|+||-.+.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 95 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGG 95 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34567778888888888887544433466888999999888876543345556677778888888888999999977665
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 96 S 96 (377)
T cd08176 96 S 96 (377)
T ss_pred H
Confidence 4
No 352
>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=68.14 E-value=26 Score=39.20 Aligned_cols=87 Identities=15% Similarity=0.057 Sum_probs=59.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
.-+.++++.+| +++.+++....+..+..+.+.+.|++.|+.+..-..+.+..+..+....+...++.++|+||-.+.+.
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 44677788888 88888885444434678889999999988764333333344566677777777888999998876654
Q ss_pred --hHHHHHHH
Q 002352 220 --LGSRIFEK 227 (932)
Q Consensus 220 --~~~~l~~~ 227 (932)
++..++..
T Consensus 91 ~iD~aK~ia~ 100 (386)
T cd08191 91 CIDLAKIAGL 100 (386)
T ss_pred HHHHHHHHHH
Confidence 34444443
No 353
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=67.28 E-value=44 Score=35.86 Aligned_cols=59 Identities=25% Similarity=0.255 Sum_probs=38.8
Q ss_pred CCCHHHHHhCCCcEEE-EcCh----hHHHHHHhcCCCcccccc--cCCHHHHHHHhhcccCCCceeEEEecc
Q 002352 663 ITDFQMLIKSGDNVGY-RKDS----FVFGILKQLGFDEKKLIA--YSSPEECDELFQKGSAGGGIAAAFDEI 727 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~-~~~s----~~~~~l~~~~~~~~~~~~--~~~~~~~~~~l~~g~~~~g~~a~~~~~ 727 (932)
|+++.||. ||+|.+ ..|| ..+..|+..+.....+.. .-...+..+++.+|+ +||++.-.
T Consensus 129 Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~g~----iDA~~~~~ 194 (321)
T COG2358 129 IKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKNGT----IDAAFYVA 194 (321)
T ss_pred cceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhCCc----ccEEEEec
Confidence 89999999 999887 3333 334556666665443322 112234578899999 99987653
No 354
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=66.88 E-value=1.7e+02 Score=31.49 Aligned_cols=69 Identities=10% Similarity=0.157 Sum_probs=45.6
Q ss_pred eHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEc
Q 002352 472 SIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPI 551 (932)
Q Consensus 472 ~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~ 551 (932)
-.+++..+.++.+. +.+++... +..++...|.+|++|++++... .......+. ..+.....++++++.
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~~---------~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~-~~~l~~~~~~~v~~~ 175 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISRQ---------IYMGVWDSLLYEGFSLAIGVTG-TEALANTFS-LDPLGSVQWRFVMAA 175 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEee---------hhhhHHHHHhCCCccEEEeccc-CccccCCee-EEEecceeEEEEECC
Confidence 35788999988874 56665442 3578899999999999886211 111122333 357777888888765
Q ss_pred c
Q 002352 552 K 552 (932)
Q Consensus 552 ~ 552 (932)
.
T Consensus 176 ~ 176 (308)
T PRK10094 176 D 176 (308)
T ss_pred C
Confidence 4
No 355
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=66.47 E-value=95 Score=29.92 Aligned_cols=70 Identities=16% Similarity=0.028 Sum_probs=45.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... +.+.++.+|.+|++|+++..... .....+ .+.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~ 79 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSEE---------VLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAV 79 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEEe---------ccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEE
Confidence 456788999999886 356666542 24688999999999998853211 111122 24566677777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 80 ~~~ 82 (195)
T cd08431 80 APN 82 (195)
T ss_pred cCC
Confidence 654
No 356
>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=66.09 E-value=20 Score=39.55 Aligned_cols=77 Identities=14% Similarity=0.063 Sum_probs=57.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
..+.++++.++ +++.+++....+. ...+.+.+.|++.|+.+.+. .+..+++.+++.+.++..++.++|+||-.+.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 34667777776 8988888544443 67888889999999887643 355566777888888888889999988876655
No 357
>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=65.75 E-value=46 Score=36.35 Aligned_cols=100 Identities=15% Similarity=0.103 Sum_probs=64.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
..+.+.++.++.+++.+|+....+. ...+.+.+.+++. +.+.....+..+.+.++....+..+++.++|+||-.+.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 89 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGS 89 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCch
Confidence 3466777888889999998544433 6777888888876 5544333333445677788888888888999998776554
Q ss_pred --hHHHHHHHHHhCCccccceEEEEec
Q 002352 220 --LGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 220 --~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
++..++......|+ .++-|-|.
T Consensus 90 ~~D~aK~ia~~~~~~~---p~i~iPTt 113 (332)
T cd07766 90 TLDTAKAVAALLNRGL---PIIIVPTT 113 (332)
T ss_pred HHHHHHHHHHHhcCCC---CEEEEeCC
Confidence 34445444433343 34444443
No 358
>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=63.23 E-value=33 Score=38.12 Aligned_cols=85 Identities=13% Similarity=0.137 Sum_probs=59.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
.-+.+.++.+|.+++.+|+....+ ....+.+.+++.|+.+.....+..+++.+.....+..+++.++|+||-.+.+.
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 446677888888999999865544 45677888888887665443455556667788888888888999998776554
Q ss_pred --hHHHHHHH
Q 002352 220 --LGSRIFEK 227 (932)
Q Consensus 220 --~~~~l~~~ 227 (932)
++..++..
T Consensus 89 ~~D~aK~ia~ 98 (367)
T cd08182 89 VLDTAKALAA 98 (367)
T ss_pred HHHHHHHHHH
Confidence 44444443
No 359
>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=63.11 E-value=74 Score=28.27 Aligned_cols=85 Identities=15% Similarity=0.135 Sum_probs=43.7
Q ss_pred HHHHcCCeEEEEEEEcCCc-CCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHH
Q 002352 145 IIKAFGWREAVPIYVDNQY-GEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSR 223 (932)
Q Consensus 145 ~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~ 223 (932)
-++..|.+.|.-+..|.+- +......+.++.++.|+...+.-......+.+++....+.|......|++.+-++..+..
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~ 101 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASA 101 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHH
Confidence 3455899999999887553 445566788899999998776544333344555555555555444344444445555655
Q ss_pred HHHHHH
Q 002352 224 IFEKAN 229 (932)
Q Consensus 224 l~~~a~ 229 (932)
++..++
T Consensus 102 l~~l~~ 107 (110)
T PF04273_consen 102 LWALAQ 107 (110)
T ss_dssp HHHHHH
T ss_pred HHHHHh
Confidence 555443
No 360
>PRK10537 voltage-gated potassium channel; Provisional
Probab=62.95 E-value=16 Score=40.77 Aligned_cols=56 Identities=20% Similarity=0.250 Sum_probs=43.3
Q ss_pred cccccccchhhhHHHHhhhcC--cccccccchhhhHHHHHHHHHhhhhhhhhhhhhhh
Q 002352 599 PAQHQVGTSFWFSFSTMVFSH--RERVISNLARFVMIVWYFVVLILTQSYTASLSSLL 654 (932)
Q Consensus 599 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~L 654 (932)
+...++.+++|+++.++...| ...|.+..+|++.++++++++.+..+..+.++..+
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345688999999999998766 33568888999999999999887766666665544
No 361
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=62.92 E-value=30 Score=35.89 Aligned_cols=99 Identities=17% Similarity=0.197 Sum_probs=57.8
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh
Q 002352 141 AITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL 220 (932)
Q Consensus 141 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~ 220 (932)
-+.++++.++.+++.+|+..+.|. ...+.+.+.+++.|+++..........+..+......+++..++++||-.+.+..
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~~-~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~i 87 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTYK-AAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGTI 87 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHHH-HHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHHH-HHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcHH
Confidence 356778888889999999766543 3467788899999998874432222344555666666776778888777777664
Q ss_pred HHHHHH-HHHhCCccccceEEEEec
Q 002352 221 GSRIFE-KANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 221 ~~~l~~-~a~~~g~~~~~~~wi~t~ 244 (932)
. .+.+ .|.+.|+ .|+-+-|.
T Consensus 88 ~-D~~K~~A~~~~~---p~isVPTa 108 (250)
T PF13685_consen 88 I-DIAKYAAFELGI---PFISVPTA 108 (250)
T ss_dssp H-HHHHHHHHHHT-----EEEEES-
T ss_pred H-HHHHHHHHhcCC---CEEEeccc
Confidence 3 4444 4666554 45555553
No 362
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=62.77 E-value=2.1e+02 Score=30.34 Aligned_cols=184 Identities=15% Similarity=0.178 Sum_probs=102.4
Q ss_pred EEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHH
Q 002352 19 VNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNF 98 (932)
Q Consensus 19 i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~ 98 (932)
=.||.||.-++. +-+.+++.|+.++-.+. +-+.--|.+-.-.+.+.-..+.+.+ =+++|.--..+. ..
T Consensus 45 k~laliFeK~ST---RTR~SFeva~~qlGg~~------~~l~~~~~Qlgr~Esi~DTArVLsr-~~D~I~~R~~~~--~~ 112 (310)
T COG0078 45 KNLALIFEKTST---RTRVSFEVAATQLGGHA------IYLGPGDSQLGRGESIKDTARVLSR-MVDAIMIRGFSH--ET 112 (310)
T ss_pred ceEEEEecCCCc---hhhhhHHHHHHHcCCCe------EEeCCCccccCCCCcHHHHHHHHHh-hhheEEEecccH--HH
Confidence 358888887763 33677888888764332 2222223221111222333333443 455555433332 26
Q ss_pred HHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHH---HHcC-CeEEEEEEEcCCcCCChHHHHHHH
Q 002352 99 IIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAII---KAFG-WREAVPIYVDNQYGEEMIPSLTDA 174 (932)
Q Consensus 99 v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l---~~~~-w~~v~ii~~d~~~g~~~~~~l~~~ 174 (932)
+..+++...||+|. .|++..+| .+++|+++ .++| -+..-+.|.-|. .....++...
T Consensus 113 ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg--NNv~nSl~~~ 172 (310)
T COG0078 113 LEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG--NNVANSLLLA 172 (310)
T ss_pred HHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc--chHHHHHHHH
Confidence 77889999999996 35554444 56778876 4565 233444443332 6788999999
Q ss_pred HHhCCceeeeeeecCCCCChhHHHHHHHHHh-cCCceEEEEEeChhhHHHHHHHHHhCCccccceEEEEecccchh
Q 002352 175 LQAIDTRVPYRSVISPLATDDQIEKELYKLF-TMQTRVFILHMLPSLGSRIFEKANEIGLMNKGCVWIMTEGMTNL 249 (932)
Q Consensus 175 l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~-~~~~~viil~~~~~~~~~l~~~a~~~g~~~~~~~wi~t~~~~~~ 249 (932)
.+..|..+.....-.. ..++++....+++. .++.. |.+.-++..+ ++.. . .|.||.|.+.
T Consensus 173 ~a~~G~dv~ia~Pk~~-~p~~~~~~~a~~~a~~~g~~-i~~t~d~~eA------v~gA----D---vvyTDvWvSM 233 (310)
T COG0078 173 AAKLGMDVRIATPKGY-EPDPEVVEKAKENAKESGGK-ITLTEDPEEA------VKGA----D---VVYTDVWVSM 233 (310)
T ss_pred HHHhCCeEEEECCCcC-CcCHHHHHHHHHHHHhcCCe-EEEecCHHHH------hCCC----C---EEEecCcccC
Confidence 9999988765433222 23455666666543 33333 3344444433 1221 1 6788888754
No 363
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=62.34 E-value=2.2e+02 Score=30.37 Aligned_cols=178 Identities=12% Similarity=0.073 Sum_probs=98.6
Q ss_pred EEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEc--c--CChh
Q 002352 19 VNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILG--P--EKSM 94 (932)
Q Consensus 19 i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiG--p--~~s~ 94 (932)
-+++++.--+......+.....-+.+++ |.+.++.-.+...+..+..+...++=+++.|++|+= | ..-.
T Consensus 32 P~Laii~vg~d~as~~Yv~~k~k~~~~~-------Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id 104 (295)
T PRK14174 32 PGLTVIIVGEDPASQVYVRNKAKSCKEI-------GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQID 104 (295)
T ss_pred CeEEEEEeCCChHHHHHHHHHHHHHHHc-------CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCC
Confidence 3566666555544445555555555544 466777666766666666666667666677888874 3 2323
Q ss_pred HHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcC----CeEEEEEEEcCCcCCChHHH
Q 002352 95 QTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFG----WREAVPIYVDNQYGEEMIPS 170 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~----w~~v~ii~~d~~~g~~~~~~ 170 (932)
.-.....+.-..+|=-+++.....-+.+...+.|. +.-..++.+++++|+ -+++++|-....-|+.++.-
T Consensus 105 ~~~i~~~I~p~KDVDGl~~~n~g~l~~~~~~~~~~------PcTp~ail~ll~~y~i~l~Gk~vvViGrS~iVG~Pla~l 178 (295)
T PRK14174 105 EFAVTLAIDPAKDVDGFHPENLGRLVMGHLDKCFV------SCTPYGILELLGRYNIETKGKHCVVVGRSNIVGKPMANL 178 (295)
T ss_pred HHHHHhcCCccccccccChhhHHHHhcCCCCCCcC------CCCHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHH
Confidence 33333334444444333321111111111012221 223668899999886 58999998878878777666
Q ss_pred HHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 171 LTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 171 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
|.+.++..|.+|+.... .+.++...+ .++|++|......
T Consensus 179 L~~~~~~~~atVt~~hs-----~t~~l~~~~-----~~ADIvI~Avg~~ 217 (295)
T PRK14174 179 MLQKLKESNCTVTICHS-----ATKDIPSYT-----RQADILIAAIGKA 217 (295)
T ss_pred HHhccccCCCEEEEEeC-----CchhHHHHH-----HhCCEEEEecCcc
Confidence 66555556766654432 122333332 4588998887433
No 364
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=61.93 E-value=29 Score=36.36 Aligned_cols=77 Identities=6% Similarity=0.128 Sum_probs=53.9
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHML-PSLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~l~~~a~~ 230 (932)
|+++.. ++.|.......+.+++++.|.++..... ..+.....+.+..+.+.+.|.||+... .......++.+.+
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 4677777889999999999998765321 223334456777777789999998753 3334567788888
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 79 ~~i 81 (273)
T cd06305 79 AGI 81 (273)
T ss_pred cCC
Confidence 775
No 365
>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=61.55 E-value=37 Score=38.04 Aligned_cols=87 Identities=15% Similarity=0.095 Sum_probs=60.5
Q ss_pred HHHHHHHHHc---CCeEEEEEEEcCCcC-CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEE
Q 002352 140 GAITAIIKAF---GWREAVPIYVDNQYG-EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILH 215 (932)
Q Consensus 140 ~ai~~~l~~~---~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 215 (932)
..+.++++.+ |.+++.+++...... .+..+.+.+.|++.|+.+..-..+.++++.+++...+..++..++|+||-.
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 4466667776 778999888544332 455688899999988876543345556677788888888888999999876
Q ss_pred eChh--hHHHHHH
Q 002352 216 MLPS--LGSRIFE 226 (932)
Q Consensus 216 ~~~~--~~~~l~~ 226 (932)
+.+. ++..++.
T Consensus 92 GGGS~iD~aK~ia 104 (383)
T cd08186 92 GGGSPIDSAKSAA 104 (383)
T ss_pred CCccHHHHHHHHH
Confidence 5544 3444443
No 366
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=60.89 E-value=2.6e+02 Score=30.71 Aligned_cols=204 Identities=12% Similarity=0.068 Sum_probs=100.0
Q ss_pred CCccEEEEEEEeCCC----ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEec-CCC-CHHHHHHHHHHHHhcCCeEEEE
Q 002352 15 TTIPVNVGLVLDMNG----EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRN-SKG-DVVAAAAAALDLLNNVLVQAIL 88 (932)
Q Consensus 15 ~~~~i~IG~i~~~s~----~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D-~~~-~~~~a~~~a~~li~~~~v~aii 88 (932)
+..+.+...++...+ .+.+....|.+.+-++.+ .+++....+ ... +.........++.++ +...|+
T Consensus 31 ~~~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~g-------~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-g~~lI~ 102 (345)
T COG1744 31 AAGKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKELG-------LKVETYYWEYVQSDSEADYERALRALAED-GYDLIF 102 (345)
T ss_pred ccccceEEEEEecCCCCccchhHHHHHHHHHHHHHhC-------CceEeeeeeecCCcchhHHHHHHHHHHhc-CCCEEE
Confidence 334444444444444 333444455554444332 334443222 222 344555556666655 778888
Q ss_pred ccCChhHHHHHHHhcCCC-CccEEecccCCCCccC--CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEE-cCCcC
Q 002352 89 GPEKSMQTNFIIQLGNKS-QVPILSFSATSPSLTS--IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYV-DNQYG 164 (932)
Q Consensus 89 Gp~~s~~a~~v~~~~~~~-~iP~Is~~a~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~-d~~~g 164 (932)
|... ....++..++.++ ++..+-. +..... .-..+.||..- ...++-.+|..+.+ -.+++.|.. +-+--
T Consensus 103 ~~gf-~~~d~~~~va~~~Pd~~F~ii---d~~~~~~~Nv~s~~f~~~e-gayL~G~~AA~~sk--~~~vG~vgg~~~p~v 175 (345)
T COG1744 103 GTGF-AFSDALEKVAAEYPDVKFVII---DGVVKKEDNVASYVFREYE-GAYLAGVAAAKMSK--SGKVGFVGGMDIPEV 175 (345)
T ss_pred Eecc-chhhHHHHHHHHCCCCEEEEe---cCccCCCCceEEEEecccc-HHHHHHHHHHHhhc--CCceeEEecccchhh
Confidence 7444 3455556666555 3333332 222222 12345566533 23334444444433 235665553 33333
Q ss_pred CChHHHHHHHHHhCCceeeeeeecCCCCChh-HHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCcc
Q 002352 165 EEMIPSLTDALQAIDTRVPYRSVISPLATDD-QIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLM 234 (932)
Q Consensus 165 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~-~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~ 234 (932)
......|..-.+..+-.+.....+.-+..+. .=......|.+.++|||+-++.+... -.+.+|++.|..
T Consensus 176 ~~f~~gF~~Gak~~np~i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~-gv~~~A~~~~~~ 245 (345)
T COG1744 176 NRFINGFLAGAKSVNPDIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGV-GVFQAAKELGAY 245 (345)
T ss_pred HHHHHHHHHHHHhhCCCccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcc-hHHHHHHHhCCC
Confidence 4556667666665543332222221122222 22236667778999999888776644 333378887753
No 367
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=60.86 E-value=1.7e+02 Score=32.19 Aligned_cols=173 Identities=10% Similarity=0.060 Sum_probs=94.6
Q ss_pred CCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCC
Q 002352 28 NGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQ 107 (932)
Q Consensus 28 s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~ 107 (932)
+|..|.....+.+++ +.+ .+.+.+.|.-.....+..+..++ .++. .=--|.--.....+.+.+.+.+
T Consensus 5 sGf~gD~~~a~~~l~-----~~g-----~~d~l~~d~LaE~tma~~~~~~~-~~p~--~gY~~~~~~~L~~~L~~~~~~g 71 (362)
T PF07287_consen 5 SGFWGDRPDAAVRLA-----RGG-----DVDYLVGDYLAERTMAILARAKR-KDPT--KGYAPDFVRDLRPLLPAAAEKG 71 (362)
T ss_pred cccccCcHHHHHHHH-----hcC-----CCCEEEEecHHHHHHHHHHHHHh-hCCC--CCchHHHHHHHHHHHHHHHhCC
Confidence 456666666666665 122 47788888765554454443333 2212 1111223334557777888899
Q ss_pred ccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCC-eEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeee
Q 002352 108 VPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGW-REAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRS 186 (932)
Q Consensus 108 iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~ 186 (932)
||+|+-++.. +....++.+.++++..|. -+|++|+.|+. .+.+.+.++ .|..+..-.
T Consensus 72 IkvI~NaGg~----------------np~~~a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~-~g~~~~~l~ 129 (362)
T PF07287_consen 72 IKVITNAGGL----------------NPAGCADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLA-EGETIRPLD 129 (362)
T ss_pred CCEEEeCCCC----------------CHHHHHHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHh-CCCCCccCC
Confidence 9999854321 223368888888888776 58888987765 344444443 221111100
Q ss_pred ecCC-CC-----C----hhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCCcccc
Q 002352 187 VISP-LA-----T----DDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 187 ~~~~-~~-----~----~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g~~~~ 236 (932)
.-+. .. . .--...+++.|+ .++||||..=..+.+..+--.+.+.|+...
T Consensus 130 ~~~~l~~~~~~~~~a~aylGa~pI~~AL~-~GADIVI~GR~~D~Al~~a~~~~~~GW~~~ 188 (362)
T PF07287_consen 130 TGPPLSEWDDRIVSANAYLGAEPIVEALE-AGADIVITGRVADPALFAAPAIHEFGWSED 188 (362)
T ss_pred CCCCcchhccccceEEEecChHHHHHHHH-cCCCEEEeCcccchHHHHhHHHHHcCCCcc
Confidence 0000 00 0 000223334433 679999887666666666667778887544
No 368
>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=60.85 E-value=38 Score=37.92 Aligned_cols=79 Identities=9% Similarity=0.105 Sum_probs=57.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCc-CCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQY-GEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
+.+.+.++.++ +++.+|.....+ ..+..+.+.+.|++.|+++..-..+..+++.+.....+..++..++|+||-.+.+
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 44667777775 888888754333 2456788999999988876544344556667778888888899999999877655
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 97 S 97 (382)
T cd08187 97 S 97 (382)
T ss_pred H
Confidence 4
No 369
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=60.34 E-value=2.7e+02 Score=30.80 Aligned_cols=150 Identities=9% Similarity=0.034 Sum_probs=91.7
Q ss_pred EEEEEEEeCCCccchh-HHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 19 VNVGLVLDMNGEDGKI-ALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 19 i~IG~i~~~s~~~g~~-~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
++|-+|.|..|..-+. ...-++...+....... + ++.+......+++...+++..+-+.+.+|.+.+=-.++....
T Consensus 213 l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~--~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~ 289 (388)
T COG0426 213 LKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPK--G-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPS 289 (388)
T ss_pred cCccEEEcCCCceeeCCHHHHHHHHHHHHccCCc--c-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHH
Confidence 6799999999955332 23333444444433321 2 566666666778888888777777777888877655555454
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA 177 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 177 (932)
.+........-.+|. +|.+...-+| ....++..+...-.-++.+.+....-|+.+....+++.|++
T Consensus 290 eI~~~i~~a~~~vvG----sPT~~~~~~p----------~i~~~l~~v~~~~~~~k~~~vfgS~GW~g~av~~i~~~l~~ 355 (388)
T COG0426 290 EIVEEILDAKGLVVG----SPTINGGAHP----------PIQTALGYVLALAPKNKLAGVFGSYGWSGEAVDLIEEKLKD 355 (388)
T ss_pred HHHHHHhhcceEEEe----cCcccCCCCc----------hHHHHHHHHHhccCcCceEEEEeccCCCCcchHHHHHHHHh
Confidence 444444444444443 1333222122 12233333333333456677777888888899999999999
Q ss_pred CCceeeee
Q 002352 178 IDTRVPYR 185 (932)
Q Consensus 178 ~g~~v~~~ 185 (932)
.|.++...
T Consensus 356 ~g~~~~~~ 363 (388)
T COG0426 356 LGFEFGFD 363 (388)
T ss_pred cCcEEecc
Confidence 99888765
No 370
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=59.85 E-value=33 Score=37.36 Aligned_cols=64 Identities=13% Similarity=0.154 Sum_probs=42.3
Q ss_pred cCCCCCcEEEEeecccCcccceEEEecCCCCCCceEEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHH
Q 002352 433 IPTNKRKLRIGVPVTKGFSDFVKVTIDPNTRESASVTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQV 512 (932)
Q Consensus 433 ~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l 512 (932)
+|..++++++++. ++. -.-+.-.|++.+.+.+||++. ++++.. -.-+...|
T Consensus 24 ~~~~~~~V~~~~~---~W~----------------~~~~~t~v~~~iLe~~GY~V~-e~~~~~---------~~~~~~al 74 (331)
T PRK11119 24 LPGKGITVQPAQS---TIA----------------EETFQTLLVSRALEKLGYDVN-KPKEVD---------YNVFYTSI 74 (331)
T ss_pred CCCCCeEEEEeec---Ccc----------------HHHHHHHHHHHHHHHcCCcee-eecccC---------cHHHHHHH
Confidence 3667889999885 221 012345788888898997540 333332 35778889
Q ss_pred HcCcccEEEeeee
Q 002352 513 FRGKFDAVVGDTT 525 (932)
Q Consensus 513 ~~g~~D~~~~~~~ 525 (932)
.+|++|+.+..-.
T Consensus 75 a~GdiDv~~~~W~ 87 (331)
T PRK11119 75 ANGDATFTAVNWF 87 (331)
T ss_pred HcCCCeEehhhcc
Confidence 9999999875443
No 371
>PLN02245 ATP phosphoribosyl transferase
Probab=59.71 E-value=53 Score=36.35 Aligned_cols=46 Identities=17% Similarity=0.371 Sum_probs=30.5
Q ss_pred HHHHHHHHcCcccEEEeeeeeecccc----cccccc--ccccccCeEEEEEc
Q 002352 506 NDLMYQVFRGKFDAVVGDTTILANRS----KFVEFT--LPYTESGVSMIVPI 551 (932)
Q Consensus 506 ~~li~~l~~g~~D~~~~~~~it~~R~----~~vdfs--~p~~~~~~~~lv~~ 551 (932)
.++-..|..|.+|+++.+.-+-.|.. +.++.- ..|....+++.+|.
T Consensus 121 ~DIp~yV~~G~~DlGItG~D~l~E~~~~~~~~v~~l~~LgFG~crlvvAvP~ 172 (403)
T PLN02245 121 KDIVRKLLSGDLDLGIVGYDMLREYGQGNEDLVIVHDALGFGDCHLSIAIPK 172 (403)
T ss_pred HHHHHHHhCCCccEEEeeeeeeeccCCCccceEEEeecCCCCceEEEEEEEc
Confidence 57889999999999999987766632 222222 34555556666664
No 372
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=59.57 E-value=98 Score=34.00 Aligned_cols=77 Identities=13% Similarity=0.051 Sum_probs=62.7
Q ss_pred CccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhH
Q 002352 16 TIPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQ 95 (932)
Q Consensus 16 ~~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~ 95 (932)
.+.-+||++.-...+.-.....|+.+.++..|.+ .++...+..+=.||..+.+++..|+.+ |+++|.....+..
T Consensus 159 sk~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~-----i~v~v~~~gsf~D~~k~k~~a~~li~~-GaDVI~~~ag~~~ 232 (345)
T COG1744 159 SKSGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD-----IKVKVVYVGSFSDPAKGKEAANALIDQ-GADVIYPAAGGTG 232 (345)
T ss_pred hcCCceeEEecccchhhHHHHHHHHHHHHhhCCC-----ccEEEEEecCccChHHHHHHHHHHHhc-CCCEEEecCCCCc
Confidence 3356789998888777777888999999999987 567777788888999999988888887 9999998766554
Q ss_pred HHH
Q 002352 96 TNF 98 (932)
Q Consensus 96 a~~ 98 (932)
...
T Consensus 233 ~gv 235 (345)
T COG1744 233 VGV 235 (345)
T ss_pred chH
Confidence 444
No 373
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=57.87 E-value=51 Score=39.73 Aligned_cols=65 Identities=12% Similarity=0.143 Sum_probs=45.0
Q ss_pred CeEEEEEEEcCCc---------C---CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 151 WREAVPIYVDNQY---------G---EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 151 w~~v~ii~~d~~~---------g---~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.-+|++|...|+- | ......+...+++.|.++.....++ ++.+.+.+.+.+..+ ++|+||+.+..
T Consensus 186 ~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~--Dd~~~i~~~l~~~~~-~~D~iIttGG~ 262 (633)
T PRK14498 186 KPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVP--DDEEELEAALRKALK-ECDLVLLSGGT 262 (633)
T ss_pred CcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeC--CCHHHHHHHHHHHHh-cCCEEEECCCC
Confidence 4578888765441 2 2346678888999999887766654 445667788877654 78999987554
No 374
>PF14981 FAM165: FAM165 family
Probab=57.63 E-value=22 Score=25.24 Aligned_cols=33 Identities=15% Similarity=0.232 Sum_probs=28.3
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 002352 808 LNSFRGLFLIAGTAATSALIIFLAVFVCEHRNV 840 (932)
Q Consensus 808 l~~~~g~f~il~~g~~ls~~vf~~E~~~~~~~~ 840 (932)
++++--++|||+.-.++-|+.|.+--+|++++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567788999999999999999999988887653
No 375
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=57.20 E-value=39 Score=37.16 Aligned_cols=78 Identities=10% Similarity=0.038 Sum_probs=55.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
.-+.++++.++ +++.+|+....+ ....+.+.+.+++.|+.+.....+..+++.+.........++.++|+||-.+.+.
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 44667777777 888888754433 3446778888888888765444455556667777777777888999999876654
No 376
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=56.82 E-value=2.3e+02 Score=32.71 Aligned_cols=141 Identities=13% Similarity=0.145 Sum_probs=78.3
Q ss_pred EEccCChhHHHHHHHhcC-CCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcC-
Q 002352 87 ILGPEKSMQTNFIIQLGN-KSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYG- 164 (932)
Q Consensus 87 iiGp~~s~~a~~v~~~~~-~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g- 164 (932)
|++|.+.....++..+.+ ...+=+|.++. --++|- +.....+...++.+...-+++.|+|. +.||
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~-S~~Gn 264 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYD-TMSNN 264 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEE-CCccH
Confidence 789988877777777765 33455565432 123452 22223333444444434578999984 4444
Q ss_pred -CChHHHHHHHHHhC--CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHhCCccc
Q 002352 165 -EEMIPSLTDALQAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP------SLGSRIFEKANEIGLMN 235 (932)
Q Consensus 165 -~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~l~~~a~~~g~~~ 235 (932)
+.+++.+.+.+++. |+.+... .+. +.+...++..+ ..++.|++.++. +....++.......+.+
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~-~v~----~~~~~~i~~~~--~~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~g 337 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIF-NVA----RSDKNEILTNV--FRSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRN 337 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEE-ECC----CCCHHHHHhHH--hhCCEEEEECCccCCcchHHHHHHHHHhhccCcCC
Confidence 56677788888776 4444322 221 11233333333 256788887643 12456666666666655
Q ss_pred cceEEEEecccc
Q 002352 236 KGCVWIMTEGMT 247 (932)
Q Consensus 236 ~~~~wi~t~~~~ 247 (932)
+-...+.+.+|.
T Consensus 338 K~~~vFGSygw~ 349 (479)
T PRK05452 338 KRASAFGSHGWS 349 (479)
T ss_pred CEEEEEECCCcC
Confidence 555566666654
No 377
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=56.76 E-value=1.4e+02 Score=31.73 Aligned_cols=101 Identities=12% Similarity=0.030 Sum_probs=51.2
Q ss_pred CCHHHHHhCCCcEEE-EcChhHHHHHHhcCCC---cccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCc
Q 002352 664 TDFQMLIKSGDNVGY-RKDSFVFGILKQLGFD---EKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCS 739 (932)
Q Consensus 664 ~s~~dL~~~~~~vg~-~~~s~~~~~l~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~ 739 (932)
-+++||. +.++.. ..+.....++...+.. ......+++.+...+.+..|. ..+++.+.. .........-
T Consensus 181 i~~~dL~--~~p~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp~~~-~~~~~~~~~l 253 (297)
T PRK11139 181 KTPEDLA--RHTLLHDDSREDWRAWFRAAGLDDLNVQQGPIFSHSSMALQAAIHGQ----GVALGNRVL-AQPEIEAGRL 253 (297)
T ss_pred CCHHHhh--cCceEeecCcccHHHHHHHhCCCCcCcccceeeCCHHHHHHHHHhCC----CeEecchhh-hHHHHHCCce
Confidence 4788888 444433 2233345566654442 111235677888888888887 455554432 2222222210
Q ss_pred ceEEecccc-cccceEEEecCCCCChHHHHHHHH
Q 002352 740 KYTLIERTF-ETAGFGFAFPLHSPLVPEVSRAIL 772 (932)
Q Consensus 740 ~l~~~~~~~-~~~~~~~~~~k~s~l~~~in~~il 772 (932)
...+.+.. ....+.++.+|+.+....+...+.
T Consensus 254 -~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~ 286 (297)
T PRK11139 254 -VCPFDTVLPSPNAFYLVCPDSQAELPKVAAFRQ 286 (297)
T ss_pred -ecccccCcCCCccEEEEeccccccChhHHHHHH
Confidence 11122221 234677888887665555544443
No 378
>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=56.75 E-value=33 Score=35.92 Aligned_cols=78 Identities=6% Similarity=0.093 Sum_probs=54.8
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHh-CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHH
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKA 228 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a 228 (932)
+|++|..+ ++|...+...+.+++++ .|..+..... ..+.......+..+.+.+.|.+|+..... ....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 36777754 67777888889999999 8888775422 12334555777788888999998865443 345677888
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 87775
No 379
>PRK00865 glutamate racemase; Provisional
Probab=56.68 E-value=84 Score=32.96 Aligned_cols=38 Identities=11% Similarity=0.215 Sum_probs=28.2
Q ss_pred HHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEe
Q 002352 75 ALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILS 112 (932)
Q Consensus 75 a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is 112 (932)
+++.+.+.++.+|+=+..+..+.++..+-+..++|+|.
T Consensus 59 ~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 59 IVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 33444456999999877777666667777778999997
No 380
>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=56.64 E-value=33 Score=37.04 Aligned_cols=91 Identities=14% Similarity=0.086 Sum_probs=63.5
Q ss_pred cEEEEEEE---eCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChh
Q 002352 18 PVNVGLVL---DMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSM 94 (932)
Q Consensus 18 ~i~IG~i~---~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~ 94 (932)
+=+||++. ....+.-.....|+...++..|.+ .++......+-.|+..+.+.+..|+.+ |+++|.. ....
T Consensus 126 t~~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~-----i~v~~~~~gs~~D~~~~~~~a~~li~~-GaDvI~~-~ag~ 198 (306)
T PF02608_consen 126 TGKVGFIGDIGGMDIPPVNRFINGFIAGAKYVNPD-----IKVNVSYTGSFNDPAKAKEAAEALIDQ-GADVIFP-VAGG 198 (306)
T ss_dssp STEEEEEEEEES--SCTTHHHHHHHHHHHHHTTTT------EEEEEE-SSSS-HHHHHHHHHHHHHT-T-SEEEE-E-CC
T ss_pred cCcccccccccCCCcHhHHHHHHHHHHHHHHhCcC-----ceEEEEEcCCcCchHHHHHHHHHHhhc-CCeEEEE-CCCC
Confidence 34677777 666655667788999999999954 567777778888999999999999995 9999987 3334
Q ss_pred HHHHHHHhcCCCCcc--EEeccc
Q 002352 95 QTNFIIQLGNKSQVP--ILSFSA 115 (932)
Q Consensus 95 ~a~~v~~~~~~~~iP--~Is~~a 115 (932)
....+...+.+.+.. .|....
T Consensus 199 ~~~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 199 SGQGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp CHHHHHHHHHHHTHETEEEEEES
T ss_pred CchHHHHHHHHcCCceEEEEecc
Confidence 455666667777777 676544
No 381
>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=55.82 E-value=1.2e+02 Score=29.11 Aligned_cols=97 Identities=7% Similarity=0.006 Sum_probs=49.7
Q ss_pred CHHHHHhCCCcEEEEc--ChhHHHHHHhcCCCcc---cccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCc
Q 002352 665 DFQMLIKSGDNVGYRK--DSFVFGILKQLGFDEK---KLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCS 739 (932)
Q Consensus 665 s~~dL~~~~~~vg~~~--~s~~~~~l~~~~~~~~---~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~ 739 (932)
+++||. +.++.... ......++.+.+.... ....+++.+...+.+..|. .-+++.+.....+ ... ..
T Consensus 87 ~~~dl~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~~p~~~~~~~-~~~-~~ 158 (194)
T cd08481 87 APADLA--HLPLLQQTTRPEAWRDWFEEVGLEVPTAYRGMRFEQFSMLAQAAVAGL----GVALLPRFLIEEE-LAR-GR 158 (194)
T ss_pred cHHHHh--hCceEecCCCCcCHHHHHHHcCCCCCCccCceEeccHHHHHHHHHhCC----CeEEecHHHHHHH-HHC-CC
Confidence 688887 44333321 1234556665554321 1124467888889999987 5556655332222 111 11
Q ss_pred ceEEe--cccccccceEEEecCCCCChHHHHHH
Q 002352 740 KYTLI--ERTFETAGFGFAFPLHSPLVPEVSRA 770 (932)
Q Consensus 740 ~l~~~--~~~~~~~~~~~~~~k~s~l~~~in~~ 770 (932)
+... .+......++++.+|+.+....+...
T Consensus 159 -l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 159 -LVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred -EEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 2222 12223456778888876655544443
No 382
>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=55.67 E-value=89 Score=29.98 Aligned_cols=65 Identities=6% Similarity=0.017 Sum_probs=39.2
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEE
Q 002352 471 YSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVP 550 (932)
Q Consensus 471 ~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~ 550 (932)
+-..++..+.++.+ .+++++... + .+.+|.+|++|+++... +.....+ .+.+.....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~~-----------~-~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~ 76 (194)
T cd08432 14 WLIPRLARFQARHP-DIDLRLSTS-----------D-RLVDFAREGIDLAIRYG---DGDWPGL-EAERLMDEELVPVCS 76 (194)
T ss_pred HHHHHhHHHHHHCC-CeEEEEEec-----------C-CccccccccccEEEEec---CCCCCCc-ceEEccCCcEEEecC
Confidence 34566777877766 355655431 1 35678899999987532 2112222 246677778777776
Q ss_pred cc
Q 002352 551 IK 552 (932)
Q Consensus 551 ~~ 552 (932)
+.
T Consensus 77 ~~ 78 (194)
T cd08432 77 PA 78 (194)
T ss_pred HH
Confidence 43
No 383
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=55.55 E-value=41 Score=37.34 Aligned_cols=78 Identities=14% Similarity=0.103 Sum_probs=56.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
...+.+.++.+| +++.+|+....+ ....+.+.+.+.+.|+.+.+. .+..+++.+.....+..+++.++|+||-.+.+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGG 94 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGECSDNEIDRLVAIAEENGCDVVIGIGGG 94 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEecCh
Confidence 344667788888 898888854443 236677888888888876443 34555666778888888888899999987765
Q ss_pred h
Q 002352 219 S 219 (932)
Q Consensus 219 ~ 219 (932)
.
T Consensus 95 s 95 (366)
T PRK09423 95 K 95 (366)
T ss_pred H
Confidence 5
No 384
>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=55.19 E-value=36 Score=35.18 Aligned_cols=76 Identities=16% Similarity=0.139 Sum_probs=54.7
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
++++..+ ++|.......+++++++.|+.+.... ...+.+.....++.+.+.+++.+++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCN---SDEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEc---CCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5566643 77888888999999999998876432 2223344567777888889999998776655555 7778887
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 76
No 385
>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=55.04 E-value=2e+02 Score=27.59 Aligned_cols=65 Identities=6% Similarity=0.017 Sum_probs=39.8
Q ss_pred eHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEc
Q 002352 472 SIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPI 551 (932)
Q Consensus 472 ~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~ 551 (932)
-..++..+.++ + .++++.... +.+.+..+|.+|++|+++..- +.....+ .+.++.....+++++.
T Consensus 15 l~~~l~~f~~~-~-~v~l~l~~~---------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 79 (195)
T cd08428 15 FLPALAPVLKR-E-RILLDLIVD---------DEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASP 79 (195)
T ss_pred hHHHHHHHHhC-c-CeEEEEEeC---------CchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECC
Confidence 34567777777 3 466666542 356889999999999876421 1222222 2456666666666653
No 386
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=54.25 E-value=1.4e+02 Score=35.04 Aligned_cols=137 Identities=13% Similarity=0.165 Sum_probs=81.4
Q ss_pred EEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCch
Q 002352 57 LLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDS 136 (932)
Q Consensus 57 l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~ 136 (932)
.++.+.+. .-..++..+.+.+..+++++||.-.++. .. +-+...+|+|....+. .
T Consensus 40 ~~~~~~~~--~~~~~v~~~~~~~~~~~~dviIsrG~ta--~~---i~~~~~iPVv~i~~s~------------------~ 94 (538)
T PRK15424 40 ANITPIQL--GFEKAVTYIRKRLATERCDAIIAAGSNG--AY---LKSRLSVPVILIKPSG------------------F 94 (538)
T ss_pred ceEEehhh--hHHHHHHHHHHHHhhCCCcEEEECchHH--HH---HHhhCCCCEEEecCCH------------------h
Confidence 44444453 3446777776655556999999744432 22 2335679999854321 1
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM 216 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 216 (932)
...+++. .++.++ .++++|...+.. .....+.+.+ |+.+..... .+.+|....+.++++.+.++||-.+
T Consensus 95 Dil~al~-~a~~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~~~----~~~~e~~~~v~~lk~~G~~~vvG~~ 163 (538)
T PRK15424 95 DVMQALA-RARKLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQRSY----VTEEDARGQINELKANGIEAVVGAG 163 (538)
T ss_pred HHHHHHH-HHHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEEe----cCHHHHHHHHHHHHHCCCCEEEcCc
Confidence 1233332 235555 467777644331 2244444444 555554433 3567899999999999999998443
Q ss_pred ChhhHHHHHHHHHhCCccc
Q 002352 217 LPSLGSRIFEKANEIGLMN 235 (932)
Q Consensus 217 ~~~~~~~l~~~a~~~g~~~ 235 (932)
. ....|.+.|+.+
T Consensus 164 ~------~~~~A~~~g~~g 176 (538)
T PRK15424 164 L------ITDLAEEAGMTG 176 (538)
T ss_pred h------HHHHHHHhCCce
Confidence 2 356788888854
No 387
>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=53.86 E-value=1.7e+02 Score=28.40 Aligned_cols=91 Identities=7% Similarity=0.019 Sum_probs=59.4
Q ss_pred chhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC--CceeeeeeecCCCCChhHHHHHHHHHhcCCceEE
Q 002352 135 DSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVF 212 (932)
Q Consensus 135 ~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 212 (932)
.......+.+.+...+ .++.++-...+ .++.+.+.+++. |++|+....-+ ....+-...++.|.+.++|+|
T Consensus 31 g~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~--~~~~~~~~i~~~I~~~~pdiv 103 (171)
T cd06533 31 GSDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGY--FGPEEEEEIIERINASGADIL 103 (171)
T ss_pred cHHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCC--CChhhHHHHHHHHHHcCCCEE
Confidence 3445556666665555 57777765443 355555556554 67777643322 233334458889999999999
Q ss_pred EEEeChhhHHHHHHHHHhCC
Q 002352 213 ILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 213 il~~~~~~~~~l~~~a~~~g 232 (932)
++.+..+.-..++...++..
T Consensus 104 ~vglG~PkQE~~~~~~~~~l 123 (171)
T cd06533 104 FVGLGAPKQELWIARHKDRL 123 (171)
T ss_pred EEECCCCHHHHHHHHHHHHC
Confidence 99999888877777766644
No 388
>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=53.73 E-value=94 Score=29.81 Aligned_cols=66 Identities=9% Similarity=0.084 Sum_probs=39.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-..++..+.++.+ .++++.... +.+. ++.+|++|+++... +.....+. +.++....+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~~-----------~~~~-~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 76 (197)
T cd08422 14 LHLAPLLAEFLARYP-DVRLELVLS-----------DRLV-DLVEEGFDLAIRIG---ELPDSSLV-ARRLGPVRRVLVA 76 (197)
T ss_pred HHHHHHHHHHHHhCC-ceEEEEecC-----------cccc-chhhcCccEEEEeC---CCCCcchh-hhhhhccCcEEEE
Confidence 455688888888876 355555421 1233 45678899998532 22223333 3567777777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
++.
T Consensus 77 ~~~ 79 (197)
T cd08422 77 SPA 79 (197)
T ss_pred CHH
Confidence 643
No 389
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=53.30 E-value=1.2e+02 Score=31.50 Aligned_cols=129 Identities=10% Similarity=0.055 Sum_probs=66.0
Q ss_pred HHHHHh-cCCeEEEEccCChhHHHHHHHhcCCCCccEEecc-cCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCC
Q 002352 75 ALDLLN-NVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFS-ATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGW 151 (932)
Q Consensus 75 a~~li~-~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~-a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w 151 (932)
..+.+. +.++.+|+=|..+..+.+...+-+..++|+|..- .+...... ....-+-=++..........-+.+..++.
T Consensus 52 ~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~ 131 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIAN 131 (251)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCC
Confidence 334444 6699999998888877778888888899999842 11111100 01112222223334444444555555544
Q ss_pred eEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 152 REAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 152 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
+-. +.+. ....+.. +-+.|.. ........+...+..+.+.+.|.+|+.|..-
T Consensus 132 ~~~--v~~~------~~~~lv~-~Ie~g~~-------~~~~~~~~l~~~l~~l~~~~~d~lILGCTh~ 183 (251)
T TIGR00067 132 DLL--VEML------ACPELVP-LAEAGLL-------GEDYALECLKRYLRPLLDTLPDTVVLGCTHF 183 (251)
T ss_pred CCE--EEec------CCHHHHH-HHHcCCc-------CCHHHHHHHHHHHHHHhcCCCCEEEECcCCh
Confidence 311 1110 0111222 1222210 0001223466777777777889999988754
No 390
>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=53.29 E-value=2.2e+02 Score=28.92 Aligned_cols=75 Identities=11% Similarity=0.081 Sum_probs=55.8
Q ss_pred eEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh--hhHHHHHHHHH
Q 002352 152 REAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP--SLGSRIFEKAN 229 (932)
Q Consensus 152 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~l~~~a~ 229 (932)
.++++|....+ ..+...+.++..+..+.+...-|+..+..++...-+.|++.++|+|+++|-+ ...+.+++++.
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRAL 201 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHHh
Confidence 79999997543 3555666777777777666555555677889999999999999999999754 45667776655
Q ss_pred h
Q 002352 230 E 230 (932)
Q Consensus 230 ~ 230 (932)
.
T Consensus 202 g 202 (221)
T PF07302_consen 202 G 202 (221)
T ss_pred C
Confidence 4
No 391
>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=52.65 E-value=39 Score=34.85 Aligned_cols=77 Identities=14% Similarity=0.138 Sum_probs=52.6
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
++++... ..+.......+++++++.|+.+..... ..+.+...+.++++.+.+++.+|+..........+..+.+.
T Consensus 2 ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~ 78 (264)
T cd01537 2 IGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKA 78 (264)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhc
Confidence 6677753 667788888899999999987754422 22334566777778778899888865544333356777776
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 79 ~i 80 (264)
T cd01537 79 GI 80 (264)
T ss_pred CC
Confidence 65
No 392
>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=52.58 E-value=39 Score=35.71 Aligned_cols=80 Identities=15% Similarity=0.172 Sum_probs=50.8
Q ss_pred EEEEEEc---CCcCCChHHHHHHHHHhCCceeeeeeecCCC-CChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002352 154 AVPIYVD---NQYGEEMIPSLTDALQAIDTRVPYRSVISPL-ATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKAN 229 (932)
Q Consensus 154 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~ 229 (932)
+++|..+ ++|.....+.+.+++++.|..+......+.. .+...-...+..+.+.++|.||+..........++.+.
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~ 81 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVL 81 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHH
Confidence 6777764 4566777888899999999776544221111 12233456677788899999988654333345566666
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
+.+.
T Consensus 82 ~~~~ 85 (280)
T cd06303 82 ASGK 85 (280)
T ss_pred hCCC
Confidence 6553
No 393
>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=52.48 E-value=62 Score=36.06 Aligned_cols=82 Identities=13% Similarity=0.093 Sum_probs=57.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
..+.++++.++ +++.+++..... ..+.+.+.|++.|+.+.... +..+++.+.+.+.+...+..++|+||-.+.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 34667777775 888888854443 67778888999988765433 34456667788888888889999998877655
Q ss_pred --hHHHHHH
Q 002352 220 --LGSRIFE 226 (932)
Q Consensus 220 --~~~~l~~ 226 (932)
++..++.
T Consensus 87 ~~D~aK~ia 95 (374)
T cd08183 87 VIDAGKAIA 95 (374)
T ss_pred HHHHHHHHH
Confidence 3444443
No 394
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=52.46 E-value=72 Score=33.39 Aligned_cols=98 Identities=15% Similarity=0.093 Sum_probs=71.6
Q ss_pred CCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHH
Q 002352 125 SSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKL 204 (932)
Q Consensus 125 ~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l 204 (932)
..++++-..+ +..++++.++.+.+|.+.+.+|...++ ++.+.+.|+..|.+.+.++.- ..+.++... +.
T Consensus 161 GD~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~~-----ieel~~~Lk~lGA~~ViTeee---l~~~~~~k~--~~ 229 (354)
T KOG0025|consen 161 GDSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRPN-----IEELKKQLKSLGATEVITEEE---LRDRKMKKF--KG 229 (354)
T ss_pred CCeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCcc-----HHHHHHHHHHcCCceEecHHH---hcchhhhhh--hc
Confidence 4577777664 566899999999999999999997655 799999999999877655431 122222222 12
Q ss_pred hcCCceEEEEEeChhhHHHHHHHHHhCCc
Q 002352 205 FTMQTRVFILHMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 205 ~~~~~~viil~~~~~~~~~l~~~a~~~g~ 233 (932)
...+++.-+-+..+..+..+.+.+.+.|.
T Consensus 230 ~~~~prLalNcVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 230 DNPRPRLALNCVGGKSATEIARYLERGGT 258 (354)
T ss_pred cCCCceEEEeccCchhHHHHHHHHhcCce
Confidence 35667777778888888999998888764
No 395
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=51.97 E-value=1.6e+02 Score=34.56 Aligned_cols=130 Identities=12% Similarity=0.114 Sum_probs=78.4
Q ss_pred CCHHHHHHHHHHHHhcCCeEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHH
Q 002352 66 GDVVAAAAAALDLLNNVLVQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAI 145 (932)
Q Consensus 66 ~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~ 145 (932)
++-..++..+.+.+..+++++||.-.. .+..+. +...+|+|...-+. ....+++ ..
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~--ta~~i~---~~~~iPVv~i~~s~------------------~Dil~al-~~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS--NGAYLK---SRLSLPVIVIKPTG------------------FDVMQAL-AR 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch--HHHHHH---HhCCCCEEEecCCh------------------hhHHHHH-HH
Confidence 345577888866555569999997444 233333 34579998854321 1123333 23
Q ss_pred HHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHH
Q 002352 146 IKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIF 225 (932)
Q Consensus 146 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~ 225 (932)
++.++ .++++|...+.. .....+.+.+ ++.+..... .+.++....+.++++.+.++||-.+ ...
T Consensus 93 a~~~~-~~ia~vg~~~~~--~~~~~~~~ll---~~~i~~~~~----~~~~e~~~~~~~l~~~G~~~viG~~------~~~ 156 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDTP--PALRRFQAAF---NLDIVQRSY----VTEEDARSCVNDLRARGIGAVVGAG------LIT 156 (526)
T ss_pred HHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEEe----cCHHHHHHHHHHHHHCCCCEEECCh------HHH
Confidence 35555 467777643331 2244444444 555554332 3567899999999999999998433 245
Q ss_pred HHHHhCCccc
Q 002352 226 EKANEIGLMN 235 (932)
Q Consensus 226 ~~a~~~g~~~ 235 (932)
..|++.||.+
T Consensus 157 ~~A~~~gl~~ 166 (526)
T TIGR02329 157 DLAEQAGLHG 166 (526)
T ss_pred HHHHHcCCce
Confidence 6789999854
No 396
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=51.54 E-value=2.1e+02 Score=30.45 Aligned_cols=65 Identities=12% Similarity=0.069 Sum_probs=42.6
Q ss_pred HHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEcc
Q 002352 473 IAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIK 552 (932)
Q Consensus 473 ~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~ 552 (932)
..++..+.++- .+++++... +-..++..+.+|++|+++..- +.....+ .+.|+....++++++..
T Consensus 106 ~~~l~~f~~~~--~i~i~l~~~---------~~~~~~~~l~~~~~d~~i~~~---~~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 106 LPALAPVLARS--GVLLDLVVE---------DQDHTAELLRRGEVVGAVTTE---PQPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred HHHHHHHHhCC--CcEEEEEec---------CcHHHHHHHhCCCceEEEecc---CCCCCCc-eeeecccceEEEEEcch
Confidence 45667777653 456666543 246889999999999987532 2222233 45788888888888754
No 397
>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=50.55 E-value=49 Score=34.64 Aligned_cols=79 Identities=9% Similarity=0.105 Sum_probs=53.7
Q ss_pred EEEEEEEc---CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHH
Q 002352 153 EAVPIYVD---NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKA 228 (932)
Q Consensus 153 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a 228 (932)
+|++|..+ +.|.....+.+.+++++.|..+..... ...........++++...++|.+|+..... .....++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP--ETFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC--CCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 36666643 567777888999999999988765422 111334455777788888999998865433 345567777
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77775
No 398
>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=50.45 E-value=2.8e+02 Score=29.34 Aligned_cols=64 Identities=11% Similarity=0.064 Sum_probs=40.8
Q ss_pred HHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEcc
Q 002352 474 AVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIK 552 (932)
Q Consensus 474 dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~ 552 (932)
.++..+.++. .+.+..... +-..++..|.+|++|+++..... ....+. +.|+.....+++++++
T Consensus 107 ~~l~~~~~~~--~i~i~l~~~---------~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVVE---------DQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEeC---------cchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 4566666653 355655442 24578899999999998854222 222333 3678888888887654
No 399
>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=50.34 E-value=50 Score=34.61 Aligned_cols=80 Identities=6% Similarity=0.026 Sum_probs=53.0
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHh
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANE 230 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~ 230 (932)
+|++|+.+ +.|.......+.+++++.|..+.....- ...+.+.-...++.+.+.++|.||+..........+.++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~-~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAG-GYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCC-CCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 36677753 6677778888999999999887654221 11123345567777888999999987644333225677777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 776
No 400
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=50.05 E-value=3.3e+02 Score=28.80 Aligned_cols=64 Identities=9% Similarity=0.064 Sum_probs=40.2
Q ss_pred HHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEEEcc
Q 002352 474 AVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIVPIK 552 (932)
Q Consensus 474 dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv~~~ 552 (932)
..+..+.++- .+.++.... +.++++..|.+|++|+++..... ....+. +.|.....++++++..
T Consensus 107 ~~l~~~~~~~--~i~i~~~~~---------~~~~~~~~L~~~~~d~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~ 170 (294)
T PRK13348 107 PALAAVLAGE--RILLELIVD---------DQDHTFALLERGEVVGCVSTQPK---PMRGCL-AEPLGTMRYRCVASPA 170 (294)
T ss_pred HHHHHHHhCC--CeEEEEEEc---------chHHHHHHHhcCCeEEEEecCCc---ccCCcc-cccccccceEEEEccc
Confidence 4455554443 355555442 36789999999999998653221 223444 5778888888887644
No 401
>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=49.41 E-value=59 Score=35.85 Aligned_cols=77 Identities=17% Similarity=0.095 Sum_probs=52.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
..+.++++.+| +++.+|+....+- ...+.+.+.|++.|+.+.... +....+.+...+.+..+++.++|+||-.+.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 44667788888 8887777433332 456778888888887654332 33344566677778888888999988776554
No 402
>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=49.33 E-value=73 Score=33.18 Aligned_cols=75 Identities=13% Similarity=0.038 Sum_probs=48.9
Q ss_pred EEEEEEc-----CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002352 154 AVPIYVD-----NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKA 228 (932)
Q Consensus 154 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a 228 (932)
|+++.++ +.|...+...+.+++++.|..+..... +..+......+..+...++|.||+...... ..++.+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV---SDEDEEEFELPSFLEDGKVDGIILLGGIST--EYIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC---CCChHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHH
Confidence 5666655 667777788888999999988765432 122233344555666788999998764433 236677
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 77665
No 403
>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=48.86 E-value=69 Score=33.98 Aligned_cols=77 Identities=12% Similarity=0.107 Sum_probs=54.6
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHHHh
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHML-PSLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~l~~~a~~ 230 (932)
|++|..+ +.|.......+.+++++.|..+..... ..+.......++.+.+.++|.||+... .......++++.+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---NGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 5667653 567777888999999999988765432 223344567777788889999988754 3445677888888
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 775
No 404
>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=48.20 E-value=61 Score=33.68 Aligned_cols=77 Identities=14% Similarity=0.149 Sum_probs=51.0
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
+++|.. .+.|.......+.+++++.|.++.... ...+...-...++.+.+.++|.+|+..........++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~---~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLAN---SGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEec---CCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 455654 356667778888888889998765321 122233445677778888899988876544334477778777
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 75
No 405
>PRK07377 hypothetical protein; Provisional
Probab=47.73 E-value=43 Score=32.28 Aligned_cols=45 Identities=13% Similarity=0.226 Sum_probs=36.5
Q ss_pred EEEEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002352 468 VTGYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVG 522 (932)
Q Consensus 468 ~~G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~ 522 (932)
.-+-.++.++.+.++++ +++++++++ +-..+.+.+.+|++|++++
T Consensus 91 ~~~~l~~~l~~~~~~y~--~rlElv~y~--------~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 91 VFDQLIDQLRTILDKYH--LRLELVVYP--------DLQALEQALRDKEVHAICL 135 (184)
T ss_pred cHHHHHHHHHHHHHHhC--ceeeEEecC--------CHHHHHHHHhcCCccEEec
Confidence 33446778899999988 568888887 4789999999999998765
No 406
>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=47.28 E-value=23 Score=26.10 Aligned_cols=28 Identities=25% Similarity=0.497 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 002352 568 LDLWVTSGCFFIFIGFVVWVLEHRVNED 595 (932)
Q Consensus 568 ~~vWl~i~~~~i~~~~v~~~~~~~~~~~ 595 (932)
.++|.++..+++++++++|.+..+..+.
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~~k~~ 38 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPGRKKA 38 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcchh
Confidence 3689999999999999999997655433
No 407
>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=47.22 E-value=65 Score=33.39 Aligned_cols=77 Identities=9% Similarity=0.058 Sum_probs=51.7
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. .++|.......+.+++++.|..+..... ..+.....+.++++.+.++|.+|+..........++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 455554 3566677788899999999988765422 22334455677778788999999864333333467788887
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 76
No 408
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=47.16 E-value=80 Score=34.56 Aligned_cols=82 Identities=9% Similarity=0.003 Sum_probs=58.2
Q ss_pred CCeEEEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHH
Q 002352 150 GWREAVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFE 226 (932)
Q Consensus 150 ~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~ 226 (932)
.-.+++++.. +++|.......+++++++.|.++.... +...+...-.+.++.+.+.+++.|++.... ......++
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 4468888875 467777888889999999998886532 222222233467778888999999986543 44477889
Q ss_pred HHHhCCc
Q 002352 227 KANEIGL 233 (932)
Q Consensus 227 ~a~~~g~ 233 (932)
+|.+.|+
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 9999886
No 409
>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=46.35 E-value=3.9e+02 Score=28.45 Aligned_cols=41 Identities=20% Similarity=0.247 Sum_probs=29.5
Q ss_pred eHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002352 472 SIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGD 523 (932)
Q Consensus 472 ~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~ 523 (932)
.-.|++.+.+.+||+++++ .. +-.-+...|.+|++|+.+..
T Consensus 23 ~~~i~~~iLE~~Gy~Ve~~--~~---------~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 23 TTALASVLLEGLGYQPKVT--LL---------SVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred HHHHHHHHHHHcCCcceeE--Ec---------cHHHHHHHHHcCCceEeccc
Confidence 3467778888889876553 32 24567888999999998754
No 410
>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=45.98 E-value=67 Score=33.21 Aligned_cols=78 Identities=12% Similarity=0.102 Sum_probs=52.2
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHH
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKAN 229 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~ 229 (932)
+|++|..+ +.|...+...+.+++++.|+.+..... ..+.+.....++++...+.+.||+.... ......++.+.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDA---QNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46777754 567778888999999999988765422 1233445567777777899999886543 33334666676
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 6654
No 411
>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=45.93 E-value=79 Score=32.79 Aligned_cols=76 Identities=14% Similarity=0.085 Sum_probs=52.6
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. +++|-..+.+.+.+++++.|..+..... ..+.+.....+..+.+.+.|.||+....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---DENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566665 4567777888899999999988775432 2233445567788888999999887544333 347888877
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 75
No 412
>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=45.87 E-value=2.7e+02 Score=29.03 Aligned_cols=118 Identities=10% Similarity=-0.016 Sum_probs=62.6
Q ss_pred ccEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHH
Q 002352 17 IPVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQT 96 (932)
Q Consensus 17 ~~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a 96 (932)
+-=+||++.+...........|+.-++++.|.. ....+..........+...+.+++.++++. +..||+.. ....+
T Consensus 120 G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~pdaI~~~-nd~~A 195 (265)
T cd06354 120 KTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VPDIEVLVQYAGSFNDPAKGKEIAQAMYDQ-GADVIFAA-AGGTG 195 (265)
T ss_pred CCCeEEEEecccChHHHHHHHHHHHHHHHHhcc--CCCceEEEEEcCcccCHHHHHHHHHHHHHC-CCcEEEEC-CCCCc
Confidence 335678776433322223336888888776521 011122222222222345666777888875 57888874 44455
Q ss_pred HHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHH
Q 002352 97 NFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVG 140 (932)
Q Consensus 97 ~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ 140 (932)
..+...+.+.++.++++... .+.....|.+..+...-..++.
T Consensus 196 ~gv~~al~~~gisIvGfD~~--~~~~~~~p~lttv~~~~~~~~~ 237 (265)
T cd06354 196 NGVFQAAKEAGVYAIGVDSD--QYYLAPGVVLTSMVKRVDVAVY 237 (265)
T ss_pred hHHHHHHHhcCCeEEEecCc--ccccCCCcEEEEEeehhHHHHH
Confidence 55556666677888887653 2333334555555444333433
No 413
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=45.70 E-value=28 Score=39.03 Aligned_cols=62 Identities=13% Similarity=0.303 Sum_probs=47.0
Q ss_pred HHHHHHHHhhhcccCCCCCCcccccccchhhhHHHHhhhcC-cc-cccccchhhhHHHHHHHHHhhhh
Q 002352 579 IFIGFVVWVLEHRVNEDFRGPAQHQVGTSFWFSFSTMVFSH-RE-RVISNLARFVMIVWYFVVLILTQ 644 (932)
Q Consensus 579 i~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~~~R~~~~~w~~~~lil~~ 644 (932)
++.+.+++.+|+-.+. +...++.-++|+++.+|...| ++ .|.+.++|++.....++++++.+
T Consensus 357 ~iFStlvY~~Ek~~~~----~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlA 420 (477)
T KOG3713|consen 357 VIFSTLVYFAEKDEPD----TKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLA 420 (477)
T ss_pred HHHHHHHHHhhhcCCC----CCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhh
Confidence 4456667778875533 224577889999999999877 44 67999999999999988887655
No 414
>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=45.22 E-value=62 Score=36.44 Aligned_cols=78 Identities=14% Similarity=0.043 Sum_probs=55.8
Q ss_pred cCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh--hHHHHHH
Q 002352 149 FGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS--LGSRIFE 226 (932)
Q Consensus 149 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~--~~~~l~~ 226 (932)
.+.+++.+|+...-...+..+.+.+.|++.|+.+.....+..+++.+...+.+..++..++|+||-.+.+. ++..++.
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 45688888885444444578889999999998765444455566777788888888899999999776544 3444443
No 415
>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=45.10 E-value=1.6e+02 Score=28.67 Aligned_cols=131 Identities=15% Similarity=0.162 Sum_probs=62.5
Q ss_pred CCeEEEEccCChhHHHHHHHhcCCCC--ccE-EecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHHcCCeEEEEE
Q 002352 82 VLVQAILGPEKSMQTNFIIQLGNKSQ--VPI-LSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPI 157 (932)
Q Consensus 82 ~~v~aiiGp~~s~~a~~v~~~~~~~~--iP~-Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii 157 (932)
.++.+++||.+++-...+..+.+... ... +++....|...+ ..-.|.|-. . +.+-+.++.-..=..+-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs---~----~~f~~~~~~~~fie~~~- 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS---K----EEFERMIKAGEFIEYGE- 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE-----H----HHHHHHHHTTHEEEEEE-
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe---e----chhhhhhccccEEEEee-
Confidence 36889999999887777777766542 322 333333333333 233454441 1 11222232222112222
Q ss_pred EEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhCC
Q 002352 158 YVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEIG 232 (932)
Q Consensus 158 ~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~g 232 (932)
|.++.||.. ...+.+.+++...++.... . .-+..|++...+.++++..+.....+-+..++.|
T Consensus 74 ~~g~~YGt~-~~~i~~~~~~gk~~il~~~-------~----~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~r~ 136 (183)
T PF00625_consen 74 YDGNYYGTS-KSAIDKVLEEGKHCILDVD-------P----EGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRRRG 136 (183)
T ss_dssp ETTEEEEEE-HHHHHHHHHTTTEEEEEET-------H----HHHHHHHHCTTTEEEEEEEESSHHHHHHHHHTTT
T ss_pred ecchhhhhc-cchhhHhhhcCCcEEEEcc-------H----HHHHHHHhcccCceEEEEEccchHHHHHHHhccc
Confidence 445667755 5667777776666554321 1 1234444445555555444333333444444433
No 416
>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=45.09 E-value=50 Score=32.02 Aligned_cols=66 Identities=8% Similarity=0.051 Sum_probs=38.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
++-..++..+.++.+ .+++++... +.+.. +.++++|+++.. .+.....+. +.+......++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~l~i~~~-----------~~~~~-~~~~~~D~~i~~---~~~~~~~~~-~~~l~~~~~~~v~ 76 (197)
T cd08470 14 RFIAPLVNDFMQRYP-KLEVDIELT-----------NRVVD-LVSEGFDLAIRL---GRLTDSSLM-ARRLASRRHYVCA 76 (197)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEec-----------CCccc-hhccCccEEEEc---CCCCccchh-hhhccCCceEEEE
Confidence 455688888988877 355555421 12333 556789998842 111122232 3566666777777
Q ss_pred Ecc
Q 002352 550 PIK 552 (932)
Q Consensus 550 ~~~ 552 (932)
+..
T Consensus 77 ~~~ 79 (197)
T cd08470 77 SPA 79 (197)
T ss_pred CHH
Confidence 543
No 417
>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=44.92 E-value=69 Score=33.32 Aligned_cols=77 Identities=8% Similarity=0.067 Sum_probs=51.7
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHh
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~ 230 (932)
|+++..+ +.|.....+.+.+++++.|..+..... ..+.+...+.+..+.+.++|.+|+.... ......++++.+
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA---NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4555544 567777888999999999988754321 2233345567777778899999886543 333556777777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 775
No 418
>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=44.42 E-value=66 Score=33.81 Aligned_cols=77 Identities=9% Similarity=0.019 Sum_probs=51.8
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~ 230 (932)
|+++.. .+.|.......+.+++++.|..+..... ..+...-.+.+..+...++|.||+.... +.....++.+.+
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 555654 3666677788899999999988764321 2233334567788888999999886543 333456777777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 79 ~~i 81 (282)
T cd06318 79 AGV 81 (282)
T ss_pred CCC
Confidence 765
No 419
>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=43.92 E-value=70 Score=32.67 Aligned_cols=78 Identities=13% Similarity=0.092 Sum_probs=53.2
Q ss_pred EEEEEEEc---CCcCCChHHHHHHHHHh--CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHH
Q 002352 153 EAVPIYVD---NQYGEEMIPSLTDALQA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEK 227 (932)
Q Consensus 153 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~ 227 (932)
+|++|... +.++......+.+++.+ .++++..... ..+..+....+.++...+.+.+++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 36667653 46677778888888888 6666654322 2233456677778888899999988766555557777
Q ss_pred HHhCCc
Q 002352 228 ANEIGL 233 (932)
Q Consensus 228 a~~~g~ 233 (932)
+.+.|+
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777765
No 420
>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=42.67 E-value=1.5e+02 Score=28.55 Aligned_cols=66 Identities=14% Similarity=0.125 Sum_probs=36.6
Q ss_pred cccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEec--ccccccceEEEecCCCCChHHHHHHH
Q 002352 699 IAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIE--RTFETAGFGFAFPLHSPLVPEVSRAI 771 (932)
Q Consensus 699 ~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~s~l~~~in~~i 771 (932)
...++.+..++.+..|. .-+++.+.. ....... ..+..+. .......+.++.+|+......+...+
T Consensus 129 ~~~~~~~~~~~~v~~g~----gi~~~p~~~-~~~~~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08475 129 LQFDDGEAIADAALAGL----GIAQLPTWL-VADHLQR--GELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAAV 196 (199)
T ss_pred EEECCHHHHHHHHHhCC----CEEeeeHHH-HHhHhhc--CcEEEecCCCcCCCccEEEEeCCcccCCHHHHHHH
Confidence 45678888999999987 455555432 2222211 1133221 12334567778888766655555444
No 421
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=42.59 E-value=42 Score=35.42 Aligned_cols=70 Identities=6% Similarity=0.005 Sum_probs=49.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-.+++..+.++.+ .+++++... ...+++..|.+|++|+++...... . ..+ ...|+....+++++
T Consensus 102 ~~l~~~l~~f~~~~P-~v~v~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~--~-~~l-~~~~l~~~~~~~v~ 167 (275)
T PRK03601 102 CMLTPWLGRLYQNQE-ALQFEARIA---------QRQSLVKQLHERQLDLLITTEAPK--M-DEF-SSQLLGHFTLALYT 167 (275)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEEC---------ChHHHHHHHHcCCCCEEEEcCCCc--c-CCc-cEEEecceeEEEEe
Confidence 556688888888776 355555442 367899999999999998643222 2 233 34688888999998
Q ss_pred EccC
Q 002352 550 PIKD 553 (932)
Q Consensus 550 ~~~~ 553 (932)
++..
T Consensus 168 ~~~~ 171 (275)
T PRK03601 168 SAPS 171 (275)
T ss_pred cCch
Confidence 7553
No 422
>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=42.56 E-value=2.9e+02 Score=25.75 Aligned_cols=93 Identities=14% Similarity=0.077 Sum_probs=57.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeec----CCCCChhHHH-HHHHHHhcCCceEEEE
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVI----SPLATDDQIE-KELYKLFTMQTRVFIL 214 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~----~~~~~~~~~~-~~l~~l~~~~~~viil 214 (932)
..+.+.+...+-....-+|.+.... .....+.++++..|.++...... .....+..+. ..+..+...+.+.|++
T Consensus 27 ~~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivL 105 (149)
T cd06167 27 RKLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVL 105 (149)
T ss_pred HHHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEE
Confidence 3344444443323333444433211 35688899999999988765432 1122233333 3344444557899999
Q ss_pred EeChhhHHHHHHHHHhCCc
Q 002352 215 HMLPSLGSRIFEKANEIGL 233 (932)
Q Consensus 215 ~~~~~~~~~l~~~a~~~g~ 233 (932)
.+...+...+++.+++.|.
T Consensus 106 vSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 106 VSGDSDFVPLVERLRELGK 124 (149)
T ss_pred EECCccHHHHHHHHHHcCC
Confidence 9999999999999999875
No 423
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=42.33 E-value=60 Score=31.77 Aligned_cols=29 Identities=28% Similarity=0.393 Sum_probs=26.6
Q ss_pred EEEEccCChhHHHHHHHhcCCCCccEEec
Q 002352 85 QAILGPEKSMQTNFIIQLGNKSQVPILSF 113 (932)
Q Consensus 85 ~aiiGp~~s~~a~~v~~~~~~~~iP~Is~ 113 (932)
..|+||..++=+..+..+++.+++|||+-
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 58999999999999999999999999983
No 424
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=42.28 E-value=1.1e+02 Score=33.37 Aligned_cols=80 Identities=19% Similarity=0.145 Sum_probs=54.4
Q ss_pred CeEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002352 151 WREAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKA 228 (932)
Q Consensus 151 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a 228 (932)
-+.++++..+ ++|...+...+.+++.+.|..+.... ...+.+.....+..+.+.+.|.||+..........++.+
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 140 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ---GGKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMA 140 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe---CCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHH
Confidence 3578888863 66777778888999999997765331 122334455777788888999999875443334566777
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|.
T Consensus 141 ~~~~i 145 (342)
T PRK10014 141 EEKGI 145 (342)
T ss_pred hhcCC
Confidence 77665
No 425
>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=42.09 E-value=96 Score=34.16 Aligned_cols=78 Identities=18% Similarity=0.212 Sum_probs=51.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCC--CChhHHHHHHHHHhcCCceEEEEEeC
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPL--ATDDQIEKELYKLFTMQTRVFILHML 217 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~l~~l~~~~~~viil~~~ 217 (932)
.-+.++++.++.+++.+|+....+.. ..+.+.+.|++.|+.+......... ++.+.+...+..+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 34677788888889888884333222 2577888898888865433223222 556667777777766 8999887765
Q ss_pred hh
Q 002352 218 PS 219 (932)
Q Consensus 218 ~~ 219 (932)
+.
T Consensus 90 Gs 91 (348)
T cd08175 90 GT 91 (348)
T ss_pred cH
Confidence 54
No 426
>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=42.02 E-value=2.3e+02 Score=27.67 Aligned_cols=87 Identities=6% Similarity=-0.028 Sum_probs=56.9
Q ss_pred hhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhC--CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEE
Q 002352 136 SSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAI--DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFI 213 (932)
Q Consensus 136 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 213 (932)
......+.+.....+ .++.++-... +.++.+.+.+++. |++|+.. ..+ .+.++-...+..|.++++|+++
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~----~v~~~~~~~l~~~yP~l~i~g~--~g~-f~~~~~~~i~~~I~~s~~dil~ 105 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKP----DVLQQLKVKLIKEYPKLKIVGA--FGP-LEPEERKAALAKIARSGAGIVF 105 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCH----HHHHHHHHHHHHHCCCCEEEEE--CCC-CChHHHHHHHHHHHHcCCCEEE
Confidence 345555666665556 4777776543 3456666666654 6777765 222 2344556788899999999999
Q ss_pred EEeChhhHHHHHHHHHh
Q 002352 214 LHMLPSLGSRIFEKANE 230 (932)
Q Consensus 214 l~~~~~~~~~l~~~a~~ 230 (932)
+.+..+.-..++.+.++
T Consensus 106 VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 106 VGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEcCCcHhHHHHHHhHH
Confidence 99888777666665543
No 427
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=41.88 E-value=4.6e+02 Score=27.95 Aligned_cols=91 Identities=9% Similarity=0.066 Sum_probs=60.2
Q ss_pred eEEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEec--c---cC---chhHHHHHHHHHHHcC-----
Q 002352 84 VQAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRG--S---LN---DSSQVGAITAIIKAFG----- 150 (932)
Q Consensus 84 v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~--~---ps---~~~~~~ai~~~l~~~~----- 150 (932)
+.-++||...+....++.+..+.++=++..+...+ .....||.|+ . |. ......++.++.+.+|
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d---~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDD---DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEecccccc---cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 78899999999999999999999988887655321 1223566662 2 22 2344556666666654
Q ss_pred -----CeEEEEEEEcCCcCCChHHHHHHHHHhCCc
Q 002352 151 -----WREAVPIYVDNQYGEEMIPSLTDALQAIDT 180 (932)
Q Consensus 151 -----w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~ 180 (932)
..+++++.+... ...+.+.++.+...+
T Consensus 88 ~~~~~~~kiavl~Sg~g---~nl~al~~~~~~~~l 119 (289)
T PRK13010 88 HPDGQRPKVVIMVSKFD---HCLNDLLYRWRMGEL 119 (289)
T ss_pred ecCCCCeEEEEEEeCCC---ccHHHHHHHHHCCCC
Confidence 457888887543 336677777665443
No 428
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=41.76 E-value=1.8e+02 Score=32.17 Aligned_cols=101 Identities=10% Similarity=0.011 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeee--eecCCCCChhHHHHHHHHHhcCCc---eEEEE
Q 002352 140 GAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYR--SVISPLATDDQIEKELYKLFTMQT---RVFIL 214 (932)
Q Consensus 140 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~--~~~~~~~~~~~~~~~l~~l~~~~~---~viil 214 (932)
..+.++++.++++++.+++.... .....+.+.+.+.+.|+.+... .....+.+.+.+...+..+++.+. |.||.
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 34666777778899999885444 3357778888898888765421 122233456677777777776654 88877
Q ss_pred EeChh--hHHHHHHHHHhCCccccceEEEEec
Q 002352 215 HMLPS--LGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 215 ~~~~~--~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
.+.+. ++..++......|. .++-|-|+
T Consensus 99 vGGGsv~D~aK~iA~~~~~gi---p~i~IPTT 127 (358)
T PRK00002 99 LGGGVIGDLAGFAAATYMRGI---RFIQVPTT 127 (358)
T ss_pred EcCcHHHHHHHHHHHHhcCCC---CEEEcCch
Confidence 66554 34555544344453 34444443
No 429
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=41.70 E-value=24 Score=42.25 Aligned_cols=70 Identities=11% Similarity=0.171 Sum_probs=54.2
Q ss_pred cccchhhhHHHHhhhcC--cccccccchhhhHHHHHHHHHhhhhhhhhhhhhhhhc-----cccCCCCCCHHHHHhC
Q 002352 603 QVGTSFWFSFSTMVFSH--RERVISNLARFVMIVWYFVVLILTQSYTASLSSLLTV-----QQLQPTITDFQMLIKS 672 (932)
Q Consensus 603 ~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~-----~~~~~~i~s~~dL~~~ 672 (932)
++..++|+++.+|..-| ...+.+....++.++.++++++|.++.-+|++++|.. ..+...+.++++-.+.
T Consensus 294 kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs~tsR~~~~r~k~rd~e~~m~~ 370 (727)
T KOG0498|consen 294 KYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQSLTSRTEEMRDKMRDAEQWMSR 370 (727)
T ss_pred HHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHHHhHHHHHHHHHHHHHHHHHHh
Confidence 34568999999999655 4556788899999999999999999999999999843 4444555556665543
No 430
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=41.69 E-value=5.3e+02 Score=28.63 Aligned_cols=143 Identities=14% Similarity=0.139 Sum_probs=84.9
Q ss_pred EEEEccCChhHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcC
Q 002352 85 QAILGPEKSMQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYG 164 (932)
Q Consensus 85 ~aiiGp~~s~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g 164 (932)
.-+++|.......+.-.+.. .+|=+|.++.. + ++|- +......+..++.+...-++|.++|. +.||
T Consensus 193 ~~lm~p~~~~v~~~l~~~~~-l~i~~IaP~HG-~---------i~~~--~~~~i~~~Y~~W~~~~~~~~V~l~Y~-smyg 258 (388)
T COG0426 193 ANLMAPNARLVLWALKKIKL-LKIEMIAPSHG-P---------IWRG--NPKEIVEAYRDWAEGQPKGKVDLIYD-SMYG 258 (388)
T ss_pred HHhhcccHHHHHHHHhhhcc-cCccEEEcCCC-c---------eeeC--CHHHHHHHHHHHHccCCcceEEEEEe-cccC
Confidence 34677777666555555554 77888876531 2 3443 23345666666766655458999994 4555
Q ss_pred --CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHhCCcccc
Q 002352 165 --EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP------SLGSRIFEKANEIGLMNK 236 (932)
Q Consensus 165 --~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~l~~~a~~~g~~~~ 236 (932)
..+++.+.+.+.+.|+.|.....- .+ +...++..+.+ ++.+++.+++ .....++-......-..+
T Consensus 259 ~T~~ma~aiaegl~~~gv~v~~~~~~--~~---~~~eI~~~i~~--a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k 331 (388)
T COG0426 259 NTEKMAQAIAEGLMKEGVDVEVINLE--DA---DPSEIVEEILD--AKGLVVGSPTINGGAHPPIQTALGYVLALAPKNK 331 (388)
T ss_pred CHHHHHHHHHHHhhhcCCceEEEEcc--cC---CHHHHHHHHhh--cceEEEecCcccCCCCchHHHHHHHHHhccCcCc
Confidence 455777888888899887654321 12 34444444433 4677776654 234555555555555555
Q ss_pred ceEEEEecccch
Q 002352 237 GCVWIMTEGMTN 248 (932)
Q Consensus 237 ~~~wi~t~~~~~ 248 (932)
.-..+.+-+|..
T Consensus 332 ~~~vfgS~GW~g 343 (388)
T COG0426 332 LAGVFGSYGWSG 343 (388)
T ss_pred eEEEEeccCCCC
Confidence 556677777764
No 431
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=41.43 E-value=2.9e+02 Score=34.73 Aligned_cols=76 Identities=16% Similarity=0.064 Sum_probs=54.3
Q ss_pred CCeEEEEEEEcCCcCCChHHHHHHHHH--hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh--hHHHHH
Q 002352 150 GWREAVPIYVDNQYGEEMIPSLTDALQ--AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS--LGSRIF 225 (932)
Q Consensus 150 ~w~~v~ii~~d~~~g~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~--~~~~l~ 225 (932)
+.+++.+|+.......+..+.+.+.|+ +.|+.+..-..+.++++.+.+...+..+++.++|.||-.+.+. ++..++
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~np~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK~i 558 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPDPTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAKIM 558 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHHHH
Confidence 568988888655544557788889998 6777665443455566777888888889999999999876654 334444
No 432
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.25 E-value=2.9e+02 Score=30.40 Aligned_cols=103 Identities=7% Similarity=0.099 Sum_probs=62.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
..-+|.+.++.|| ++++++. |.|-.+....|.....+.++.+... +....+-.-...-+.+.++.+.|+||++.++
T Consensus 118 c~KlA~y~kkkG~-K~~Lvca-DTFRagAfDQLkqnA~k~~iP~ygs--yte~dpv~ia~egv~~fKke~fdvIIvDTSG 193 (483)
T KOG0780|consen 118 CTKLAYYYKKKGY-KVALVCA-DTFRAGAFDQLKQNATKARVPFYGS--YTEADPVKIASEGVDRFKKENFDVIIVDTSG 193 (483)
T ss_pred HHHHHHHHHhcCC-ceeEEee-cccccchHHHHHHHhHhhCCeeEec--ccccchHHHHHHHHHHHHhcCCcEEEEeCCC
Confidence 4457777788887 5666664 4555555666666666666655432 2222222234456778889999999999887
Q ss_pred hh--HHHHHHHHHhCC-ccccceEEEEecc
Q 002352 219 SL--GSRIFEKANEIG-LMNKGCVWIMTEG 245 (932)
Q Consensus 219 ~~--~~~l~~~a~~~g-~~~~~~~wi~t~~ 245 (932)
.. -..+|.+..+.. -..|+-+.++-|.
T Consensus 194 Rh~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 194 RHKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred chhhhHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 63 466777665522 2335555555443
No 433
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=41.24 E-value=1.6e+02 Score=28.30 Aligned_cols=65 Identities=12% Similarity=0.092 Sum_probs=44.4
Q ss_pred CeEEEEEEEcCCcC---CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEeC
Q 002352 151 WREAVPIYVDNQYG---EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHML 217 (932)
Q Consensus 151 w~~v~ii~~d~~~g---~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 217 (932)
.-++++|...|+-+ ......+...+++.|.++.....++ ++.+.+.+.+++..+ .+.|+||..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~--Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK--DDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 45788876655333 2235677888999999988776665 455667788877643 57898888643
No 434
>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=41.21 E-value=29 Score=33.25 Aligned_cols=101 Identities=12% Similarity=0.060 Sum_probs=54.7
Q ss_pred CCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceE
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYT 742 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~ 742 (932)
+.+++||.+ +++|++.--...+.||++.+.+-.-+..+.+.|-+ ...|- .|++++-...-.-+.++ +|.
T Consensus 58 ~~~~~~l~~-~~rIATkyp~l~~~yf~~~g~~~~ii~l~GsvE~a---p~~gl----AD~IvDiv~TG~TLr~N---gL~ 126 (163)
T PF01634_consen 58 YKSVEDLKA-GLRIATKYPNLTRRYFAEKGINVEIIKLSGSVELA---PPLGL----ADAIVDIVETGTTLRAN---GLK 126 (163)
T ss_dssp GCCGGGGSS-TEEEEES-HHHHHHHHHHCT-EEEEEE-SS-TTHH---HHTTS----SSEEEEEESSSHHHHHT---TEE
T ss_pred CCCHHHhcc-CCEEEECCHHHHHHHHHHcCCcEEEEEccCCcccc---CCCCC----CCEEEEeccCcHHHHHC---CCE
Confidence 567888864 66888866677789999877554344444555533 34454 67777755444333333 366
Q ss_pred EecccccccceEEEecCCCC--ChHHHHHHHHhhh
Q 002352 743 LIERTFETAGFGFAFPLHSP--LVPEVSRAILNVT 775 (932)
Q Consensus 743 ~~~~~~~~~~~~~~~~k~s~--l~~~in~~il~l~ 775 (932)
.++..+.+ .-.++..|.+. -...+++.+.+|.
T Consensus 127 ~i~~i~~s-~a~LI~n~~~~~~k~~~i~~l~~~l~ 160 (163)
T PF01634_consen 127 EIETILES-SARLIANKASLKEKEEKIDELVTRLR 160 (163)
T ss_dssp EEEEEEEE-EEEEEEEHHHHHHCHHHHHHHHHHHH
T ss_pred EeEEEEEE-EEEEEEcCccchhhHHHHHHHHHHHH
Confidence 66555543 34455444432 2234555555443
No 435
>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=41.16 E-value=83 Score=32.82 Aligned_cols=80 Identities=9% Similarity=0.074 Sum_probs=51.2
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHHH
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL-GSRIFEKAN 229 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~l~~~a~ 229 (932)
||++|..+ ++|-..+...+.+++++.|..+.....-. ..+.......+.++...+.|.+|+...... ....++.+.
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 56667778888888999998876542211 123334456677777788998888644333 245667777
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
+.|+
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6664
No 436
>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=41.14 E-value=89 Score=32.60 Aligned_cols=80 Identities=13% Similarity=0.131 Sum_probs=51.2
Q ss_pred EEEEEEE--cCCcCCChHHHHHHHHHhC---CceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHH
Q 002352 153 EAVPIYV--DNQYGEEMIPSLTDALQAI---DTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFE 226 (932)
Q Consensus 153 ~v~ii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~ 226 (932)
+|+++.. ++.|-......+.+++++. |..+..... ....+.+...+.++++...++|.||+..... .....+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 3566664 3455566778888888888 864322221 1222344566788888888999999976443 3345677
Q ss_pred HHHhCCc
Q 002352 227 KANEIGL 233 (932)
Q Consensus 227 ~a~~~g~ 233 (932)
.+++.|+
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777775
No 437
>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=41.08 E-value=94 Score=32.28 Aligned_cols=78 Identities=17% Similarity=0.094 Sum_probs=49.9
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. ++.|...+...+.+++++.|..+.....- ..........++.+...+.+.+|+..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCD--SGSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCC--CCchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 456664 36788888889999999999887654221 11222344555667678899888864332234566677776
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 64
No 438
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=40.97 E-value=1.4e+02 Score=28.35 Aligned_cols=81 Identities=15% Similarity=0.132 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeC
Q 002352 138 QVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHML 217 (932)
Q Consensus 138 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 217 (932)
.++.+..+.++++-+++.++- |..-...+.+.+.+...-.|+++... +-++....+.+-...+.+++++.-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~vl~k~ 84 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV-------SLEKTINVIHKPAYHDQTIFLLFRN 84 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 477788899999998888876 33334445666666666667776543 2234555565555667799999999
Q ss_pred hhhHHHHHH
Q 002352 218 PSLGSRIFE 226 (932)
Q Consensus 218 ~~~~~~l~~ 226 (932)
+.++..+++
T Consensus 85 ~~da~~l~~ 93 (151)
T TIGR00854 85 PQDVLTLVE 93 (151)
T ss_pred HHHHHHHHH
Confidence 999988875
No 439
>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=40.91 E-value=74 Score=33.61 Aligned_cols=76 Identities=13% Similarity=0.072 Sum_probs=52.5
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHh
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~ 230 (932)
|++|..+ ++|.......+.+++++.|..+.... .. +.......+..+...++|.||+.... .....+++++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ 77 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKID---VP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKA 77 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEcc---CC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHh
Confidence 5666643 55667778888999999998876431 12 23344467777888999999886543 345667888888
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 78 ~~i 80 (289)
T cd01540 78 YNM 80 (289)
T ss_pred CCC
Confidence 775
No 440
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=40.36 E-value=1.5e+02 Score=28.29 Aligned_cols=81 Identities=11% Similarity=0.100 Sum_probs=55.7
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHH-hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEE
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQ-AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILH 215 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 215 (932)
..++.+..++++++-+++.++- |......+.+.+.+... -.|+.+... +-++....+.+ ...+.+++++.
T Consensus 16 IHGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~vlvl~ 86 (158)
T PRK09756 16 VHGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF-------TIEKTINVIGK-AAPHQKIFLIC 86 (158)
T ss_pred hhHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE-------EHHHHHHHHHh-ccCCceEEEEE
Confidence 3478889999999999988876 33333445555555544 467666533 23445566666 55677899999
Q ss_pred eChhhHHHHHH
Q 002352 216 MLPSLGSRIFE 226 (932)
Q Consensus 216 ~~~~~~~~l~~ 226 (932)
-++.++..+++
T Consensus 87 ~~~~da~~l~~ 97 (158)
T PRK09756 87 RTPQTVRKLVE 97 (158)
T ss_pred CCHHHHHHHHH
Confidence 99999988875
No 441
>cd08479 PBP2_CrgA_like_9 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 9. 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=40.36 E-value=66 Score=31.16 Aligned_cols=64 Identities=5% Similarity=-0.055 Sum_probs=38.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeeccccccccccccccccCeEEEE
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILANRSKFVEFTLPYTESGVSMIV 549 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~R~~~vdfs~p~~~~~~~~lv 549 (932)
.+-..++..+.++.+ .+++++.... ...++.+|++|+++.. .+.....+. +.++.....++++
T Consensus 14 ~~l~~~l~~f~~~~P-~i~i~~~~~~------------~~~~l~~g~~Dl~i~~---~~~~~~~l~-~~~l~~~~~~~~~ 76 (198)
T cd08479 14 RHIAPALSDFAKRYP-ELEVQLELTD------------RPVDLVEEGFDLDIRV---GDLPDSSLI-ARKLAPNRRILCA 76 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEecC------------ccccccccCccEEEEc---CCCCCccce-eeeccCCceEEEE
Confidence 456688889988887 3556554311 2357889999998742 122222332 3455556666665
Q ss_pred E
Q 002352 550 P 550 (932)
Q Consensus 550 ~ 550 (932)
+
T Consensus 77 ~ 77 (198)
T cd08479 77 S 77 (198)
T ss_pred C
Confidence 4
No 442
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=40.25 E-value=2.4e+02 Score=26.65 Aligned_cols=121 Identities=14% Similarity=0.146 Sum_probs=72.0
Q ss_pred HHHHhc-CCeEEEEccCCh--hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCe
Q 002352 76 LDLLNN-VLVQAILGPEKS--MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWR 152 (932)
Q Consensus 76 ~~li~~-~~v~aiiGp~~s--~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~ 152 (932)
..++.+ .....|+||..- +.-..+..+.+++++|++..+++...+.+.. .-+......++..+++.-+|.
T Consensus 29 ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~-------i~~~~~~lh~it~~l~Dp~w~ 101 (170)
T COG1880 29 AMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRG-------IGSEYINLHAITQYLTDPNWP 101 (170)
T ss_pred HHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcc-------cccchhHHHHHHHHhcCCCCC
Confidence 334433 468899999876 4567899999999999998666555554321 113445566777888775554
Q ss_pred ---------EEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCC-------CChhHHHHHHHHHh
Q 002352 153 ---------EAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPL-------ATDDQIEKELYKLF 205 (932)
Q Consensus 153 ---------~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~l~ 205 (932)
-|.++-.-..|....++.++... . =..|+....+.++ -..+++.+.|++|.
T Consensus 102 G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs-~-i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 102 GFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS-N-IKTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CcCCCCCcceEEEEeccHHHHHHHHHHhhhhh-c-ceEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 35555555555555555555443 1 1233333333222 23456777777764
No 443
>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=40.15 E-value=2.8e+02 Score=28.62 Aligned_cols=128 Identities=14% Similarity=0.072 Sum_probs=69.4
Q ss_pred cEEEEEEEeCCCccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCChhHHH
Q 002352 18 PVNVGLVLDMNGEDGKIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKSMQTN 97 (932)
Q Consensus 18 ~i~IG~i~~~s~~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s~~a~ 97 (932)
.-+||++.+........-..|+.-++++.+.. .+..........+...+.+.+.++++. +..+|+.... ..+.
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~d-~~A~ 192 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVNPD-----ITVLVIYTGSFFDPAKGKEAALALIDQ-GADVIFAAAG-GTGP 192 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhCCC-----cEEEEEEecCccCcHHHHHHHHHHHhC-CCCEEEEcCC-CCch
Confidence 34677775432222333456777777654321 222222223333455667777888765 4588887444 3444
Q ss_pred HHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEE
Q 002352 98 FIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREA 154 (932)
Q Consensus 98 ~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v 154 (932)
.+...+.+.++-++++..+. +.....|-+-.+..+....+..+++.+..-.|+..
T Consensus 193 gv~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 193 GVIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred HHHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 45555555667777765532 22222465666666666666666666655556443
No 444
>PRK10481 hypothetical protein; Provisional
Probab=39.93 E-value=2.6e+02 Score=28.52 Aligned_cols=76 Identities=11% Similarity=0.131 Sum_probs=50.2
Q ss_pred HHHHHHHc-CCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh
Q 002352 142 ITAIIKAF-GWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL 220 (932)
Q Consensus 142 i~~~l~~~-~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~ 220 (932)
+..++..+ +-++++++....+ ..+...+.+.+.|..+.....-|+..+...+....++|++.++|+|++.|.+-.
T Consensus 119 i~~lv~Al~~g~riGVitP~~~----qi~~~~~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~ 194 (224)
T PRK10481 119 LPPLVAAIVGGHQVGVIVPVEE----QLAQQAQKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYH 194 (224)
T ss_pred HHHHHHHhcCCCeEEEEEeCHH----HHHHHHHHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcC
Confidence 34444442 4489999997543 244444555556888775544333344456777888888999999999998765
Q ss_pred H
Q 002352 221 G 221 (932)
Q Consensus 221 ~ 221 (932)
.
T Consensus 195 ~ 195 (224)
T PRK10481 195 Q 195 (224)
T ss_pred H
Confidence 4
No 445
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=39.92 E-value=1.3e+02 Score=32.58 Aligned_cols=80 Identities=14% Similarity=0.053 Sum_probs=51.1
Q ss_pred CeEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002352 151 WREAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKA 228 (932)
Q Consensus 151 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a 228 (932)
-+.|+++..+ +.|...+...+.+++++.|..+..... ....+.-...+..+...+.|.+|+..........++++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 137 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS---DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRL 137 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHH
Confidence 3568888753 556667778888899999988765422 12222334566677778899998865422223456666
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 66664
No 446
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=39.87 E-value=1.3e+02 Score=35.51 Aligned_cols=84 Identities=10% Similarity=0.038 Sum_probs=59.0
Q ss_pred eEEEEEEEcCCcCCChHHHHHHHHHhCCc-eeeeeeecCC------CCChhHHHHHHHHHhcCCceEEEEEeChhhHHHH
Q 002352 152 REAVPIYVDNQYGEEMIPSLTDALQAIDT-RVPYRSVISP------LATDDQIEKELYKLFTMQTRVFILHMLPSLGSRI 224 (932)
Q Consensus 152 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~------~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l 224 (932)
++|.|...-|..|.....-+...|++.|. .+.+. +|. +.+. ..+.++.+.+++.+|..-.+.....-
T Consensus 70 e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~--IP~R~~eGYGl~~----~~i~~~~~~~~~LiItvD~Gi~~~e~ 143 (575)
T PRK11070 70 TRIIVVGDFDADGATSTALSVLALRSLGCSNVDYL--VPNRFEDGYGLSP----EVVDQAHARGAQLIVTVDNGISSHAG 143 (575)
T ss_pred CEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEE--eCCCCcCCCCCCH----HHHHHHHhcCCCEEEEEcCCcCCHHH
Confidence 57777666678888888888899999998 45443 331 1122 44556666788888877666677788
Q ss_pred HHHHHhCCccccceEEEEeccc
Q 002352 225 FEKANEIGLMNKGCVWIMTEGM 246 (932)
Q Consensus 225 ~~~a~~~g~~~~~~~wi~t~~~ 246 (932)
+..|++.|+. .|++|.-
T Consensus 144 i~~a~~~gid-----vIVtDHH 160 (575)
T PRK11070 144 VAHAHALGIP-----VLVTDHH 160 (575)
T ss_pred HHHHHHCCCC-----EEEECCC
Confidence 8889999984 5887754
No 447
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=39.73 E-value=1.8e+02 Score=25.09 Aligned_cols=65 Identities=20% Similarity=0.209 Sum_probs=41.3
Q ss_pred EEEEcCCcCCChHHHHHHHHHhCCc-eeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe--ChhhHHHHHHHHHhCC
Q 002352 156 PIYVDNQYGEEMIPSLTDALQAIDT-RVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM--LPSLGSRIFEKANEIG 232 (932)
Q Consensus 156 ii~~d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~--~~~~~~~l~~~a~~~g 232 (932)
+|.+++. .....+++.++..|. .+... .+ ....+..+.+..++++++.. ....+..++++.++.+
T Consensus 2 livd~~~---~~~~~l~~~l~~~~~~~v~~~------~~---~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 2 LIVDDDP---EIRELLEKLLERAGYEEVTTA------SS---GEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp EEEESSH---HHHHHHHHHHHHTTEEEEEEE------SS---HHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred EEEECCH---HHHHHHHHHHHhCCCCEEEEE------CC---HHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 3444444 456777788887777 44321 12 33445555667799999874 4456788888888766
No 448
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=39.70 E-value=1.3e+02 Score=30.88 Aligned_cols=88 Identities=11% Similarity=-0.047 Sum_probs=52.9
Q ss_pred hHHHHHHHHHHHc--CCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEE
Q 002352 137 SQVGAITAIIKAF--GWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFIL 214 (932)
Q Consensus 137 ~~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 214 (932)
..++.+++++... .-++|.++..+ ...+.+.+.|.+.|..|.....|.......+-......+.+.+.++|++
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~-----~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f 176 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGR-----PRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLL 176 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccC-----cccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEE
Confidence 4577888887543 44666666633 3346788999999988766555432111111223344455567777776
Q ss_pred EeChhhHHHHHHHHHh
Q 002352 215 HMLPSLGSRIFEKANE 230 (932)
Q Consensus 215 ~~~~~~~~~l~~~a~~ 230 (932)
.+ +..+..+++....
T Consensus 177 ~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 177 YS-RVAARRFFALMRL 191 (240)
T ss_pred eC-HHHHHHHHHHHhh
Confidence 66 4467777776643
No 449
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=39.69 E-value=1.2e+02 Score=31.72 Aligned_cols=77 Identities=14% Similarity=0.053 Sum_probs=47.8
Q ss_pred CeEEEEEEEc---------CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhH
Q 002352 151 WREAVPIYVD---------NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLG 221 (932)
Q Consensus 151 w~~v~ii~~d---------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 221 (932)
.+.|++|.++ +.|.....+.+.+++++.|..+..... . .+ +.......+.+.++|.||+......
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~---~-~~-~~~~~~~~l~~~~~dgiii~~~~~~- 76 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV---S-SP-DRDWLARYLASGRADGVILIGQHDQ- 76 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC---C-ch-hHHHHHHHHHhCCCCEEEEeCCCCC-
Confidence 4678888853 345566677788888889988765322 1 11 2334444555678998888653322
Q ss_pred HHHHHHHHhCCc
Q 002352 222 SRIFEKANEIGL 233 (932)
Q Consensus 222 ~~l~~~a~~~g~ 233 (932)
...++++.+.|+
T Consensus 77 ~~~~~~~~~~~i 88 (275)
T cd06295 77 DPLPERLAETGL 88 (275)
T ss_pred hHHHHHHHhCCC
Confidence 244677777775
No 450
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=39.57 E-value=2.5e+02 Score=30.50 Aligned_cols=125 Identities=12% Similarity=0.053 Sum_probs=68.4
Q ss_pred CccEEEEEEEeCCC-ccchhHHHHHHHHHHHHhcCCCCCCcEEEEEEe-cCCCCHHHHHHHHHHHHhc---CCeEEEEcc
Q 002352 16 TIPVNVGLVLDMNG-EDGKIALSCINMSLSDFYNSNSHYKTRLLLNTR-NSKGDVVAAAAAALDLLNN---VLVQAILGP 90 (932)
Q Consensus 16 ~~~i~IG~i~~~s~-~~g~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~-D~~~~~~~a~~~a~~li~~---~~v~aiiGp 90 (932)
.+.++|+++....+ .....-..|+.-|+++.+ .++..... ....+...+.+.+.+++++ .++.||+..
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g-------~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~ 232 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKG-------IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIAN 232 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcC-------CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEEC
Confidence 35677777654333 233344567777776532 22222222 2334566777888888875 368999985
Q ss_pred CChhHHHHHHHhcCCC---CccEEecccCCCCccC-CCCCceEecccCchhHHHHHHHHHHH
Q 002352 91 EKSMQTNFIIQLGNKS---QVPILSFSATSPSLTS-IRSSYFFRGSLNDSSQVGAITAIIKA 148 (932)
Q Consensus 91 ~~s~~a~~v~~~~~~~---~iP~Is~~a~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~ 148 (932)
.+.. +..+...+.+. .+|++++......... ...|.+.-...+...++...++++..
T Consensus 233 ~d~~-A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 233 NDAM-AMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred CchH-HHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 4443 33343333333 5698887654322211 11234555556666777777776543
No 451
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.52 E-value=88 Score=24.76 Aligned_cols=24 Identities=8% Similarity=-0.020 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 002352 814 LFLIAGTAATSALIIFLAVFVCEH 837 (932)
Q Consensus 814 ~f~il~~g~~ls~~vf~~E~~~~~ 837 (932)
++..+++|.+++.++.....+..+
T Consensus 24 il~~f~~G~llg~l~~~~~~~~~r 47 (68)
T PF06305_consen 24 ILIAFLLGALLGWLLSLPSRLRLR 47 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455666666666655553333
No 452
>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=39.49 E-value=2.3e+02 Score=31.24 Aligned_cols=100 Identities=11% Similarity=-0.012 Sum_probs=62.1
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeee--ecCCCCChhHHHHHHHHHhcCCce---EEEEE
Q 002352 141 AITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRS--VISPLATDDQIEKELYKLFTMQTR---VFILH 215 (932)
Q Consensus 141 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~~~~l~~l~~~~~~---viil~ 215 (932)
-+.++++.++-+++.+++....+ ....+.+.+.+++.|..+.... ....+.+.+.+...+..+++.+.| +||..
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAv 91 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVAL 91 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 35566777777898888865443 3356778889988887653221 122334556777888888888887 77766
Q ss_pred eChh--hHHHHHHHHHhCCccccceEEEEec
Q 002352 216 MLPS--LGSRIFEKANEIGLMNKGCVWIMTE 244 (932)
Q Consensus 216 ~~~~--~~~~l~~~a~~~g~~~~~~~wi~t~ 244 (932)
+.+. ++..++......|+ .++.|-|+
T Consensus 92 GGGsv~D~ak~~A~~~~rgi---p~I~IPTT 119 (355)
T cd08197 92 GGGVVGNIAGLLAALLFRGI---RLVHIPTT 119 (355)
T ss_pred CCcHHHHHHHHHHHHhccCC---CEEEecCc
Confidence 5544 34555544443443 45555554
No 453
>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=39.10 E-value=87 Score=33.26 Aligned_cols=79 Identities=9% Similarity=0.161 Sum_probs=51.3
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHH
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKAN 229 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a~ 229 (932)
+|++|..+ +.|-..+...+.+++.+.|..+.... ....+.......+..+...++|.||+..... .....++++.
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 45556677788888999998876321 1122333445667777778899888864332 2456778888
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
+.|+
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 8776
No 454
>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=38.77 E-value=1.3e+02 Score=31.63 Aligned_cols=79 Identities=13% Similarity=0.075 Sum_probs=52.9
Q ss_pred eEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002352 152 REAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL-GSRIFEKA 228 (932)
Q Consensus 152 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~l~~~a 228 (932)
++|++|..+ +.|-..+...+.+++++.|..+..... ..+.+.-.+.+..+...+.|.||+...... ....++.+
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 467777764 556667788888999999988765421 223344557788888899999998754322 23455666
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66665
No 455
>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=38.76 E-value=2.1e+02 Score=25.79 Aligned_cols=62 Identities=21% Similarity=0.179 Sum_probs=38.4
Q ss_pred ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh----hHHHHHHHHHhCCc
Q 002352 166 EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS----LGSRIFEKANEIGL 233 (932)
Q Consensus 166 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~----~~~~l~~~a~~~g~ 233 (932)
-...-+...++..|.++.+.-.. .+ ....+..+.+.++++|.+.+... .+..+++++++.|.
T Consensus 14 lG~~~~~~~l~~~G~~vi~lG~~---vp---~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 14 RGAKVIARALRDAGFEVIYTGLR---QT---PEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred HHHHHHHHHHHHCCCEEEECCCC---CC---HHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 33555666778888887765331 22 22445555568888888876433 34666777777664
No 456
>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=38.74 E-value=1.1e+02 Score=31.75 Aligned_cols=77 Identities=10% Similarity=0.047 Sum_probs=49.7
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. ++.|-..+...+.+.+++.|..+..... ....+.....++.+...+.+.+|+.........+++.+++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 566664 3566677788888899999988764422 12233355667777778899888865433334566666666
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 54
No 457
>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=38.61 E-value=78 Score=35.31 Aligned_cols=71 Identities=10% Similarity=-0.007 Sum_probs=51.3
Q ss_pred cCCeEEEEEEEcCCcC-CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 149 FGWREAVPIYVDNQYG-EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 149 ~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
++.+++.+|+....+- .+..+.+.+.|++.|+.+..-..+..+++.+.+...+..+++.++|+||-.+.+.
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 92 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGS 92 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 3457888887543322 4566888899998888765433444566777788888899999999999876654
No 458
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=38.45 E-value=2.3e+02 Score=28.87 Aligned_cols=46 Identities=13% Similarity=0.216 Sum_probs=29.8
Q ss_pred HHHHHHHHcCcccEEEeeeeeeccccc------cccccccccccCeEEEEEc
Q 002352 506 NDLMYQVFRGKFDAVVGDTTILANRSK------FVEFTLPYTESGVSMIVPI 551 (932)
Q Consensus 506 ~~li~~l~~g~~D~~~~~~~it~~R~~------~vdfs~p~~~~~~~~lv~~ 551 (932)
.++-..|..|.+|+++.+.-+-.|... +.-.-..|....+++.+|.
T Consensus 55 ~DIp~yV~~G~~DlGI~G~D~l~E~~~~~~~~v~elldLgfG~crl~vA~p~ 106 (228)
T PRK13583 55 SEIPRELGAGRVDLGVTGEDLVREKLADWDKRVEIVARLGFGHADLVVAVPE 106 (228)
T ss_pred HHHHHHHhCCCCcEEEeeeeeeecccccCCCCeEEEecCCCCceEEEEEEEC
Confidence 467789999999999999877665321 1111234555566666664
No 459
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=38.07 E-value=38 Score=26.25 Aligned_cols=42 Identities=17% Similarity=0.273 Sum_probs=23.5
Q ss_pred HHHH-HHHH-HHHHHHHHHHHHHHhhccccCCCCCchhHHHHHH
Q 002352 815 FLIA-GTAA-TSALIIFLAVFVCEHRNVLKRSDPRSSLLSRIRI 856 (932)
Q Consensus 815 f~il-~~g~-~ls~~vf~~E~~~~~~~~~~~~~~~~~~~~~~~~ 856 (932)
||+| ++|+ .+++++.+++-+++|++.++....+.++..+++.
T Consensus 17 fyVWlA~~~tll~l~~l~v~sv~qrr~iL~~v~r~~aReaR~~~ 60 (67)
T COG3114 17 FYVWLAVGMTLLPLAVLVVHSVLQRRAILRGVARQRAREARLRA 60 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4443 4443 4566677777788887776433333444444443
No 460
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=37.81 E-value=1.8e+02 Score=30.05 Aligned_cols=87 Identities=8% Similarity=0.017 Sum_probs=55.9
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHh-CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEE
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQA-IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILH 215 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 215 (932)
.....+.+.....+ .+|.++-.+.+ .++.+.+.+++ .|+.|+.... .+ .+.++-..++.+|.++++|++++.
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~-Gy-f~~~e~~~i~~~I~~s~~dil~Vg 164 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQD-GY-FTPEQRQALFERIHASGAKIVTVA 164 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeC-CC-CCHHHHHHHHHHHHhcCCCEEEEE
Confidence 34555666655556 57777765433 45555555543 3777765432 22 234455678899999999999999
Q ss_pred eChhhHHHHHHHHHh
Q 002352 216 MLPSLGSRIFEKANE 230 (932)
Q Consensus 216 ~~~~~~~~l~~~a~~ 230 (932)
+..+.-..++...++
T Consensus 165 lG~PkQE~~~~~~~~ 179 (243)
T PRK03692 165 MGSPKQEIFMRDCRL 179 (243)
T ss_pred CCCcHHHHHHHHHHH
Confidence 988776666665544
No 461
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=37.80 E-value=1.2e+02 Score=33.31 Aligned_cols=80 Identities=6% Similarity=0.087 Sum_probs=53.6
Q ss_pred eEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhH-HHHHHHH
Q 002352 152 REAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLG-SRIFEKA 228 (932)
Q Consensus 152 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~-~~l~~~a 228 (932)
+.|++|..+ ++|.......+++++++.|..+.....-. ..+.+.....++.+.+.++|.||+.+..... ...+ ++
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~~ 124 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-EL 124 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-HH
Confidence 688888854 56667778889999999998876543211 1123334466777888899999987644333 3445 67
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 125 ~~~gi 129 (343)
T PRK10936 125 QAANI 129 (343)
T ss_pred HHCCC
Confidence 77775
No 462
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=37.74 E-value=4.1e+02 Score=30.42 Aligned_cols=127 Identities=11% Similarity=0.054 Sum_probs=65.9
Q ss_pred EEEEEEEeCCCccc----hhHHHHHHHHHHHHhcCCCCCCcEEEEEEecCCC-CHHHHHHHHHHHHhcCCeEEEEccCCh
Q 002352 19 VNVGLVLDMNGEDG----KIALSCINMSLSDFYNSNSHYKTRLLLNTRNSKG-DVVAAAAAALDLLNNVLVQAILGPEKS 93 (932)
Q Consensus 19 i~IG~i~~~s~~~g----~~~~~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~~v~aiiGp~~s 93 (932)
++||++.-..+.++ .......+..++.+++. + ++++..+.-. ++..+.+++ +.++..++++||=...+
T Consensus 1 ~~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----~--~~vv~~~~~~~~~~~~~~~~-~~~~~~~~d~ii~~~~t 73 (452)
T cd00578 1 PKIGFVTGSQHLYGEELLEQVEEYAREVADLLNEL----P--VEVVDKPEVTGTPDEARKAA-EEFNEANCDGLIVWMHT 73 (452)
T ss_pred CEEEEEEecccccChhHHHHHHHHHHHHHHHHhcC----C--ceEEecCcccCCHHHHHHHH-HHHhhcCCcEEEEcccc
Confidence 36777765555221 12333444455556554 2 3454554433 555554444 45555588888864444
Q ss_pred -hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEE
Q 002352 94 -MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIY 158 (932)
Q Consensus 94 -~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~ 158 (932)
..+..+...+...++|++-++...+...+ -..+..+ ...-...++..++++|.+. .+++
T Consensus 74 f~~~~~~~~~~~~~~~Pvll~a~~~~~~~~----~~~~~~~-s~~g~~~~~~~l~r~gi~~-~~v~ 133 (452)
T cd00578 74 FGPAKMWIAGLSELRKPVLLLATQFNREIP----DFMNLNQ-SACGLREFGNILARLGIPF-KVVY 133 (452)
T ss_pred cccHHHHHHHHHhcCCCEEEEeCCCCCCCC----chhhhhc-chhhhHHHHHHHHHcCCce-eEEE
Confidence 33455677778889999987754432211 1111111 1222344556667777553 3444
No 463
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=37.59 E-value=87 Score=34.23 Aligned_cols=73 Identities=16% Similarity=0.139 Sum_probs=49.3
Q ss_pred HHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh
Q 002352 146 IKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS 219 (932)
Q Consensus 146 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 219 (932)
++.++.+++.+|+...-+..+..+.+.+.+++. +.+..-..+..+++.+.+.+.+..+++.++|+||-.+.+.
T Consensus 17 l~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs 89 (332)
T cd08180 17 LKELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGS 89 (332)
T ss_pred HHHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCch
Confidence 345556899888854444445677888888776 5443222334455667788888888889999999766544
No 464
>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=37.34 E-value=1.2e+02 Score=32.59 Aligned_cols=78 Identities=6% Similarity=0.136 Sum_probs=52.0
Q ss_pred EEEEEEEc--CCcCCChHHHHHHHHHh--CCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe-ChhhHHHHHHH
Q 002352 153 EAVPIYVD--NQYGEEMIPSLTDALQA--IDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM-LPSLGSRIFEK 227 (932)
Q Consensus 153 ~v~ii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~l~~~ 227 (932)
+|++|..+ +.|-......+.+++++ .|..+.... ...+...-...+..+.+.+++.||+.. ++......+++
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 35666653 55666777888888988 777665432 222333445677788889999888754 33334677888
Q ss_pred HHhCCc
Q 002352 228 ANEIGL 233 (932)
Q Consensus 228 a~~~g~ 233 (932)
+.+.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 888776
No 465
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=37.26 E-value=3.8e+02 Score=28.18 Aligned_cols=115 Identities=13% Similarity=0.018 Sum_probs=60.8
Q ss_pred CCccEEeccc-CCCCccCCCCCceEecccCchhHHHHHHHH-HHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceee
Q 002352 106 SQVPILSFSA-TSPSLTSIRSSYFFRGSLNDSSQVGAITAI-IKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVP 183 (932)
Q Consensus 106 ~~iP~Is~~a-~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 183 (932)
.+++++..+. |...+....+. --..|. ...+++++++ +....-++|.++..+ +..+.|.+.|.+.|..|.
T Consensus 94 ~~~~~~AVG~~TA~aL~~~G~~--~~~~P~-~~~se~Ll~l~~~~~~g~~vLi~rg~-----~gr~~L~~~L~~~G~~V~ 165 (266)
T PRK08811 94 ARAHWLSVGEGTARALQACGID--EVVRPT-RMDSEGLLALPLAQAPLQAVGLITAP-----GGRGLLAPTLQQRGARIL 165 (266)
T ss_pred cCCeEEEECHHHHHHHHHcCCC--ceeCCC-CCCcHHHHhChhhhCCCCEEEEEeCC-----CcHHHHHHHHHHCCCEEe
Confidence 4667666653 23334332211 112233 3457778877 544444666666543 234788899999999887
Q ss_pred eeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002352 184 YRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKAN 229 (932)
Q Consensus 184 ~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~ 229 (932)
....|.......+- ..+..+.......++++.+++.+..+++.+.
T Consensus 166 ~~~vY~~~~~~~~~-~~~~~l~~~~~~d~i~ftS~sav~~f~~~l~ 210 (266)
T PRK08811 166 RADVYQRVPLRLRA-STLAALSRAAPRSVLALSSAEALTLILQQLP 210 (266)
T ss_pred EEEEEeeeCCCCCH-HHHHHHHHhCCCCEEEEChHHHHHHHHHHhh
Confidence 66554322111001 2333333334444556666676677766553
No 466
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=37.17 E-value=1.4e+02 Score=32.61 Aligned_cols=79 Identities=8% Similarity=0.055 Sum_probs=56.5
Q ss_pred eEEEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002352 152 REAVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL-GSRIFEKA 228 (932)
Q Consensus 152 ~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~l~~~a 228 (932)
.+|+++.. +++|.......+.+++.+.|..+..... ........+.++.+.+.++|.+|+...... ....++.+
T Consensus 26 ~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~ 102 (330)
T PRK10355 26 VKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEA 102 (330)
T ss_pred ceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHH
Confidence 57777774 5778888899999999999988775422 223445667788888899999998764332 34556777
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|.
T Consensus 103 ~~~~i 107 (330)
T PRK10355 103 KQEGI 107 (330)
T ss_pred HHCCC
Confidence 77664
No 467
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=37.07 E-value=1.7e+02 Score=27.76 Aligned_cols=81 Identities=16% Similarity=0.129 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeC
Q 002352 138 QVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHML 217 (932)
Q Consensus 138 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 217 (932)
.++.+..+.++++-+++.++- |..-...+.+.+.+...-.|+++... +.++....+.+-+..+.+++++.-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~il~k~ 83 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIF-------TVEKAIEAINSPKYDKQRVFLLFKN 83 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 477888999999999888875 33334445565556555567776543 2234555565545567799999999
Q ss_pred hhhHHHHHH
Q 002352 218 PSLGSRIFE 226 (932)
Q Consensus 218 ~~~~~~l~~ 226 (932)
+.++..+++
T Consensus 84 ~~~~~~l~~ 92 (151)
T cd00001 84 PQDVLRLVE 92 (151)
T ss_pred HHHHHHHHH
Confidence 999988875
No 468
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=36.85 E-value=87 Score=33.19 Aligned_cols=77 Identities=14% Similarity=0.151 Sum_probs=53.4
Q ss_pred eEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002352 152 REAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKAN 229 (932)
Q Consensus 152 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~ 229 (932)
+.+++|.++ ++|-..++..+.+++.+.|..+..... ..+.+..+.++.+.+.+.|.+|+.+...+...+....+
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t----~~~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~ 77 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNT----GDDEEKEEYIELLLQRRVDGIILASSENDDEELRRLIK 77 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEE----TTTHHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecC----CCchHHHHHHHHHHhcCCCEEEEecccCChHHHHHHHH
Confidence 367888864 667778889999999999988765433 12223338888888999999999876665444444444
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
. |+
T Consensus 78 ~-~i 80 (279)
T PF00532_consen 78 S-GI 80 (279)
T ss_dssp T-TS
T ss_pred c-CC
Confidence 4 54
No 469
>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=36.78 E-value=1.1e+02 Score=31.49 Aligned_cols=75 Identities=17% Similarity=0.204 Sum_probs=49.5
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. ++.|-......+.+.+++.|..+..... .... +..+.++++.+.++|.+|+....... ..++.+.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~~~ 76 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT---DDDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECRRN 76 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC---CCCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhc
Confidence 455554 3567777788888999999988765422 1222 55667777888899988886543222 447777776
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|+
T Consensus 77 ~i 78 (266)
T cd06278 77 GI 78 (266)
T ss_pred CC
Confidence 65
No 470
>KOG1420 consensus Ca2+-activated K+ channel Slowpoke, alpha subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=36.58 E-value=19 Score=40.37 Aligned_cols=62 Identities=19% Similarity=0.276 Sum_probs=50.1
Q ss_pred CCCCcccccccchhhhHHHHhhhcCcccc--cccchhhhHHHHHHHHHhhhhhhhhhhhhhhhc
Q 002352 595 DFRGPAQHQVGTSFWFSFSTMVFSHRERV--ISNLARFVMIVWYFVVLILTQSYTASLSSLLTV 656 (932)
Q Consensus 595 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 656 (932)
.|........+++.++.+.+|...|-..+ ....+|+++++++++++-+.++|.-.++-.+-.
T Consensus 280 ~f~n~hrltyw~cvyfl~vtmstvgygdvyc~t~lgrlfmvffil~glamfasyvpeiielign 343 (1103)
T KOG1420|consen 280 NFQNNHRLTYWECVYFLMVTMSTVGYGDVYCKTTLGRLFMVFFILGGLAMFASYVPEIIELIGN 343 (1103)
T ss_pred hccCcccchhhheeeeeEEEeeeccccceeehhhhhHHHHHHHHHHHHHHHHhhhHHHHHHHcc
Confidence 36677777889999999988887774444 688899999999999999999998777665533
No 471
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=36.44 E-value=1.2e+02 Score=31.47 Aligned_cols=77 Identities=12% Similarity=0.060 Sum_probs=51.2
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL-GSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~l~~~a~~ 230 (932)
+++|.. ++.|...+...+.+++++.|..+... +...+..+....+.++...+++.+|+...... ....++.+.+
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 46677788889999999999887543 22223344567778888888999888643322 3456777777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 664
No 472
>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=36.21 E-value=89 Score=34.22 Aligned_cols=85 Identities=9% Similarity=-0.011 Sum_probs=56.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
.+.+.+.++.++.+++.+++....+.. ..+.+.+.+++.+..+ + ..+..+++.+.+...+..+++.++|.||-.+.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 87 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMHTPVEVTEAAVAAAREAGADGIVAIGGG 87 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 345777888999999998885544333 5666777777665433 2 223345566778888888888999999877665
Q ss_pred h--hHHHHHH
Q 002352 219 S--LGSRIFE 226 (932)
Q Consensus 219 ~--~~~~l~~ 226 (932)
. ++..++.
T Consensus 88 s~iD~aK~ia 97 (337)
T cd08177 88 STIDLAKAIA 97 (337)
T ss_pred HHHHHHHHHH
Confidence 4 3344443
No 473
>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=36.14 E-value=1.4e+02 Score=30.89 Aligned_cols=76 Identities=7% Similarity=0.017 Sum_probs=50.2
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
+++|.. +++|-..+...+.+++++.|..+..... ..+.+.-...+..+.+.++|.||+....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---HHSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---CCchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 455553 4677778888999999999988764322 1222334467777778899999887643222 237777777
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 65
No 474
>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=36.13 E-value=93 Score=30.49 Aligned_cols=75 Identities=17% Similarity=0.163 Sum_probs=43.8
Q ss_pred CCCHHHHHhCCCcEEEEcChhHHHHHHhcCCCcccccccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceE
Q 002352 663 ITDFQMLIKSGDNVGYRKDSFVFGILKQLGFDEKKLIAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYT 742 (932)
Q Consensus 663 i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~ 742 (932)
+++.+||. +++|++.--...+.||.+.+.+-.-+..+.+.|- +-..|- .|++++-...-..+.++ +|.
T Consensus 101 ~~~~~~l~--~~rIATkyp~i~~~~f~~~Gi~v~ii~l~GsvE~---aP~~Gl----aD~IvDiv~TG~TL~~N---gL~ 168 (182)
T TIGR00070 101 ISSVEDLK--GKRIATKYPNLARRYFEKKGIDVEIIKLNGSVEL---APLLGL----ADAIVDIVSTGTTLREN---GLR 168 (182)
T ss_pred CCChHHhC--CCEEEECCHHHHHHHHHHcCCeEEEEECcceeec---ccCCCc----eeEEEEEeCCHHHHHHC---CCE
Confidence 67889997 8899997777889999987764322223334432 222454 67776654443333332 244
Q ss_pred Eeccccc
Q 002352 743 LIERTFE 749 (932)
Q Consensus 743 ~~~~~~~ 749 (932)
++.+.+.
T Consensus 169 ~ie~i~~ 175 (182)
T TIGR00070 169 IIEVILE 175 (182)
T ss_pred EeeEEEe
Confidence 5544433
No 475
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=36.05 E-value=5.1e+02 Score=29.02 Aligned_cols=140 Identities=16% Similarity=0.208 Sum_probs=0.0
Q ss_pred EEccCChhHHHHHHHhcC-CCCccEEecccCCCCccCCCCCceEecccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcC-
Q 002352 87 ILGPEKSMQTNFIIQLGN-KSQVPILSFSATSPSLTSIRSSYFFRGSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYG- 164 (932)
Q Consensus 87 iiGp~~s~~a~~v~~~~~-~~~iP~Is~~a~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g- 164 (932)
|++|.+.....++..+.. ...+=+|.++- .+.+... .....+...++.+...-++++|+| .+.||
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~H-G~i~~~~-----------~~~~~~~Y~~~~~~~~~~kv~IvY-~S~~Gn 260 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSH-GVIWRDN-----------PLQIVEKYLEWAANYQENQVTILY-DTMWNS 260 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCC-ccEEeCC-----------HHHHHHHHHHHhhcCCcCcEEEEE-ECCchH
Q ss_pred -CChHHHHHHHHH--hCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHhCCccc
Q 002352 165 -EEMIPSLTDALQ--AIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP------SLGSRIFEKANEIGLMN 235 (932)
Q Consensus 165 -~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~l~~~a~~~g~~~ 235 (932)
+.+++.+.+.+. ..|+++..... ...+.+++...+.+ ++.+++.++. +....++......+..+
T Consensus 261 Te~mA~~ia~g~~~~~~g~~v~~~~~--~~~~~~~i~~~~~~-----~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~~ 333 (394)
T PRK11921 261 TRRMAEAIAEGIKKANKDVTVKLYNS--AKSDKNDIITEVFK-----SKAILVGSSTINRGILSSTAAILEEIKGLGFKN 333 (394)
T ss_pred HHHHHHHHHHHHhhcCCCCeEEEEEC--CCCCHHHHHHHHHh-----CCEEEEECCCcCccccHHHHHHHHHhhccCcCC
Q ss_pred cceEEEEeccc
Q 002352 236 KGCVWIMTEGM 246 (932)
Q Consensus 236 ~~~~wi~t~~~ 246 (932)
+-...+.+.+|
T Consensus 334 K~~a~FGsygw 344 (394)
T PRK11921 334 KKAAAFGSYGW 344 (394)
T ss_pred CEEEEEecCCC
No 476
>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=35.84 E-value=31 Score=31.98 Aligned_cols=52 Identities=12% Similarity=0.117 Sum_probs=37.1
Q ss_pred HHhcCCeEEEEccCCh--hHHHHHHHhcCCCCccEEecccCCCCccCCCCCceEe
Q 002352 78 LLNNVLVQAILGPEKS--MQTNFIIQLGNKSQVPILSFSATSPSLTSIRSSYFFR 130 (932)
Q Consensus 78 li~~~~v~aiiGp~~s--~~a~~v~~~~~~~~iP~Is~~a~~~~l~~~~~p~~~r 130 (932)
|-+.+++..++|.... .....+..++++.++|+++....-..+. ..+|++.-
T Consensus 8 L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg~i~-~~hp~~~G 61 (137)
T PF00205_consen 8 LSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGKGVIP-EDHPLFLG 61 (137)
T ss_dssp HHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTTSST-TTSTTEEE
T ss_pred HHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccccccC-CCCchhcc
Confidence 3334789999998777 7889999999999999998654433333 34676655
No 477
>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=35.74 E-value=1.2e+02 Score=31.75 Aligned_cols=79 Identities=6% Similarity=0.064 Sum_probs=50.5
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~ 230 (932)
+++|.. +++|...+...+.+++++.|..+..... +...+...-...+.++.+.+.+.+|+.... ......++.+.+
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~ 80 (275)
T cd06320 2 YGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAA-PSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKK 80 (275)
T ss_pred eeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEcc-CCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHH
Confidence 566664 4566677788889999999988764322 111222334466777777889988876433 333455677777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|.
T Consensus 81 ~~i 83 (275)
T cd06320 81 KGI 83 (275)
T ss_pred CCC
Confidence 765
No 478
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=35.64 E-value=2e+02 Score=27.52 Aligned_cols=81 Identities=9% Similarity=0.047 Sum_probs=55.7
Q ss_pred hHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe
Q 002352 137 SQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM 216 (932)
Q Consensus 137 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 216 (932)
..++.+..+.++++-+++.++- |..-...+.+.+.+...-.|+.+... +-++....+.+ ...+.+++++.-
T Consensus 14 IHGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~v~il~k 84 (157)
T PRK11425 14 IHGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFW-------TLQKVIDNIHR-AADRQKILLVCK 84 (157)
T ss_pred hhHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhc-cCCCceEEEEEC
Confidence 3478888999999998877765 33333445555555555567776543 23455566666 556678999999
Q ss_pred ChhhHHHHHH
Q 002352 217 LPSLGSRIFE 226 (932)
Q Consensus 217 ~~~~~~~l~~ 226 (932)
++.++..+++
T Consensus 85 ~~~d~~~l~~ 94 (157)
T PRK11425 85 TPADFLTLVK 94 (157)
T ss_pred CHHHHHHHHH
Confidence 9999988865
No 479
>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=35.59 E-value=1.3e+02 Score=31.17 Aligned_cols=76 Identities=13% Similarity=0.079 Sum_probs=50.5
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
++++.. +++|...+...+.+++++.|.++..... ..........++.+...+.|.+|+....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSES---GRRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecC---CCchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 455554 4678888889999999999988765422 1223345566777888889988876543222 346777776
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 64
No 480
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=35.39 E-value=83 Score=29.81 Aligned_cols=81 Identities=15% Similarity=0.128 Sum_probs=58.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh
Q 002352 139 VGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP 218 (932)
Q Consensus 139 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 218 (932)
++.+..++++++-+++.++- |......+.+.+.+...-.|+.+... +.++....+.+....+.+++++.-++
T Consensus 14 GQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~~~~~~~~v~ii~k~~ 85 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIF-------SVEEAIEKLKKPEYSKKRVLIIVKSP 85 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE--------HHHHHHHHCGGGGTTEEEEEEESSH
T ss_pred eeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEE-------EHHHHHHHHHhcccCCceEEEEECCH
Confidence 66788999999999988876 44444456666666666678777643 23456666666666789999999999
Q ss_pred hhHHHHHHH
Q 002352 219 SLGSRIFEK 227 (932)
Q Consensus 219 ~~~~~l~~~ 227 (932)
.++..++++
T Consensus 86 ~d~~~l~~~ 94 (151)
T PF03830_consen 86 EDALRLVEA 94 (151)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHhc
Confidence 999888753
No 481
>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=35.29 E-value=1.3e+02 Score=32.17 Aligned_cols=78 Identities=13% Similarity=0.072 Sum_probs=52.4
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLP-SLGSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~l~~~a~~ 230 (932)
|++|.. ++.|-......+++++++.|..+..... ...+.......++.+...++|.||+.... +....+++++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~--~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGP--TTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECC--CCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 555553 4667777788899999999988764211 12233445577777778899999886533 334667788887
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 775
No 482
>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=35.19 E-value=1.2e+02 Score=31.50 Aligned_cols=77 Identities=12% Similarity=0.011 Sum_probs=51.3
Q ss_pred EEEEEE---cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHH
Q 002352 154 AVPIYV---DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEKAN 229 (932)
Q Consensus 154 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~a~ 229 (932)
|++|.. +++|.......+..++++.|..+..... ....+...+.++.+.+.++|.||+..... .....++.+.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 455553 3567788888899999999988765321 22333445667777788999998865433 3345667777
Q ss_pred hCCc
Q 002352 230 EIGL 233 (932)
Q Consensus 230 ~~g~ 233 (932)
+.|+
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7775
No 483
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=34.98 E-value=2e+02 Score=27.20 Aligned_cols=63 Identities=14% Similarity=0.177 Sum_probs=41.4
Q ss_pred EEEEEEEcCCcC-----CChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhc-CCceEEEEEeC
Q 002352 153 EAVPIYVDNQYG-----EEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFT-MQTRVFILHML 217 (932)
Q Consensus 153 ~v~ii~~d~~~g-----~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 217 (932)
++++|...++-. ......+.+.+++.|.++.....++ ++.+++.+.+++..+ .++|+||..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVP--DDKDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 567776544222 2235578888999998887766654 445667777776654 37898888643
No 484
>PRK09701 D-allose transporter subunit; Provisional
Probab=34.90 E-value=2.6e+02 Score=29.94 Aligned_cols=85 Identities=14% Similarity=0.062 Sum_probs=57.0
Q ss_pred HcCCeEEEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHH
Q 002352 148 AFGWREAVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRI 224 (932)
Q Consensus 148 ~~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l 224 (932)
.+.-..++++.. ++.|.......+.+++++.|..+..... +...+.+.-...++.+...++|.||+..... .....
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHH
Confidence 345568999986 4667778888999999999988764321 1122233445667777788999998875433 33344
Q ss_pred HHHHHhCCc
Q 002352 225 FEKANEIGL 233 (932)
Q Consensus 225 ~~~a~~~g~ 233 (932)
+.++.+.|+
T Consensus 100 l~~~~~~gi 108 (311)
T PRK09701 100 VARAWKKGI 108 (311)
T ss_pred HHHHHHCCC
Confidence 666777775
No 485
>PRK11914 diacylglycerol kinase; Reviewed
Probab=34.88 E-value=2.6e+02 Score=29.97 Aligned_cols=80 Identities=6% Similarity=-0.086 Sum_probs=50.2
Q ss_pred HcCCeEEEEEEEcCC-cCC--ChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHH
Q 002352 148 AFGWREAVPIYVDNQ-YGE--EMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRI 224 (932)
Q Consensus 148 ~~~w~~v~ii~~d~~-~g~--~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l 224 (932)
+...+++.+|+.-.. -|. ...+.+.+.+++.|..+..... ....+.....+++...+.|+||+.+.......+
T Consensus 5 ~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t----~~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ev 80 (306)
T PRK11914 5 RHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVG----TDAHDARHLVAAALAKGTDALVVVGGDGVISNA 80 (306)
T ss_pred cCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEe----CCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 345578888884322 122 2355677788888877543322 223456666666666778888887777777777
Q ss_pred HHHHHhC
Q 002352 225 FEKANEI 231 (932)
Q Consensus 225 ~~~a~~~ 231 (932)
+..+...
T Consensus 81 v~~l~~~ 87 (306)
T PRK11914 81 LQVLAGT 87 (306)
T ss_pred hHHhccC
Confidence 7666543
No 486
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=34.86 E-value=1.6e+02 Score=27.83 Aligned_cols=99 Identities=11% Similarity=0.020 Sum_probs=55.5
Q ss_pred cccCchhHHHHHHHHHHHcCCeEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCce
Q 002352 131 GSLNDSSQVGAITAIIKAFGWREAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTR 210 (932)
Q Consensus 131 ~~ps~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 210 (932)
+++.-..|++.+++.++..+..--.++.+.-......++.+.+.+.. ...+.....+.+.....++...+..+.....+
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 44555678899999998765433344444433333333434333311 12232222333233445666777776655566
Q ss_pred EEEEEeChhhHHHHHHHHHh
Q 002352 211 VFILHMLPSLGSRIFEKANE 230 (932)
Q Consensus 211 viil~~~~~~~~~l~~~a~~ 230 (932)
.+++.+.......++.++-.
T Consensus 102 ~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 102 SVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred EEEEEeCCCCHHHHHHHHhC
Confidence 77777777777778877654
No 487
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=34.52 E-value=3.8e+02 Score=27.13 Aligned_cols=91 Identities=14% Similarity=0.070 Sum_probs=48.9
Q ss_pred CCcEEEEcChhHHHHHHhcCCCcccccc-cCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcceEEeccccccc
Q 002352 673 GDNVGYRKDSFVFGILKQLGFDEKKLIA-YSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKYTLIERTFETA 751 (932)
Q Consensus 673 ~~~vg~~~~s~~~~~l~~~~~~~~~~~~-~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 751 (932)
+++|++.--...+.||++.+.+ ..++. ..+.|- +-..|- .|++++=...-.-+.++ .|.++...+.+
T Consensus 115 ~~rIATkYp~it~~yf~~~gv~-~~iv~l~GsvE~---aP~~Gl----AD~IvDivsTG~TLr~N---gL~~ie~Il~s- 182 (215)
T PRK01686 115 RLRVATKYPNIARRYFAEKGEQ-VEIIKLYGSVEL---APLVGL----ADAIVDIVETGNTLRAN---GLVEVEEIMDI- 182 (215)
T ss_pred CCEEEeCCHHHHHHHHHHcCCe-EEEEECcCceee---ccccCC----ccEEEEeecChHHHHHC---cCEEeeEEEee-
Confidence 6788887667778899887764 33333 333332 223344 56666644433333333 35666555544
Q ss_pred ceEEEecCCCCC--hHHHHHHHHhhh
Q 002352 752 GFGFAFPLHSPL--VPEVSRAILNVT 775 (932)
Q Consensus 752 ~~~~~~~k~s~l--~~~in~~il~l~ 775 (932)
.-.++..+.|.. .+.++..+.++.
T Consensus 183 ~A~LI~n~~s~~~k~~~i~~l~~~l~ 208 (215)
T PRK01686 183 SARLIVNRASLKLKREEIRPLIEKLR 208 (215)
T ss_pred EEEEEEecccchhhHHHHHHHHHHHH
Confidence 444555666542 245555555553
No 488
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=34.04 E-value=1.2e+02 Score=31.59 Aligned_cols=77 Identities=10% Similarity=-0.000 Sum_probs=50.0
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHHHh
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSL-GSRIFEKANE 230 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~l~~~a~~ 230 (932)
+++|.. ++.|...+...+.+++++.|.++... ........-...++++.+.++|.||+...... ....++.+.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~ 78 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVEL---SAENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQ 78 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEe---cCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHH
Confidence 566654 36666777888888899999887542 11223333446677777789999987654332 3456777777
Q ss_pred CCc
Q 002352 231 IGL 233 (932)
Q Consensus 231 ~g~ 233 (932)
.|.
T Consensus 79 ~~i 81 (277)
T cd06319 79 AKI 81 (277)
T ss_pred CCC
Confidence 765
No 489
>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=33.79 E-value=1.6e+02 Score=30.58 Aligned_cols=76 Identities=17% Similarity=0.084 Sum_probs=49.5
Q ss_pred EEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++.. ++.+...+...+.+++++.|..+.... ...+.......++++.+.+.|.+|+..... ....++.+.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SGYDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhC
Confidence 566664 466677778889999999998876531 122334455677778888899888764432 23455666666
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 64
No 490
>cd08487 PBP2_BlaA The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold. This CD represents the C-terminal substrate binding domain of LysR-type transcriptional regulator, BlaA, that involved in control of the expression of beta-lactamase genes, blaA and blaB. Beta-lactamases are responsible for bacterial resistance to beta-lactam antibiotics such as penicillins. The blaA gene is located just upstream of blaB in the opposite direction and regulates the expression of the blaB. BlaA also negatively auto-regulates the expression of its own gene, blaA. BlaA (a constitutive class A penicllinase) belongs to the LysR family of transcriptional regulators, whereas BlaB (an inducible class C cephalosporinase or AmpC) can be referred to as a penicillin binding protein but it does not act as a beta-lactamase. The topology of this substrate-binding domain is
Probab=33.54 E-value=4.2e+02 Score=25.03 Aligned_cols=99 Identities=12% Similarity=0.064 Sum_probs=47.4
Q ss_pred CHHHHHhCCCcEEE-EcChhHHHHHHhcCCCcccc--cccCCHHHHHHHhhcccCCCceeEEEecccccccccccCCcce
Q 002352 665 DFQMLIKSGDNVGY-RKDSFVFGILKQLGFDEKKL--IAYSSPEECDELFQKGSAGGGIAAAFDEIPYTKPFIGQYCSKY 741 (932)
Q Consensus 665 s~~dL~~~~~~vg~-~~~s~~~~~l~~~~~~~~~~--~~~~~~~~~~~~l~~g~~~~g~~a~~~~~~~~~~~~~~~~~~l 741 (932)
+++||. +.++-. .......+++.+.+...... ...++.....+.+..|. ..+++.+..... ......- .
T Consensus 85 ~~~~l~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~~p~~~~~~-~~~~~~l-~ 156 (189)
T cd08487 85 HPADLI--NETLLRSYRTDEWLQWFEAANMPPIKIRGPVFDSSRLMVEAAMQGA----GVALAPAKMFSR-EIENGQL-V 156 (189)
T ss_pred CHHHHh--cCceeecCCchHHHHHHHHcCCCCccccCCccccHHHHHHHHHhCC----CeEeehHHHHHH-HHhCCCE-E
Confidence 467777 333322 12122344555544432211 24567777888888887 455554432222 1122110 1
Q ss_pred EEecccccccceEEEecCCCCChHHHHHHH
Q 002352 742 TLIERTFETAGFGFAFPLHSPLVPEVSRAI 771 (932)
Q Consensus 742 ~~~~~~~~~~~~~~~~~k~s~l~~~in~~i 771 (932)
..+........++++.+|+.+....+...+
T Consensus 157 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~ 186 (189)
T cd08487 157 QPFKIEVETGSYWLTWLKSKPMTPAMELFR 186 (189)
T ss_pred cccCcccCCCcEEEEecccccCCHHHHHHH
Confidence 122222233456677788777666555444
No 491
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=33.47 E-value=1.5e+02 Score=30.44 Aligned_cols=76 Identities=11% Similarity=-0.035 Sum_probs=49.4
Q ss_pred EEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHhC
Q 002352 154 AVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKANEI 231 (932)
Q Consensus 154 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a~~~ 231 (932)
|+++..+ +.|...+...+++++++.|.++..... ..+.+.....++++...++|.+|+...... ..++..+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~ 77 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIKKL 77 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 4556543 455567788888999999988764322 223344556777788889999998754322 3455666665
Q ss_pred Cc
Q 002352 232 GL 233 (932)
Q Consensus 232 g~ 233 (932)
|.
T Consensus 78 ~i 79 (259)
T cd01542 78 NV 79 (259)
T ss_pred CC
Confidence 53
No 492
>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=33.44 E-value=2.7e+02 Score=26.74 Aligned_cols=46 Identities=17% Similarity=0.239 Sum_probs=33.5
Q ss_pred CHHHHHHHHHHHHhcCCeEEEEccCCh--hHHHHHHHhcCCCCccEEeccc
Q 002352 67 DVVAAAAAALDLLNNVLVQAILGPEKS--MQTNFIIQLGNKSQVPILSFSA 115 (932)
Q Consensus 67 ~~~~a~~~a~~li~~~~v~aiiGp~~s--~~a~~v~~~~~~~~iP~Is~~a 115 (932)
+|..+++... ..++...++|+... .....+..++++.++|+++...
T Consensus 16 ~p~~aa~lLk---~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 16 SPKLVAMMIK---RAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred CHHHHHHHHH---cCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 4544443332 23689999998764 7788999999999999998543
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=33.28 E-value=3.3e+02 Score=24.16 Aligned_cols=58 Identities=14% Similarity=0.076 Sum_probs=29.3
Q ss_pred hHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe-Chhh---HHHHHHHHHh
Q 002352 167 MIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM-LPSL---GSRIFEKANE 230 (932)
Q Consensus 167 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~---~~~l~~~a~~ 230 (932)
....+...+++.|.++..... .... ....+.+++.++|+|.+.+ .... +..+.+.+++
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~---~~~~---~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~ 77 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDA---NVPP---EELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKE 77 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEES---SB-H---HHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHCCCeEEEECC---CCCH---HHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHh
Confidence 455666666666766654311 1111 3344445556777777765 3322 3444444444
No 494
>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=33.26 E-value=2.1e+02 Score=30.84 Aligned_cols=80 Identities=15% Similarity=0.092 Sum_probs=51.9
Q ss_pred CeEEEEEEEc--CCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002352 151 WREAVPIYVD--NQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPSLGSRIFEKA 228 (932)
Q Consensus 151 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~l~~~a 228 (932)
-+.++++..+ +.|...+...+.+.+.+.|..+..... ..+.......+..+...+.|.+|+..........+.++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 136 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS---DDNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKL 136 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHH
Confidence 4578888753 566677788899999999988764322 12223344567777788899988865432123455666
Q ss_pred HhCCc
Q 002352 229 NEIGL 233 (932)
Q Consensus 229 ~~~g~ 233 (932)
.+.|+
T Consensus 137 ~~~~i 141 (327)
T TIGR02417 137 QNEGL 141 (327)
T ss_pred HhcCC
Confidence 66664
No 495
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=32.80 E-value=4.3e+02 Score=27.80 Aligned_cols=109 Identities=6% Similarity=0.069 Sum_probs=59.3
Q ss_pred HHHHHHHHHHhcCCCCCCcEEEEEEecCCCCHHHHHHHHHHHHhcCCeEEEEccCCh-hHHHHHHHhcCCCCccEEeccc
Q 002352 37 SCINMSLSDFYNSNSHYKTRLLLNTRNSKGDVVAAAAAALDLLNNVLVQAILGPEKS-MQTNFIIQLGNKSQVPILSFSA 115 (932)
Q Consensus 37 ~a~~lAv~~iN~~~~~~g~~l~~~~~D~~~~~~~a~~~a~~li~~~~v~aiiGp~~s-~~a~~v~~~~~~~~iP~Is~~a 115 (932)
.++.-.+.++|.. +++..++..-++. ...+++.. +.+.||-...+ ..-..+...|.+.++|+|+.++
T Consensus 87 e~~~~rl~~INP~-------~~V~~i~~~i~~e----~~~~ll~~-~~D~VIdaiD~~~~k~~L~~~c~~~~ip~I~~gG 154 (268)
T PRK15116 87 EVMAERIRQINPE-------CRVTVVDDFITPD----NVAEYMSA-GFSYVIDAIDSVRPKAALIAYCRRNKIPLVTTGG 154 (268)
T ss_pred HHHHHHHHhHCCC-------cEEEEEecccChh----hHHHHhcC-CCCEEEEcCCCHHHHHHHHHHHHHcCCCEEEECC
Confidence 3455556666643 2333334332322 23344433 57777766555 4556788899999999998765
Q ss_pred CCCCccCCCCCceEecccCch----hHHHHHHHHHHH-cCCe-------EEEEEEEcC
Q 002352 116 TSPSLTSIRSSYFFRGSLNDS----SQVGAITAIIKA-FGWR-------EAVPIYVDN 161 (932)
Q Consensus 116 ~~~~l~~~~~p~~~r~~ps~~----~~~~ai~~~l~~-~~w~-------~v~ii~~d~ 161 (932)
....+ .|.-+++.-=.. ..++.+-..+++ +|.+ .+-++|+..
T Consensus 155 ag~k~----dp~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 155 AGGQI----DPTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred cccCC----CCCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 54333 355555543222 234444444554 5553 266666543
No 496
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=32.26 E-value=3.7e+02 Score=27.07 Aligned_cols=49 Identities=18% Similarity=0.179 Sum_probs=30.6
Q ss_pred cCCCCHHHHHHHHHHHHhc---CCeEEEEccCChhHHHHHHHhcCCCCccEEec
Q 002352 63 NSKGDVVAAAAAALDLLNN---VLVQAILGPEKSMQTNFIIQLGNKSQVPILSF 113 (932)
Q Consensus 63 D~~~~~~~a~~~a~~li~~---~~v~aiiGp~~s~~a~~v~~~~~~~~iP~Is~ 113 (932)
|...|...++.....++.+ +||+||+=...+. -.+..+-+...+|+|..
T Consensus 46 eg~~de~~a~~~~l~ei~~~~~~GvdaiiIaCf~D--Pgl~~~Re~~~~PviGi 97 (230)
T COG4126 46 EGQEDEALAAPGLLREIADGEEQGVDAIIIACFSD--PGLAAARERAAIPVIGI 97 (230)
T ss_pred cCcchHHHhhhHHHHHhhcccccCCcEEEEEecCC--hHHHHHHHHhCCCceeh
Confidence 4455666777666666664 5688887655555 33444445667888764
No 497
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=32.04 E-value=2.1e+02 Score=31.43 Aligned_cols=76 Identities=12% Similarity=-0.048 Sum_probs=49.7
Q ss_pred HHHHHHHHHcCC--eEEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcC---CceEEEE
Q 002352 140 GAITAIIKAFGW--REAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTM---QTRVFIL 214 (932)
Q Consensus 140 ~ai~~~l~~~~w--~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil 214 (932)
..+.++++.++. +++.+++...-. . ..+.+.|++.|+.+..-..+..+++.++..+..+..++. ++|+||-
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvtd~~~~--~--~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIa 87 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFVDDVFQ--G--KDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVG 87 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEECcchh--h--hHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEE
Confidence 446677777763 556666632222 1 567778888787654434455667777788887777776 8999997
Q ss_pred EeChh
Q 002352 215 HMLPS 219 (932)
Q Consensus 215 ~~~~~ 219 (932)
.+.+.
T Consensus 88 iGGGS 92 (347)
T cd08184 88 IGGGS 92 (347)
T ss_pred eCCcH
Confidence 76554
No 498
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=31.89 E-value=1.6e+02 Score=31.17 Aligned_cols=80 Identities=8% Similarity=0.040 Sum_probs=54.1
Q ss_pred CeEEEEEEE--cCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEeChh-hHHHHHHH
Q 002352 151 WREAVPIYV--DNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHMLPS-LGSRIFEK 227 (932)
Q Consensus 151 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~l~~~ 227 (932)
-+.++++.. +++|-......+.+++++.|..+..... ..+.+.....++++...+.+.+|+..... .....++.
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~---~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS---QNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 467888875 3566777888899999999988765321 12333445667777778899887765433 33456777
Q ss_pred HHhCCc
Q 002352 228 ANEIGL 233 (932)
Q Consensus 228 a~~~g~ 233 (932)
+++.|+
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777665
No 499
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=31.75 E-value=6.7e+02 Score=26.85 Aligned_cols=72 Identities=11% Similarity=0.073 Sum_probs=43.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeccCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecc-------ccccccccccccc
Q 002352 470 GYSIAVFKAVIEELPYAVAYDFVPYAQPDGTSSGSYNDLMYQVFRGKFDAVVGDTTILAN-------RSKFVEFTLPYTE 542 (932)
Q Consensus 470 G~~~dl~~~la~~l~f~~~~~~~~~~~~~g~~ngs~~~li~~l~~g~~D~~~~~~~it~~-------R~~~vdfs~p~~~ 542 (932)
.+-.+++..+.+..+ .+++++... +. ..+..|.+|++|+++........ +...++ +.|...
T Consensus 110 ~~~~~~l~~f~~~~P-~v~v~i~~~---------~~-~~~~~l~~g~~D~~i~~~~~~~~~~~~~~~~~~~~~-~~~l~~ 177 (319)
T PRK10216 110 IMLNALSKRIYQRYP-QATIKLRNW---------DY-DSLDAITRGEVDIGFTGRESHPRSRELLSLLPLAID-FEVLFS 177 (319)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEEeC---------Cc-chHHHHhcCCccEEEecCCCCccccccccccccccc-eeeeee
Confidence 455688888888876 356666432 22 36899999999998863211110 011222 355666
Q ss_pred cCeEEEEEccC
Q 002352 543 SGVSMIVPIKD 553 (932)
Q Consensus 543 ~~~~~lv~~~~ 553 (932)
...++++++..
T Consensus 178 ~~~~~v~~~~h 188 (319)
T PRK10216 178 DLPCVWLRKDH 188 (319)
T ss_pred cceEEEEeCCC
Confidence 77788887653
No 500
>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=31.45 E-value=3.3e+02 Score=27.10 Aligned_cols=89 Identities=13% Similarity=-0.039 Sum_probs=0.0
Q ss_pred EEEEEEEcCCcCCChHHHHHHHHHhCCceeeeeeecCCCCChhHHHHHHHHHhcCCceEEEEEe----ChhhHHHHHHHH
Q 002352 153 EAVPIYVDNQYGEEMIPSLTDALQAIDTRVPYRSVISPLATDDQIEKELYKLFTMQTRVFILHM----LPSLGSRIFEKA 228 (932)
Q Consensus 153 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~----~~~~~~~l~~~a 228 (932)
+|.+....++...-...-+...|+..|.+|.+- ..+......+..+.+.++|+|-+.+ .......+++++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~L------G~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~l 159 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDL------GRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDKL 159 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEEC------CCCCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHHH
Q ss_pred HhCCccccceEEEEecccc
Q 002352 229 NEIGLMNKGCVWIMTEGMT 247 (932)
Q Consensus 229 ~~~g~~~~~~~wi~t~~~~ 247 (932)
++.|....-.+|++.....
T Consensus 160 ~~~~~~~~v~i~vGG~~~~ 178 (197)
T TIGR02370 160 KEEGYRDSVKFMVGGAPVT 178 (197)
T ss_pred HHcCCCCCCEEEEEChhcC
Done!